1. Capobianco, G., Chialva, U., & Rotstein, H. G. (2026). Data-Based Dynamical Systems Reconstruction: An Adequacy/Reliability Test. https://arxiv.org/abs/2606.24873
   ABSTRACT

   @unpublished{capobianco2026databaseddynamicalsystemsreconstruction,
     title = {Data-Based Dynamical Systems Reconstruction: An Adequacy/Reliability Test},
     author = {Capobianco, Guillermo and Chialva, Ulises and Rotstein, Horacio G.},
     year = {2026},
     url = {https://arxiv.org/abs/2606.24873},
     eprint = {2606.24873},
     archiveprefix = {arXiv},
     primaryclass = {math-ph}
   }
   

   In this work, we address the problem of validating the reconstruction of a stochastic system from noisy data. We demonstrate the limitations of criteria based solely on the loss function or on standard metrics used for reconstructing deterministic dynamics. We also propose an exploratory approach, based on a two-step test, which allows for a general assessment of the reconstruction without relying on arbitrary error-tolerance thresholds. However, we discuss how system degeneracy and non-identifiability, together with features intrinsic to stochastic dynamics, impose certain constraints on the application of this test.)

2026

1. Bouju, V., Chény, C., Gotzek, D., Perrichot, V., Fernandez, F., Barden, P., & Fiorentino, G. (2026). Solenopsis (Hymenoptera, Formicidae) thief ants in Dominican amber and putative subfossil resin. Fossil Record, 29(2), 499–517. https://doi.org/10.3897/fr.29.181268
   DOI ABSTRACT

   @article{Bouju26,
     title = {Solenopsis (Hymenoptera, Formicidae) thief ants in Dominican amber and putative subfossil resin},
     author = {Bouju, Valentine and Chény, Cédric and Gotzek, Dietrich and Perrichot, Vincent and Fernandez, Fernando and Barden, Phillip and Fiorentino, Gianpiero},
     year = {2026},
     journal = {Fossil Record},
     publisher = {Pensoft Publishers},
     volume = {29},
     number = {2},
     pages = {499--517},
     doi = {10.3897/fr.29.181268},
     issn = {2193-0066},
     url = {https://doi.org/10.3897/fr.29.181268},
     eprint = {https://doi.org/10.3897/fr.29.181268}
   }
   

   Solenopsis is a diverse genus of myrmicine ants with a global distribution. Several extinct species have been described but these occurrences are limited to the Palaearctic as imprint fossils. Wilson (1985, 1988) mentioned specimens of Solenopsis preserved in Dominican amber (Middle Miocene, ca. 16 Ma), though these have not been formally described. Through ethanol exposure and Raman spectroscopy, we assessed the provenance of several putative amber specimens in museum collections. We identified multiple instances of labeled amber specimens that are instead most likely subfossil copal or recent resin – these include specimens in a historical collection. Based on material with provenance and properties consistent with fossil resin, or, amber, we report five new fossil species of minor workers attributed to the genus Solenopsis: S. lamellata sp. nov., S. pilonaria sp. nov., S. merengue sp. nov., S. viralata sp. nov., and S. picapica sp. nov. One of the species described, S. lamellata sp. nov., is highly aberrant, possessing a spine-like lamella on the posterior margin of the propodeum, a trait not shared with any known Solenopsis species. The discovery of these five fossil species sheds light on the biogeographic history of the genus Solenopsis. Beyond ants, these results highlight the need for caution in assuming the provenance of specimens from museum collections and commercial sources.

2. Bucher, D. M., Daur, N., Varughese, A., Schneider, A. C., & Nadim, F. (2026). High-Pass Filtering through Short-Term Synaptic Facilitation Amplifies Low-Frequency Modulation of Bursting Input [Journal Article]. The Journal of Neuroscience, 46(3), e1652252025. https://doi.org/10.1523/jneurosci.1652-25.2025
   DOI ABSTRACT

   @article{RN4354,
     title = {High-Pass Filtering through Short-Term Synaptic Facilitation Amplifies Low-Frequency Modulation of Bursting Input},
     author = {Bucher, Dirk M. and Daur, Nelly and Varughese, Abigail and Schneider, Anna C. and Nadim, Farzan},
     year = {2026},
     journal = {The Journal of Neuroscience},
     volume = {46},
     number = {3},
     pages = {e1652252025},
     doi = {10.1523/jneurosci.1652-25.2025},
     url = {https://www.jneurosci.org/content/jneuro/46/3/e1652252025.full.pdf},
     type = {Journal Article}
   }
   

   Regular rhythmic activity typically produces stereotypical synaptic responses, masking dynamics due to short-term synaptic plasticity (STP). Multiple-frequency (e.g., Poisson-like) inputs unveil canonical STP effects where facilitation or depression, respectively, favor high- or low-frequency inputs, and a mix of both favors intermediate frequencies. Notably, regular activity with multiple oscillatory components can produce synaptic responses that are not readily surmisable from canonical STP responses. In the responses of rhythmically activated muscles of the lobster (Homarus americanus), of either sex, slow modulation of bursting inputs, consisting of periodic changes in burst frequency and spike number, is amplified by dynamic neuromuscular synapses. Using a simple STP model, we demonstrate that facilitation enhances the difference (contrast) in responses to strong and weak bursts, while depression diminishes it. Nonintuitively, such changes in contrast imply that high-pass filtering enhances low-frequency components of the modulated bursting, whereas low-pass filtering attenuates them. For mixtures of facilitation and depression, our modeling results suggest a complex dependence of the readout of slow modulation on overall release probability and recovery times for vesicle depletion and calcium accumulation. Notably, these effects are reduced when the recovery time of STP exceeds the burst period and thereby allows a memory of prior activity across consecutive bursts. Additionally, with memory across bursts, response contrast does not change proportionally with input contrast and depends on the number of bursts per slow modulation cycle. Finally, a biophysical model of a postsynaptic cell demonstrates that simple subthreshold voltage-gated conductances can substantially contribute to the readout of low-frequency modulation.

3. Fiorentino, G., Bouju, V., Sosa, D., Navarro, S., & Barden, P. (2026). The ant genus Hypoponera (Hymenoptera: Formicidae) in Dominican amber. Journal of Paleontology, 1–5. https://doi.org/10.1017/jpa.2025.10213
   DOI ABSTRACT

   @article{Fiorentino2026,
     title = {The ant genus Hypoponera (Hymenoptera: Formicidae) in Dominican amber},
     author = {Fiorentino, Gianpiero and Bouju, Valentine and Sosa, Diyael and Navarro, Santo and Barden, Phillip},
     year = {2026},
     journal = {Journal of Paleontology},
     pages = {1–5},
     doi = {10.1017/jpa.2025.10213}
   }
   

   Hypoponera Santschi, 1938 is a genus of ponerine ants, well known for its simplified morphology, lacking any clear autopomorphy, and its cosmopolitan distribution. Here, we describe the first Hypoponera in Dominican amber. The discovery of Hypoponera electrocacica new species confirms the long-expected presence of the genus in the Caribbean Miocene. The modern diversity of Hypoponera in the Greater Antilles now stands at five species and two putative subspecies.

4. Hyland Bruno, J., & Mercado, E. (2026). Assessing the Role of Vocal Plasticity in Sociospatial Coordination. Animals, 16(6), 890. https://doi.org/https://doi.org/10.3390/ani16060890
   DOI ABSTRACT

   @article{HYLANDBRUNO2026111111,
     title = {Assessing the Role of Vocal Plasticity in Sociospatial Coordination},
     author = {Hyland Bruno, Julia and Mercado, Eduardo},
     year = {2026},
     journal = {Animals},
     volume = {16},
     number = {6},
     pages = {890},
     doi = {https://doi.org/10.3390/ani16060890},
     url = {https://www.mdpi.com/2076-2615/16/6/890},
     keywords = {active sensing, auditory plasticity, cetacean, communication, spatial hearing, sound localization, vocal learning, vocal interaction}
   }
   

   Studies of vocal communication often focus on the messages that calls and songs convey related to reproductive activities, foraging, predator avoidance, social bonding, individual recognition, and conflict resolution. We consider ways in which vocalizations may dynamically mediate social interactions at a more basic level, through collective coordination of movements and the enhancement of spatial perception. From this perspective, animals may vocalize to probe the locations, movements, and intentions of others, to manipulate position changes by listeners, or to increase their own capacity to localize sounds. An animal’s capacity to flexibly adjust vocalizations, both in real-time and over longer periods, can increase their ability to monitor and influence conspecifics independently of any information that may be encoded within those vocalizations. Beyond simply conveying messages, reproductive fitness, or emotional states, an animal’s ability to modulate vocalizations may dynamically affect its future action plans and social roles within a group. Identifying situational, life-history, and sociospatial factors that determine how animals vocally interact in real-time is key to understanding how an animal’s vocalizations relate to its own actions and the actions of others.

5. Hyland Bruno, J., Mercado, E., Tietjen, N., Levin, I., & Ryan, M. (2026). Vocal interactions between singing humpback whales, Megaptera novaeangliae. Animal Behaviour, 234, 123458. https://doi.org/https://doi.org/10.1016/j.anbehav.2025.123458
   DOI ABSTRACT

   @article{HYLANDBRUNO2026123458,
     title = {Vocal interactions between singing humpback whales, Megaptera novaeangliae},
     author = {Hyland Bruno, Julia and Mercado, Eduardo and Tietjen, Niko and Levin, Isabel and Ryan, Mary},
     year = {2026},
     journal = {Animal Behaviour},
     volume = {234},
     pages = {123458},
     doi = {https://doi.org/10.1016/j.anbehav.2025.123458},
     issn = {0003-3472},
     url = {https://www.sciencedirect.com/science/article/pii/S0003347225003859},
     keywords = {acoustic monitoring, bioacoustics, cetacean, communication, masking interference, song, vocal production, whale song}
   }
   

   Humpback whales construct predictably patterned sequences within multihour sessions of sound production. These sequences (called ’songs’) are some of the most structurally and acoustically complex vocal patterns produced by any mammal. Humpback whale song production is highly dynamic in that individuals constantly modify the properties of songs across multiple timescales throughout their adult lives. Past analyses of co-vocalizing humpback whales suggest that singers within earshot of one another may dynamically and interactively adjust their vocalizations in reaction to what they hear. The current study investigated whether singing humpback whales coordinate their production of concurrent songs either by overlapping similar sound patterns more than expected by chance or by modulating the spectral properties of sound sequences, thereby decreasing acoustic interference. Our results show that the vocal adjustments co-singing humpback whales make are diverse and appear to depend on the acoustic context. No evidence was found of singers adjusting the number or timing of sound pattern repetitions to alter pattern overlap. In contrast, most singers modified the spectral features of sound patterns after a second singer began singing. Co-singers appeared to intermittently alter produced pitches in reaction to each other’s vocal actions, suggesting that singing humpbacks attend to other audible singers and may sometimes alter song content to initiate social interactions from long distances. Understanding how and when singing whales vocally interact can provide new insights into the various roles singing plays in coordinating vertebrate behaviour.

6. King, A. J., Henry, E. G., Garnier, S., Allen, W. L., Heathcote, R. J. P., Fele, M., Papadopoulou, M., Sankey, D. W. E., & Fürtbauer, I. (2026). Evolutionary spandrels in collective animal behaviour. Trends in Ecology & Evolution. https://doi.org/10.1016/j.tree.2026.07.011
   DOI ABSTRACT

   @article{spandrels1,
     title = {Evolutionary spandrels in collective animal behaviour},
     author = {King, Andrew J. and Henry, Ella G. and Garnier, Simon and Allen, William L. and Heathcote, Robert J.P. and Fele, Marco and Papadopoulou, Marina and Sankey, Daniel W.E. and F{\"u}rtbauer, Ines},
     year = {2026},
     month = aug,
     journal = {Trends in Ecology {\&} Evolution},
     publisher = {Elsevier},
     doi = {10.1016/j.tree.2026.07.011},
     issn = {0169-5347},
     url = {https://doi.org/10.1016/j.tree.2026.07.011}
   }
   

   Collective behaviour is widespread in the animal kingdom and can enhance individual fitness. Yet not all collective behaviours are adaptations. Instead, some may be nonadaptive or ’evolutionary spandrels’—traits that originated as by-products in the sense proposed by Stephen Jay Gould and Richard Lewontin. Here, we argue that self-organising processes provide a route through which evolutionary spandrels in collective animal behaviour can occur, and we provide three examples: spatial organisation in primate groups, division of labour in ants, and insect chorusing. We then consider how such outcomes may be co-opted into adaptive roles through exaptation and conclude by outlining the challenges associated with testing adaptive and nonadaptive hypotheses in collective behaviour research using individual-based studies, phylogenetic comparative analyses, and agent-based models.

7. Loewen, E. J. T., Libke, C., Sosiak, C., Barden, P., Somers, C., & McKellar, R. C. (2026). Ants (Hymenoptera: Formicidae) preserved in amber shed light on faunal turnover and ecological roles before the end-Cretaceous extinction. Insect Systematics and Diversity, 10(4). https://doi.org/10.1093/isd/ixag027
   DOI ABSTRACT

   @article{ixag027,
     title = {Ants (Hymenoptera: Formicidae) preserved in amber shed light on faunal turnover and ecological roles before the end-Cretaceous extinction},
     author = {Loewen, Elyssa J T and Libke, Caelan and Sosiak, Christine and Barden, Phillip and Somers, Christopher and McKellar, Ryan C},
     year = {2026},
     month = jul,
     journal = {Insect Systematics and Diversity},
     volume = {10},
     number = {4},
     doi = {10.1093/isd/ixag027},
     issn = {2399-3421},
     url = {https://doi.org/10.1093/isd/ixag027},
     eprint = {https://academic.oup.com/isd/article-pdf/10/4/ixag027/68759171/ixag027.pdf}
   }
   

   Substantial gaps in the ant fossil record surrounding the end-Cretaceous mass extinction have obscured the timing of early crown ant radiations and their palaeoecological diversity. Here, we describe two partial fossil ants (Formicidae: Pseudomyrmecinae; Formicidae: Aneuretinae) from Late Cretaceous Big Muddy amber (∼67.04 Ma). These are the oldest definitive representatives of Aneuretinae and Pseudomyrmecinae, extending their fossil records back into the Late Cretaceous and expanding their known spatiotemporal ranges. We used a broad extant ecomorphological dataset to evaluate the accuracy of Random Forest machine-learning classification for predicting the palaeoecology of partial ant fossils and to compare the inferred ecological niches of the Big Muddy ants and their respective extinct Cenozoic consubfamilials with those of their extant close relatives. We show that even with a limited subset of morphological traits, Random Forest models can generate accurate ecological predictions; however, model reliability is significantly impacted by the exclusion of sensory traits and the presence of flexible ecology. The Big Muddy pseudomyrmecine was recovered as terricolous, in contrast to the arboreal ecology of its Cenozoic and extant relatives, suggesting the transition to arboreal habitats may have occurred after the end-Cretaceous mass extinction. While the Big Muddy aneruetine results were not robust, its Cenozoic relatives were also reconstructed as terricolous and were more ecologically diverse than their sole living relative, the relictual Aneuretus simoni Emery, 1893. The presence of these subfamilies in Big Muddy amber supports the hypothesized timing of a major radiation of ecologically and taxonomically diverse crown ant subfamilies in the Late Cretaceous alongside flowering plants.

8. Napoli, M., Garnier, S., & Porfiri, M. (2026). Nest-Level Phase Transition Drives Synchronized Activity Bursts in Ant Colonies. PRX Life, 4(3), 033010. https://doi.org/10.1103/ghnl-p5c1
   DOI ABSTRACT

   @article{ghnlp5c1,
     title = {Nest-Level Phase Transition Drives Synchronized Activity Bursts in Ant Colonies},
     author = {Napoli, Michael and Garnier, Simon and Porfiri, Maurizio},
     year = {2026},
     month = aug,
     journal = {PRX Life},
     publisher = {American Physical Society},
     volume = {4},
     pages = {033010},
     doi = {10.1103/ghnl-p5c1},
     url = {https://link.aps.org/doi/10.1103/ghnl-p5c1},
     issue = {3},
     numpages = {15}
   }
   

   Many natural complex systems exhibit synchronization, characterized by temporal coherence among the dynamics of their units. In ant colonies, synchronization manifests through activity bursts: sudden, sharp spikes of motion by a significant portion of workers throughout the nest, followed by durations of quiescence. These activity bursts were discovered three decades ago and studied since then; yet, the mechanisms that lead to their emergence remain elusive. Here, we present a model of ant activity that integrates both the motion of individuals within the nest and the transitions between behavioral states. By balancing microscopic behaviors in the model, we identify a nest-level phase transition from unsynchronized to synchronized activity and draw several connections between model predictions and empirical observations in the literature. Our analysis begets two key insights: (i) activity bursts emerge as a balance between the responsiveness of the colony to the first ant that activates and the ability of the colony to completely deactivate before the onset of the next burst, and (ii) the timescale of the motion of individuals through the nest is faster than that of the burst, suggesting that ants operate in a high-speed interaction regime where new behaviors are near-instantaneously transferred through the nest. We relate these findings to the broader literature on synchronization in complex systems, highlighting the need for periods of quiescence followed by the rapid communication of a new behavior through a population of connected units.

9. Newton, L. G., Abbott, J. C., Bybee, S. M., Carter, P., Frandsen, P. B., Goodman, A., Guralnick, R., Hahn, B., Idec, J., Kalkman, V. J., Kolhi, M., Fomekong-Lontchi, J., Lupiyanigdyah, P., Onsongo, V., Rowe, E., Sanchez-Herrera, M., Pinkert, S., Sutherland, L., Tolman, E., … Ware, J. L. (2026). Soaring Systematics: an evaluation of biogeography and flight behavior in dragonflies and damselflies (Insecta: Odonata) using phylogenomics. Systematic Biology, syag005. https://doi.org/10.1093/sysbio/syag005
   DOI ABSTRACT

   @article{syag005,
     title = {Soaring Systematics: an evaluation of biogeography and flight behavior in dragonflies and damselflies (Insecta: Odonata) using phylogenomics},
     author = {Newton, Lacie G and Abbott, John C and Bybee, Seth M and Carter, Payton and Frandsen, Paul B and Goodman, Aaron and Guralnick, Robert and Hahn, Brittney and Idec, Jacob and Kalkman, Vincent J and Kolhi, Manpreet and Fomekong-Lontchi, Judica\"{e}l and Lupiyanigdyah, Pungki and Onsongo, Violet and Rowe, Emma and Sanchez-Herrera, Melissa and Pinkert, Stefan and Sutherland, Laura and Tolman, Ethan and Uche-Dike, Rhema and Barden, Phil and Belitz, Michael and Bota-Sierra, Cornelio A and Cordero-Rivera, Adolfo and C\'{o}rdoba-Aguilar, Alex and Dijkstra, Klaas-Douwe B and Dow, Rory A and Ehlert, Juliana and Ferreira, Rhainer G and H\"{a}m\"{a}l\"{a}inen, Matti and Juen, Leandro and Lorenzo-Carballa, M Olalla and Mauffray, Bill and Nielsen, Anne L and Pessacq, Pablo and Pham, Thai Hong and Pinto, \^{A}ngelo Parise and Richards, Stephen J and Salas, Ruth and Skevington, Jeffrey H and Theischinger, Gunther and Zhang, Haomiao and Ware, Jessica L},
     year = {2026},
     month = jan,
     journal = {Systematic Biology},
     pages = {syag005},
     doi = {10.1093/sysbio/syag005},
     issn = {1063-5157},
     url = {https://doi.org/10.1093/sysbio/syag005},
     eprint = {https://academic.oup.com/sysbio/advance-article-pdf/doi/10.1093/sysbio/syag005/66537766/syag005.pdf}
   }
   

   Dragonflies and damselflies (Insecta: Odonata) are descended from what were most likely the first winged animals, which flew ∼320 million years ago (Ma). They comprise ∼6400 extant species distributed across all continents except Antarctica. Examination of long-standing hypotheses regarding the role of flight behavior and wing morphology in shaping the global distribution of odonates has been limited by spatial and taxonomic scope. Here we leverage mobilized trait and distribution data derived from specimens and literature combined with a uniquely comprehensive target-enriched phylogeny (∼940 loci) covering all families and 67% of recognized genera. Ancestral state reconstruction of flight behavior strategies ("flyer" vs. "percher") suggests the odonate ancestor was a flyer, spending a majority of its time when active on the wing, with multiple independent transitions to percher. Several transitions back to the flyer behavior have also occurred. Aspect ratios for forewings and hindwings showed a strong relationship between these traits and perching and flying behavioral strategies. Divergence time estimation suggests the crown age of Odonata to be 290–325 Ma. Bayesian biogeographical evolutionary analysis of nine biogeographical realms provides a preliminary biogeographical history for odonates spanning 325 Ma. Key family-level splits occurred during the Jurassic and Cretaceous, paralleling the increasing isolation of landmasses and the poleward drift of the contemporary Australasian and Holarctic regions. Both behavioral and morphological adaptations likely facilitated the distributional success of select odonate lineages. This study lays the foundation for a revised classification of odonates and a more complete understanding of the influence of flight behavior and wing morphology in relation to evolutionary processes shaping past and current odonate diversity.

10. Nogueira, B. R., LeBoeuf, A. C., Barden, P., Nguyen, D. Q. V., & Khadempour, L. (2026). Honeypots: a review of repletism across the ants. Myrmecological News, 36, 39–57. https://doi.org/10.25849/MYRMECOL.NEWS_036:039
    DOI ABSTRACT

    @article{Nogueira2026,
      title = {Honeypots: a review of repletism across the ants},
      author = {Nogueira, Bianca R and LeBoeuf, Adria C and Barden, Phillip and Nguyen, Diem Quynh V and Khadempour, Lily},
      year = {2026},
      journal = {Myrmecological News},
      publisher = {The Austrian Society of Entomofaunistics},
      volume = {36},
      pages = {39--57},
      doi = {10.25849/MYRMECOL.NEWS_036:039},
      url = {https://myrmecologicalnews.org/cms/index.php?option=com_content&view=category&id=1667&Itemid=444}
    }
    

    Honeypot ants are a fascinating case of the convergent evolution of an internal food storage strategy. They are characterized by a subset of physogastric workers, called repletes, that store food long-term in their crops to support the colony in times of low resource availability. Despite their biological and evolutionary significance, information on honeypot ants remains scattered, and the trait itself has lacked a clear and unified definition. This review synthesizes current knowledge on replete morphology, physiology, and function, establishing a foundation for defining the repletism syndrome. Through our literature review, we confirm the occurrence of repletes in at least eight genera across three subfamilies (Formicinae, Dolichoderinae, and Myrmicinae). We also identify four genera with putative honeypot species that remain poorly studied, and clarify cases of misidentification, where repletism has been confused with other internal storage strategies such as worker corpulence, trophic eggs, or thoracic crop expansion. We propose that repletism occurs along a spectrum across species, reflecting both morphological specialization and behavioral flexibility. In this review, we also demonstrate the global distribution of this extreme adaptation. Finally, we highlight future research directions into factors driving convergence of repletism, and mechanisms and potential microbial interactions underlying this adaptation.

11. Rotstein, H. G. G. (2026). Integration between the knowledge diaspora and their country of origin through institutional affiliations: a case study for policy development. Frontiers in Research Metrics and Analytics, Volume 11 - 2026. https://doi.org/10.3389/frma.2026.1852906
    DOI ABSTRACT

    @article{hr20261,
      title = {Integration between the knowledge diaspora and their country of origin through institutional affiliations: a case study for policy development},
      author = {Rotstein, Horacio G. G.},
      year = {2026},
      journal = {Frontiers in Research Metrics and Analytics},
      volume = {Volume 11 - 2026},
      doi = {10.3389/frma.2026.1852906},
      issn = {2504-0537},
      url = {https://www.frontiersin.org/journals/research-metrics-and-analytics/articles/10.3389/frma.2026.1852906}
    }
    

    The knowledge economy is fundamentally driven by human capital, making the “brain drain” phenomenon a critical challenge for national development. Traditionally, policy frameworks have focused on repatriation, circulation or vinculation to address this issue. However, these models often fail to account for more regular and permanent institutional associations between the diaspora of knowledge professionals (KPs) and the science, technology and innovation (STI) institutions of their country of origin (CO). Such associations are increasingly feasibly due to technological advances that render many STI activities independent of geography. This paper advances the notion of KP diaspora integration within the domestic STI institutions of their CO, incorporating a framework focused on structural institutional membership. We provide an in depth analysis and propose a blueprint for policy development aimed at achieving this goal. We use Argentina as a case study for several reasons, including its well-developed STI system, its comparatively large KP diaspora, and its history of KP diaspora organization and interaction with the Argentine STI system. The proposed policy framework opens avenues for the development of specific policies at the institutional level tailored to the unique characteristics, local constraints and goals of each organization. The ideas, core principles, and policy blueprint we present have a broader generality and are applicable mutatis mutandis to other developing countries experiencing the brain drain phenomenon.

2025

1. Behzadi, S., Ho, J., Tanvir, Z., Haspel, G., Freifeld, L., & Severi, K. E. (2025). Expansion microscopy reveals neural circuit organization in genetic animal models. Neurophotonics, 12(1), 010601–010601.

   @article{behzadi2025expansion,
     title = {Expansion microscopy reveals neural circuit organization in genetic animal models},
     author = {Behzadi, Shakila and Ho, Jacquelin and Tanvir, Zainab and Haspel, Gal and Freifeld, Limor and Severi, Kristen E},
     year = {2025},
     journal = {Neurophotonics},
     publisher = {Society of Photo-Optical Instrumentation Engineers},
     volume = {12},
     number = {1},
     pages = {010601--010601}
   }
   

2. Bruns, A., Flammang, B. E., Papotti, G., Mastropoll, C., Hansen, T., & Anderson, I. (2025). A bioinspired fish fin webbing for proprioceptive feedback. Bioinspiration & Biomimetics, 20(1), 016028.

   @article{bruns2025bioinspired,
     title = {A bioinspired fish fin webbing for proprioceptive feedback},
     author = {Bruns, Arne and Flammang, Brooke E and Papotti, Gabor and Mastropoll, Connor and Hansen, Tom and Anderson, Iain},
     year = {2025},
     journal = {Bioinspiration \& Biomimetics},
     publisher = {IOP Publishing},
     volume = {20},
     number = {1},
     pages = {016028}
   }
   

3. DeVan, C., Bunker, D., Flemming, A., Konsolaki, M., Krohn, A., Shea, L., Sosiak, C., Waring, E., Bronson, C., Krumm, J. L., & Jordan, C. (2025). Morphology CURE: Exploring the Effects of Invasion on Plant Morphology. https://doi.org/doi:/10.25334/60MP-N775
   DOI ABSTRACT

   @article{QUBES3471,
     title = {Morphology CURE: Exploring the Effects of Invasion on Plant Morphology},
     author = {DeVan, Caroline and Bunker, Daniel and Flemming, Adania and Konsolaki, Mary and Krohn, Alex and Shea, Liz and Sosiak, Christine and Waring, Elizabeth and Bronson, Cecily and Krumm, Janice L. and Jordan, Carly},
     year = {2025},
     month = apr,
     doi = {doi:/10.25334/60MP-N775},
     url = {https://qubeshub.org/publications/3471/1}
   }
   

   This Course-based Undergraduate Research Experience (CURE) uses digitized natural history collections data to examine morphology of invasive plant species in their introduced and original ranges. This inclusive CURE requires only student access to a computer and the internet.

4. Engel, M. S., Barden, P., Perrichot, V., LaPolla, J. S., & Wappler, T. (2025). Case 3858–Formiciinae Lutz, 1986 (Insecta, Hymenoptera): proposed conservation by replacement of the type species of Formicium Westwood, 1854. The Bulletin of Zoological Nomenclature, 82(1), 58–63.

   @article{engel2025case,
     title = {Case 3858--Formiciinae Lutz, 1986 (Insecta, Hymenoptera): proposed conservation by replacement of the type species of Formicium Westwood, 1854},
     author = {Engel, Michael S and Barden, Phillip and Perrichot, Vincent and LaPolla, John S and Wappler, Torsten},
     year = {2025},
     journal = {The Bulletin of Zoological Nomenclature},
     publisher = {BioOne},
     volume = {82},
     number = {1},
     pages = {58--63}
   }
   

5. Fiorentino, G., Probst, R., Richter, A., Economo, E. P., & Barden, P. (2025). A fossil-informed pattern of body size increase and local extinction in Basiceros dirt ants (Hymenoptera: Formicidae). Proceedings B, 292(2045), 20242171.

   @article{fiorentino2025fossil,
     title = {A fossil-informed pattern of body size increase and local extinction in Basiceros dirt ants (Hymenoptera: Formicidae)},
     author = {Fiorentino, Gianpiero and Probst, Rodolfo and Richter, Adrian and Economo, Evan P and Barden, Phillip},
     year = {2025},
     journal = {Proceedings B},
     publisher = {The Royal Society},
     volume = {292},
     number = {2045},
     pages = {20242171}
   }
   

6. Fiorentino, G., Sánchez, A., Barden, P., & others. (2025). A new species of Crematogaster (Hymenoptera: Formicidae: Myrmicinae) with contrasting coloration unique to the Caribbean. Novitates Caribaea, 26, 1–10. https://doi.org/10.33800/nc.vi26.374
   DOI ABSTRACT

   @article{fiorentino2025new,
     title = {A new species of Crematogaster (Hymenoptera: Formicidae: Myrmicinae) with contrasting coloration unique to the Caribbean},
     author = {Fiorentino, Gianpiero and S\'{a}nchez, Am{\'e}rica and Barden, Phillip and others},
     year = {2025},
     journal = {Novitates Caribaea},
     number = {26},
     pages = {1--10},
     doi = {10.33800/nc.vi26.374}
   }
   

   The cosmopolitan ant genus Crematogaster is a conspicuous lineage of myrmicine ants. Here, we describe a new species from Hispaniola, Crematogaster dorada sp. nov. C. dorada is readily diagnosable from other Caribbean ants through mesosomal thoracic sculpturing and a unique color pattern; its taxonomic affinities are consistent with other members of the Neocrema clade in the Orthocrema group, a lineage with no previous record in the Caribbean. The current diversity of Greater Antilles Crematogaster now stands at 10 species and three putative subspecies. Expanded sampling will likely yield additional species as much of the Caribbean fauna has been unrevised since the early 20th century.
   
   El género Crematogaster es un linaje conspicuo de hormigas mirmicinas distribuidas globalmente. Aquı́, describimos una nueva especie para la isla Hispaniola, Crematogaster dorada sp. nov. C. dorada se diferencia fácilmente de otras hormigas del Caribe por la escultura torácica del mesosoma y un patrón de color único; sus afinidades taxonómicas son consistentes con miembros del clado Neocrema, un linaje sin registro previo en el Caribe. La diversidad actual de Crematogaster en las Antillas Mayores asciende a 10 especies y tres subespecies putativas. Es probable que un muestreo expandido revele especies adicionales, dado que gran parte de la fauna del Caribe no ha sido revisada desde principios del siglo XX.

7. Gerkema, J., Bunker, D. E., Cunliffe, A. M., Bazzato, E., Marignani, M., Sitzia, T., Aubin, I., Chelli, S., Rosell, J. A., Poschlod, P., & others. (2025). Robustness and limitations of maximum entropy in plant community assembly. Ecological Informatics, 86, 103031.

   @article{gerkema2025robustness,
     title = {Robustness and limitations of maximum entropy in plant community assembly},
     author = {Gerkema, Jelyn and Bunker, Daniel E and Cunliffe, Andrew M and Bazzato, Erika and Marignani, Michela and Sitzia, Tommaso and Aubin, Isabelle and Chelli, Stefano and Rosell, Julieta A and Poschlod, Peter and others},
     year = {2025},
     journal = {Ecological Informatics},
     publisher = {Elsevier},
     volume = {86},
     pages = {103031}
   }
   

8. Hyland Bruno, J., Mercado, E., Tietjen, N., Levin, I., & Ryan, M. (2025). Vocal Interactions Between Singing Humpback Whales (Megaptera novaeangliae). BioRxiv, 2025–2006. https://doi.org/10.1101/2025.06.12.658025
   DOI

   @article{Bruno_2025,
     title = {Vocal Interactions Between Singing Humpback Whales (Megaptera novaeangliae)},
     author = {Hyland Bruno, Julia and Mercado, Eduardo and Tietjen, Niko and Levin, Isabel and Ryan, Mary},
     year = {2025},
     journal = {bioRxiv},
     publisher = {Cold Spring Harbor Laboratory},
     pages = {2025--06},
     doi = {10.1101/2025.06.12.658025},
     url = {http://dx.doi.org/10.1101/2025.06.12.658025}
   }
   

9. Mercado, E., Ryan, M., Ashour, M., Krsmanovic, G., McAllister, S., Perazio, C. E., & Hyland Bruno, J. (2025). Cyclical variations in acoustic features within the song sessions of humpback whales (Megaptera novaeangliae). Journal of Comparative Psychology, 139(3), 192–208. https://doi.org/10.1037/com0000401
   DOI

   @article{Mercado_2025,
     title = {Cyclical variations in acoustic features within the song sessions of humpback whales (Megaptera novaeangliae).},
     author = {Mercado, Eduardo and Ryan, Mary and Ashour, Mariam and Krsmanovic, Gala and McAllister, Samantha and Perazio, Christina E. and Hyland Bruno, Julia},
     year = {2025},
     journal = {Journal of Comparative Psychology},
     publisher = {American Psychological Association (APA)},
     volume = {139},
     number = {3},
     pages = {192–208},
     doi = {10.1037/com0000401}
   }
   

10. Miyasaki, E. H., Bajor, A. A., Pettersson, G. M., Senftleben, M. L., Fouke, K. E., Graham, T. G. W., John, D. D., Morgan, J. R., Haspel, G., & Abrahamsson, S. (2025). High-speed 3D imaging with a 25-camera multifocus microscope. Optica, 12(8), 1230–1241. https://doi.org/10.1364/OPTICA.563617
    DOI ABSTRACT

    @article{HirataMiyasaki,
      title = {High-speed 3D imaging with a 25-camera multifocus microscope},
      author = {Miyasaki, Eduardo Hirata and Bajor, Antone A. and Pettersson, Gustav M. and Senftleben, Maximilian L. and Fouke, Kaitlyn E. and Graham, Thomas G. W. and John, Demis D. and Morgan, Jennifer R. and Haspel, Gal and Abrahamsson, Sara},
      year = {2025},
      month = aug,
      journal = {Optica},
      publisher = {Optica Publishing Group},
      volume = {12},
      number = {8},
      pages = {1230--1241},
      doi = {10.1364/OPTICA.563617},
      url = {https://opg.optica.org/optica/abstract.cfm?URI=optica-12-8-1230},
      keywords = {Biomedical imaging; Confocal laser scanning microscopy; Diffractive optical elements; Imaging systems; Optical transfer functions; Spatial resolution}
    }
    

    High-speed volumetric imaging of whole-organism dynamics is often constrained by trade-offs between speed, resolution, and imaging depth. We present the M25 microscope, a 25-camera-array, aberration-corrected refocusing multifocus imaging system that captures 3D volumes simultaneously across 25 focal planes using a synchronized array of machine-vision cameras. Each camera incorporates a custom-blazed grating to correct chromatic dispersion, enabling a simplified, sensitive, and scalable multifocus setup for large fields of view while maintaining high spatial resolution across the imaging volume. M25 achieves imaging speeds of >100 volumes per second over imaging volumes of 180 x 180 x 50 μm. This method enables both noninvasive, label-free brightfield and highly sensitive fluorescence imaging. We demonstrate its capabilities in 3D particle tracking, fluorescent and brightfield imaging of D. melanogaster larval dynamics, and C. elegans locomotion and neural activity. This method enables fast and sensitive 3D imaging for biological studies and has potential applications across a broad range of diffractive imaging modalities.

11. O'Bryan, L. R., Oxendahl, T., Garnier, S., Segarra, S., Wettergreen, M., Sabharwal, A., & Beier, M. E. (2025). A novel approach to studying the role influence plays in team collective intelligence. Collective Intelligence, 4(2), 26339137251343584. https://doi.org/10.1177/26339137251343584
    DOI ABSTRACT

    @article{OBryan2025fv,
      title = {A novel approach to studying the role influence plays in team collective intelligence},
      author = {O\'Bryan, Lisa R and Oxendahl, Timothy and Garnier, Simon and Segarra, Santiago and Wettergreen, Matthew and Sabharwal, Ashutosh and Beier, Margaret E},
      year = {2025},
      month = apr,
      journal = {Collective intelligence},
      publisher = {SAGE Publications},
      volume = {4},
      number = {2},
      pages = {26339137251343584},
      doi = {10.1177/26339137251343584},
      issn = {2633-9137},
      url = {http://dx.doi.org/10.1177/26339137251343584},
      file = {All Papers/2025/O'Bryan et al. 2025 - A novel approach to studying the role influence plays in team collective intelligence.pdf},
      language = {en}
    }
    

    Studying collective intelligence in teams poses key challenges because individual contributions to team outcomes–such as ideas–can be abstract and difficult to measure. Although many studies have examined how team members shape collective outputs, they often utilize measures of influence focused on perceptions, participation, or performance, which can differ from objective measures of how team member contributions shape team outcomes. In this study, we develop an objective influence measure within the context of an open-ended design task. We operationalized influence as the objective similarity between designs created in an independent Brainstorming Phase and subsequent collaborative (or independent) Design Phase. We demonstrate our measure’s validity by establishing its ability to reflect similarities between designs beyond those expected due to chance and by examining its correlation with predictors and proxies of influence. Key takeaways are that team members’ initial ideas influenced team-level designs greater than expected, especially for team members with greater expertise, more work contributions, and ideas that were more similar to the mean. Our approach demonstrates our measure’s utility in enabling a mechanistic understanding of idea integration within teams, and we discuss how it can foster new insights within the field of collective intelligence.

12. Oberski, J. T., Griebenow, Z. H., Adams, R. M. M., Andersen, A., Andrade-Silva, J., Barden, P., Borowiec, M., Brady, S., Casadei-Ferreira, A., Csősz, S., Dias, A. M., Dias, R. K. S., Feitosa, R. M., Fernandez, F., Fisher, B. L., General, D. E. M., Gomez, K., Hammel, J. U., Hawkes, P. G., … Boudinot, B. E. (2025). Ant systematics: past, present, and future. Insect Systematics and Diversity, 9(4), 11. https://doi.org/10.1093/isd/ixaf025
    DOI ABSTRACT

    @article{antsys2025,
      title = {Ant systematics: past, present, and future},
      author = {Oberski, Jill T and Griebenow, Zachary H and Adams, Rachelle M M and Andersen, Alan and Andrade-Silva, Joudellys and Barden, Phillip and Borowiec, Marek and Brady, Se\'{a}n and Casadei-Ferreira, Alexandre and Cs\H{o}sz, S\'{a}ndor and Dias, Amanda Martins and Dias, Ratnayake Kaluarachchige Sriyani and Feitosa, Rodrigo Machado and Fernandez, Fernando and Fisher, Brian L and General, David Emmanuel M and Gomez, Kik\'{o} and Hammel, J\"{o}rg U and Hawkes, Peter G and Janda, Milan and Khalife, Adam and Ladino, Natalia and Lieberman, Ziv E and Lucky, Andrea and Menchetti, Mattia and Prado, L\'{\i}via Pires do and Prebus, Matthew M and Probst, Rodolfo S and Punnath, Aswaj and Richter, Adrian and Salata, Sebastian and S\'{a}nchez-Restrepo, Andr\'{e}s F and Schifani, Enrico and Schultz, Ted R and Silva, Rog\'{e}rio R and Sosa-Calvo, Jeffrey and Tocora, Maria C and Ulyss\'{e}a, M\^{o}nica Antunes and van de Kamp, Thomas and Wang, Wendy Y and Williams, Jason L and Camacho, Gabriela Procopio and Boudinot, Brendon E},
      year = {2025},
      month = sep,
      journal = {Insect Systematics and Diversity},
      volume = {9},
      number = {4},
      pages = {11},
      doi = {10.1093/isd/ixaf025},
      issn = {2399-3421},
      url = {https://doi.org/10.1093/isd/ixaf025},
      eprint = {https://academic.oup.com/isd/article-pdf/9/4/11/64217267/ixaf025.pdf}
    }
    

    The classification of ants (Hymenoptera: Formicidae) has progressed in waves since the first 17 species were described by Linnaeus in the 1758 edition of Systema Naturae. Since then, over 18,000 species-rank names have accumulated for the global myrmecofauna, of which ∼14,260 living and ∼810 fossil species are valid. Here, we provide a synopsis of ant biodiversity and review the history and classification of the family, while highlighting the massive growth of the field in the new millennium. We observe that major transformation has occurred for ant classification due to advances in DNA sequencing technologies, model-based hypothesis testing, and imaging technologies. We therefore provide a revised and illustrated list of diagnostic character states for the higher clades of Formicidae, recognizing that vastly more work is to be done. To facilitate discussion and the systematic accumulation of evolutionary knowledge for the early evolution of the ants, we suggest an informal nomenclatural system for the higher clades of ants, based on names currently in use and a set of names that have been democratically selected by the authors. To guide future work on ant systematics, we summarize currently available databases and present perspectives on regions in need of biodiversity exploration, challenges facing the field, and the future of ant taxonomy.

13. Papadopoulou, M., Garnier, S., & King, A. J. (2025). swaRmverse: An R package for the comparative analysis of collective motion. Methods in Ecology and Evolution, 16(1), 29–39. https://doi.org/10.1111/2041-210x.14460
    DOI ABSTRACT

    @article{Papadopoulou2025zn,
      title = {swaRmverse: An R package for the comparative analysis of collective motion},
      author = {Papadopoulou, Marina and Garnier, Simon and King, Andrew J},
      year = {2025},
      month = jan,
      journal = {Methods in ecology and evolution},
      publisher = {Wiley},
      volume = {16},
      number = {1},
      pages = {29--39},
      doi = {10.1111/2041-210x.14460},
      issn = {2041-210X},
      url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/2041-210X.14460},
      file = {All Papers/2025/Papadopoulou et al. 2025 - swaRmverse - An R package for the comparative analysis of collective motion.pdf},
      keywords = {animal behaviour; collective motion; comparative analysis; dimensionality reduction; model validation; R package; trajectory data},
      language = {en}
    }
    

    Abstract Collective motion, that is the coordinated spatial and temporal organisation of individuals, is a core element in the study of collective animal behaviour. The self-organised properties of how a group moves influence its various behavioural and ecological processes, such as predator–prey dynamics, social foraging and migration. However, little is known about the inter- and intra-specific variation in collective motion. Despite the significant advancement in high-resolution tracking of multiple individuals within groups, providing collective motion data for animals in the laboratory and the field, a framework to perform quantitative comparisons across species and contexts is lacking. Here, we present the swaRmverse package. Building on two existing R packages, trackdf and swaRm, swaRmverse enables the identification and analysis of collective motion ‘events’, as presented in Papadopoulou et al. (2023), creating a unit of comparison across datasets. We describe the package’s structure and showcase its functionality using existing datasets from several species and simulated trajectories from an agent-based model. From positional time-series data for multiple individuals (x-y-t-id), swaRmverse identifies events of collective motion based on the distribution of polarisation and group speed. For each event, a suite of validated biologically meaningful metrics are calculated, and events are placed into a ‘swarm space’ through dimensional reduction techniques. Our package provides the first automated pipeline enabling the analysis of data on collective behaviour. The package allows the calculation and use of complex metrics for users without a strong quantitative background and will promote communication and data-sharing across disciplines, standardising the quantification of collective motion across species and promoting comparative investigations.

14. Pluhacek, M., Garnier, S., & Reina, A. (2025). Decentralised construction of a global coordinate system in a large swarm of minimalistic robots. Swarm Intelligence, 1–28. https://doi.org/10.1007/s11721-025-00251-4
    DOI ABSTRACT

    @article{Pluhacek2025yq,
      title = {Decentralised construction of a global coordinate system in a large swarm of minimalistic robots},
      author = {Pluhacek, Michal and Garnier, Simon and Reina, Andreagiovanni},
      year = {2025},
      month = {18~jul},
      journal = {Swarm intelligence},
      publisher = {Springer Science and Business Media LLC},
      pages = {1--28},
      doi = {10.1007/s11721-025-00251-4},
      issn = {1935-3812,1935-3820},
      url = {http://dx.doi.org/10.1007/s11721-025-00251-4},
      file = {All Papers/2025/Pluhacek et al. 2025 - Decentralised construction of a global coordinate system in a large swarm of minimalistic robots.pdf},
      language = {en}
    }
    

    Abstract Collective intelligence and autonomy of robot swarms can be improved by enabling individual robots to become aware that they are the constituent parts of a larger whole and to identify their role within the swarm. In this study, we present an algorithm to enable positional self-awareness in a swarm of minimalistic, error-prone, stationary robots which can only locally broadcast messages and estimate the distance from their neighbours. Despite being unable to measure the bearing of incoming messages, the robots running our algorithm can calculate their position within a swarm deployed in a regular formation. We show through experiments with up to 200 Kilobot robots that such positional self-awareness can be employed by the robots to create a shared coordinate system and dynamically self-assign location-dependent tasks. Our solution has fewer requirements than state-of-the-art algorithms and includes collective noise-filtering mechanisms. Therefore, it has an extended range of robotic platforms on which it can run. All robots are interchangeable, run the same code, and do not need any prior knowledge. Through our algorithm, robots reach collective synchronisation and autonomously become aware of the swarm’s spatial configuration and their position within it.

15. Vida, T., Calamari, Z. T., & Barden, P. (2025). Post K-Pg rise in ant and termite prevalence underlies convergent dietary specialization in mammals. Evolution, qpaf121.

    @article{vida2025post,
      title = {Post K-Pg rise in ant and termite prevalence underlies convergent dietary specialization in mammals},
      author = {Vida, Thomas and Calamari, Zachary T and Barden, Phillip},
      year = {2025},
      journal = {Evolution},
      publisher = {Oxford University Press},
      pages = {qpaf121}
    }
    

16. Webber-Schultz, A., Flammang, B., Hall, K., & Simonitis, L. (2025). Who nose what flows: Shark narial denticle morphology and hydrodynamic implications. Integrative And Comparative Biology, icaf104.

    @article{webber2025nose,
      title = {Who nose what flows: Shark narial denticle morphology and hydrodynamic implications},
      author = {Webber-Schultz, Amani and Flammang, Brooke and Hall, Kayla and Simonitis, Lauren},
      year = {2025},
      journal = {Integrative And Comparative Biology},
      publisher = {Oxford University Press},
      pages = {icaf104}
    }
    

17. Wiśniewska, M., O’Connell-Rodwell, C. E., Kilian, J. W., Garnier, S., & Russell, G. J. (2025). Interplay of physical and social drivers of movement in male African savanna elephants. Behavioral Ecology, 36(1), arae091. https://doi.org/10.1093/beheco/arae091
    DOI ABSTRACT

    @article{wisniewska2025interplay,
      title = {Interplay of physical and social drivers of movement in male African savanna elephants},
      author = {Wi{\'s}niewska, Maggie and O'Connell-Rodwell, Caitlin E and Kilian, J Werner and Garnier, Simon and Russell, Gareth J},
      year = {2025},
      journal = {Behavioral Ecology},
      publisher = {Oxford University Press UK},
      volume = {36},
      number = {1},
      pages = {arae091},
      doi = {10.1093/beheco/arae091}
    }
    

    Despite extensive research into the behavioral ecology of free-ranging animal groups, questions remain about how group members integrate information about their physical and social surroundings. This is because (1) tracking of multiple group members is limited to a few easily manageable species and (2) the tools to simultaneously quantify physical and social influences on an individual’s movement remain challenging, especially across large geographic scales. A relevant example of a widely ranging species with complex social structure and of conservation concern is the African savanna elephant. We evaluate highly synchronized GPS tracks from 5 male elephants in Etosha National Park in Namibia by incorporating their dynamic social landscape into an established resource selection model. The fitted model predicts movement patterns based simultaneously on the physical landscape (e.g. repeated visitation of waterholes) and the social landscape (e.g. avoidance of a dominant male). Combining the fitted models for multiple focal individuals produces landscape-dependent social networks that vary over space (e.g. with distance from a waterhole) and time (e.g. as the seasons change). The networks, especially around waterholes, are consistent with dominance patterns determined from previous behavioral studies. Models that combine physical landscape and social effects, based on remote tracking, can augment traditional methods for determining social structure from intensive behavioral observations. More broadly, these models will be essential to effective, in-situ conservation and management of wide-ranging social species in the face of anthropogenic disruptions to their physical surroundings and social connections.

18. Zhang, C., Wang, Y., Urena, J., Augustin-Lawson, R., Eno, C., Sun, M., Flammang, B., & Dong, L. (2025). Amphibious Generator via Mechanical Coupling for Versatile Energy Harvesting. Advanced Energy and Sustainability Research, 2500087.

    @article{zhang2025amphibious,
      title = {Amphibious Generator via Mechanical Coupling for Versatile Energy Harvesting},
      author = {Zhang, Chi and Wang, Yuxiao and Urena, Johan and Augustin-Lawson, Richards and Eno, Catherine and Sun, Mengdie and Flammang, Brooke and Dong, Lin},
      year = {2025},
      journal = {Advanced Energy and Sustainability Research},
      pages = {2500087}
    }
    

2024

1. Bajor, A. A., Pettersson, G. M., Senftleben, M. L., Fouke, K. E., Graham, T. G., John, D. D., Morgan, J. R., Haspel, G., Abrahamsson, S., & others. (2024). High-speed 3D Imaging with 25-Camera Multifocus Microscope.

   @article{bajor2024high,
     title = {High-speed 3D Imaging with 25-Camera Multifocus Microscope},
     author = {Bajor, AA and Pettersson, GM and Senftleben, ML and Fouke, KE and Graham, TG and John, DD and Morgan, JR and Haspel, G and Abrahamsson, S and others},
     year = {2024}
   }
   

2. Barden, P. (2024). Data and results for Sosiak et al." Prolonged faunal turnover in earliest ants revealed by North American Cretaceous amber". (No Title).

   @article{barden2024data,
     title = {Data and results for Sosiak et al." Prolonged faunal turnover in earliest ants revealed by North American Cretaceous amber"},
     author = {Barden, Phillip},
     year = {2024},
     journal = {(No Title)},
     publisher = {Zenodo}
   }
   

3. Calbi, M., Boenisch, G., Boulangeat, I., Bunker, D., Catford, J. A., Changenet, A., Culshaw, V., Dias, A. S., Hauck, T., Joschinski, J., & others. (2024). A novel framework to generate plant functional groups for ecological modelling. Ecological Indicators, 166, 112370.

   @article{calbi2024novel,
     title = {A novel framework to generate plant functional groups for ecological modelling},
     author = {Calbi, Mariasole and Boenisch, Gerhard and Boulangeat, Isabelle and Bunker, Daniel and Catford, Jane A and Changenet, Alexandre and Culshaw, Victoria and Dias, Arildo S and Hauck, Thomas and Joschinski, Jens and others},
     year = {2024},
     journal = {Ecological Indicators},
     publisher = {Elsevier},
     volume = {166},
     pages = {112370}
   }
   

4. Carlesso, D., Stewardson, M., McLean, D. J., Mazué, G. P. F., Garnier, S., Feinerman, O., & Reid, C. R. (2024). Leaderless consensus decision-making determines cooperative transport direction in weaver ants. Proceedings. Biological Sciences, 291(2028), 20232367. https://doi.org/10.1098/rspb.2023.2367
   DOI ABSTRACT

   @article{Carlesso2024wv,
     title = {Leaderless consensus decision-making determines cooperative transport direction in weaver ants},
     author = {Carlesso, Daniele and Stewardson, Madelyne and McLean, Donald James and Mazu\'{e}, Geoffrey P F and Garnier, Simon and Feinerman, Ofer and Reid, Chris R},
     year = {2024},
     month = aug,
     journal = {Proceedings. Biological sciences},
     publisher = {The Royal Society},
     volume = {291},
     number = {2028},
     pages = {20232367},
     doi = {10.1098/rspb.2023.2367},
     issn = {0962-8452,1471-2954},
     url = {https://royalsocietypublishing.org/doi/10.1098/rspb.2023.2367},
     file = {All Papers/2024/Carlesso et al. 2024 - Leaderless consensus decision-making determines cooperative transport direction in weaver ants.pdf},
     keywords = {collective behaviour; emergent behaviour; leadership; self-organization; swarm intelligence; wisdom-of-the-crowd},
     pmid = {39140325},
     language = {en}
   }
   

   Animal groups need to achieve and maintain consensus to minimize conflict among individuals and prevent group fragmentation. An excellent example of a consensus challenge is cooperative transport, where multiple individuals cooperate to move a large item together. This behaviour, regularly displayed by ants and humans only, requires individuals to agree on which direction to move in. Unlike humans, ants cannot use verbal communication but most likely rely on private information and/or mechanical forces sensed through the carried item to coordinate their behaviour. Here, we investigated how groups of weaver ants achieve consensus during cooperative transport using a tethered-object protocol, where ants had to transport a prey item that was tethered in place with a thin string. This protocol allows the decoupling of the movement of informed ants from that of uninformed individuals. We showed that weaver ants pool together the opinions of all group members to increase their navigational accuracy. We confirmed this result using a symmetry-breaking task, in which we challenged ants with navigating an open-ended corridor. Weaver ants are the first reported ant species to use a ’wisdom-of-the-crowd’ strategy for cooperative transport, demonstrating that consensus mechanisms may differ according to the ecology of each species.

5. Cronin, E. M., Schneider, A. C., Nadim, F., & Bucher, D. (2024). Modulation by Neuropeptides with Overlapping Targets Results in Functional Overlap in Oscillatory Circuit Activation [Journal Article]. J Neurosci, 44(1). https://doi.org/10.1523/JNEUROSCI.1201-23.2023
   DOI ABSTRACT

   @article{RN4064,
     title = {Modulation by Neuropeptides with Overlapping Targets Results in Functional Overlap in Oscillatory Circuit Activation},
     author = {Cronin, E. M. and Schneider, A. C. and Nadim, F. and Bucher, D.},
     year = {2024},
     journal = {J Neurosci},
     publisher = {Society for Neuroscience},
     volume = {44},
     number = {1},
     doi = {10.1523/JNEUROSCI.1201-23.2023},
     issn = {1529-2401 (Electronic) 0270-6474 (Print) 0270-6474 (Linking)},
     url = {https://www.ncbi.nlm.nih.gov/pubmed/37968117},
     note = {Cronin, Elizabeth M Schneider, Anna C Nadim, Farzan Bucher, Dirk eng J Neurosci. 2024 Jan 3;44(1):e1201232023. doi: 10.1523/JNEUROSCI.1201-23.2023.},
     keywords = {Male Humans Animals \textasteriskcenteredNeuropeptides/metabolism Peptides/pharmacology Neurons/physiology Neurotransmitter Agents/pharmacology Signal Transduction \textasteriskcenteredBrachyura/physiology Ganglia, Invertebrate/physiology bursting neuron central pattern generator neuromodulation oscillation stomatogastric},
     type = {Journal Article}
   }
   

   Neuromodulation lends flexibility to neural circuit operation but the general notion that different neuromodulators sculpt neural circuit activity into distinct and characteristic patterns is complicated by interindividual variability. In addition, some neuromodulators converge onto the same signaling pathways, with similar effects on neurons and synapses. We compared the effects of three neuropeptides on the rhythmic pyloric circuit in the stomatogastric ganglion of male crabs, Cancer borealis Proctolin (PROC), crustacean cardioactive peptide (CCAP), and red pigment concentrating hormone (RPCH) activate the same modulatory inward current, I (MI), and have convergent actions on synapses. However, while PROC targets all four neuron types in the core pyloric circuit, CCAP and RPCH target the same subset of only two neurons. After removal of spontaneous neuromodulator release, none of the neuropeptides restored the control cycle frequency, but all restored the relative timing between neuron types. Consequently, differences between neuropeptide effects were mainly found in the spiking activity of different neuron types. We performed statistical comparisons using the Euclidean distance in the multidimensional space of normalized output attributes to obtain a single measure of difference between modulatory states. Across preparations, the circuit output in PROC was distinguishable from CCAP and RPCH, but CCAP and RPCH were not distinguishable from each other. However, we argue that even between PROC and the other two neuropeptides, population data overlapped enough to prevent reliable identification of individual output patterns as characteristic for a specific neuropeptide. We confirmed this notion by showing that blind classifications by machine learning algorithms were only moderately successful.Significance Statement It is commonly assumed that distinct behaviors or circuit activities can be elicited by different neuromodulators. Yet it is unknown to what extent these characteristic actions remain distinct across individuals. We use a well-studied circuit model of neuromodulation to examine the effects of three neuropeptides, each known to produce a distinct activity pattern in controlled studies. We find that, when compared across individuals, the three peptides elicit activity patterns that are either statistically indistinguishable or show too much overlap to be labeled characteristic. We ascribe this to interindividual variability and overlapping subcellular actions of the modulators. Because both factors are common in all neural circuits, these findings have broad significance for understanding chemical neuromodulatory actions while considering interindividual variability.

6. Fahoum, S.-R. H., Nadim, F., & Blitz, D. M. (2024). Electrical Synapse Rectification Enables Dual-Network Activity in the crab Cancer borealis. BioRxiv, 2024–2008.

   @article{fahoum2024electrical,
     title = {Electrical Synapse Rectification Enables Dual-Network Activity in the crab Cancer borealis},
     author = {Fahoum, Savanna-Rae H and Nadim, Farzan and Blitz, Dawn M},
     year = {2024},
     journal = {bioRxiv},
     publisher = {Cold Spring Harbor Laboratory},
     pages = {2024--08}
   }
   

7. Flammang, B. (2024). BioDesign: Bioinspired Sensor Attachment for Advancing Long-Term Telemetry of Critically Endangered Marine Organisms. NSF Award Number 2350158. Directorate for Biological Sciences, 23(2350158), 50158.

   @article{flammang2024biodesign,
     title = {BioDesign: Bioinspired Sensor Attachment for Advancing Long-Term Telemetry of Critically Endangered Marine Organisms},
     author = {Flammang, Brooke},
     year = {2024},
     journal = {NSF Award Number 2350158. Directorate for Biological Sciences},
     volume = {23},
     number = {2350158},
     pages = {50158}
   }
   

8. Hirata Miyasaki, E., Bajor, A. A., Pettersson, G. M., Senftleben, M. L., Fouke, K. E., Graham, T. G. W., John, D. D., Morgan, J. R., Haspel, G., & Abrahamsson, S. (2024). High-speed 3D Imaging with 25-Camera Multifocus Microscope. BioRxiv, 2024–2009.

   @article{hirata2024high,
     title = {High-speed 3D Imaging with 25-Camera Multifocus Microscope},
     author = {Hirata Miyasaki, Eduardo and Bajor, Antone A and Pettersson, Gustav M and Senftleben, Maximilian L and Fouke, Kaitlyn E and Graham, Thomas GW and John, Demis D and Morgan, Jennifer R and Haspel, Gal and Abrahamsson, Sara},
     year = {2024},
     journal = {bioRxiv},
     publisher = {Cold Spring Harbor Laboratory},
     pages = {2024--09}
   }
   

9. Mitchell, D. G., Edgar, A., Mateu, J. R., Ryan, J. F., & Martindale, M. Q. (2024). The ctenophore Mnemiopsis leidyi deploys a rapid injury response dating back to the last common animal ancestor. Communications Biology, 7(1). https://doi.org/10.1038/s42003-024-05901-7
   DOI

   @article{Mitchell_2024,
     title = {The ctenophore Mnemiopsis leidyi deploys a rapid injury response dating back to the last common animal ancestor},
     author = {Mitchell, Dorothy G. and Edgar, Allison and Mateu, J\'{u}lia Ramon and Ryan, Joseph F. and Martindale, Mark Q.},
     year = {2024},
     month = feb,
     journal = {Communications Biology},
     publisher = {Springer Science and Business Media LLC},
     volume = {7},
     number = {1},
     doi = {10.1038/s42003-024-05901-7},
     issn = {2399-3642},
     url = {http://dx.doi.org/10.1038/s42003-024-05901-7}
   }
   

10. Porfiri, M., Abaid, N., & Garnier, S. (2024). Socially driven negative feedback regulates activity and energy use in ant colonies. PLoS Computational Biology, 20(11), e1012623. https://doi.org/10.1371/journal.pcbi.1012623
    DOI ABSTRACT

    @article{Porfiri2024cu,
      title = {Socially driven negative feedback regulates activity and energy use in ant colonies},
      author = {Porfiri, Maurizio and Abaid, Nicole and Garnier, Simon},
      year = {2024},
      month = {25~nov},
      journal = {PLoS computational biology},
      publisher = {Public Library of Science (PLoS)},
      volume = {20},
      number = {11},
      pages = {e1012623},
      doi = {10.1371/journal.pcbi.1012623},
      issn = {1553-734X,1553-7358},
      url = {http://dx.doi.org/10.1371/journal.pcbi.1012623},
      file = {All Papers/2024/Porfiri et al. 2024 - Socially driven negative feedback regulates activity and energy use in ant colonies.pdf},
      language = {en}
    }
    

    Despite almost a century of research on energetics in biological systems, we still cannot explain energy regulation in social groups, like ant colonies. How do individuals regulate their collective activity without a centralized control system? What is the role of social interactions in distributing the workload amongst group members? And how does the group save energy by avoiding being constantly active? We offer new insight into these questions by studying an intuitive compartmental model, calibrated with and compared to data on ant colonies. The model describes a previously unexplored balance between positive and negative social feedback driven by individual activity: when activity levels are low, the presence of active individuals stimulates inactive individuals to start working; when activity levels are high, however, active individuals inhibit each other, effectively capping the proportion of active individuals at any one time. Through the analysis of the system stability, we demonstrate that this balance results in energetic spending at the group level growing proportionally slower than the group size. Our finding is reminiscent of Kleiber’s law of metabolic scaling in unitary organisms and highlights the critical role of social interactions in driving the collective energetic efficiency of group-living organisms.

11. Porfiri, M., De Lellis, P., Aung, E., Meneses, S., Abaid, N., Waters, J. S., & Garnier, S. (2024). Reverse social contagion as a mechanism for regulating mass behaviors in highly integrated social systems. PNAS Nexus, gae246. https://doi.org/10.1093/pnasnexus/pgae246
    DOI ABSTRACT

    @article{Porfiri2024zv,
      title = {Reverse social contagion as a mechanism for regulating mass behaviors in highly integrated social systems},
      author = {Porfiri, Maurizio and De Lellis, Pietro and Aung, Eighdi and Meneses, Santiago and Abaid, Nicole and Waters, Jane S and Garnier, Simon},
      year = {2024},
      month = {26~jun},
      journal = {PNAS nexus},
      publisher = {Oxford University Press},
      pages = {gae246},
      doi = {10.1093/pnasnexus/pgae246},
      issn = {2752-6542},
      url = {https://academic.oup.com/pnasnexus/advance-article-pdf/doi/10.1093/pnasnexus/pgae246/58339843/pgae246.pdf},
      file = {All Papers/2024/Porfiri et al. 2024 - Reverse social contagion as a mechanism for regulating mass behaviors in highly integrated social systems.pdf},
      language = {en}
    }
    

    Abstract. Mass behavior is the rapid adoption of similar conduct by all group members, with potentially catastrophic outcomes such as mass panic. Yet, thes

12. Rocchini, D., Chieffallo, L., Thouverai, E., D’Introno, R., Dagostin, F., Donini, E., Foody, G., Garnier, S., Mazzochini, G. G., Moudry, V., Rudis, B., Simova, P., Torresani, M., & Nowosad, J. (2024). Under the mantra: ‘Make use of colorblind friendly graphs.’ Environmetrics, e2877. https://doi.org/10.1002/env.2877
    DOI ABSTRACT

    @article{Rocchini2024md,
      title = {Under the mantra: `Make use of colorblind friendly graphs'},
      author = {Rocchini, Duccio and Chieffallo, Ludovico and Thouverai, Elisa and D'Introno, Rossella and Dagostin, Francesca and Donini, Emma and Foody, Giles and Garnier, Simon and Mazzochini, Guilherme G and Moudry, Vitezslav and Rudis, Bob and Simova, Petra and Torresani, Michele and Nowosad, Jakub},
      year = {2024},
      month = {20~aug},
      journal = {Environmetrics},
      publisher = {John Wiley \& Sons, Ltd},
      pages = {e2877},
      doi = {10.1002/env.2877},
      issn = {1099-095X,1180-4009},
      url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/env.2877},
      file = {All Papers/2024/Rocchini et al. 2024 - Under the mantra - ‘Make use of colorblind friendly graphs’.pdf},
      keywords = {colorblindness; colors; R software; science dissemination; scientific graphs},
      language = {en}
    }
    

    Colorblindness is a genetic condition that affects a person’s ability to accurately perceive colors. Several papers still exist making use of rainbow colors palette to show output. In such cases, for...

13. Saha, T., Genoud, A. P., Williams, G. M., Russell, G. J., & Thomas, B. P. (2024). Monitoring Mosquito Abundance: Comparing an Optical Sensor with a Trapping Method. Insects, 15(8), 584. https://doi.org/10.3390/insects15080584
    DOI ABSTRACT

    @article{saha2024monitoring,
      title = {Monitoring Mosquito Abundance: Comparing an Optical Sensor with a Trapping Method},
      author = {Saha, Topu and Genoud, Adrien P and Williams, Gregory M and Russell, Gareth J and Thomas, Benjamin P},
      year = {2024},
      journal = {Insects},
      publisher = {MDPI},
      volume = {15},
      number = {8},
      pages = {584},
      doi = {10.3390/insects15080584}
    }
    

    Optical sensors have shown significant promise in offering additional data to track insect populations. This article presents a comparative study between abundance measurements obtained from a novel near-infrared optical sensor and physical traps. The optical instrument, named an Entomological Bistatic Optical Sensor System, or eBoss, is a non-destructive sensor operating in the near-infrared spectral range and designed to continuously monitor the population of flying insects. The research compares the mosquito aerial density (#/m3) obtained through the eBoss with trap counts from eight physical traps during an eight-month field study. The eBoss recorded over 302,000 insect sightings and assessed the aerial density of all airborne insects as well as male and female mosquitoes specifically with a resolution of one minute. This capability allows for monitoring population trends throughout the season as well as daily activity peaks. The results affirmed the correlation between the two methods. While optical instruments do not match traps in terms of taxonomic accuracy, the eBoss offered greater temporal resolution (one minute versus roughly three days) and statistical significance owing to its much larger sample size. These outcomes further indicate that entomological optical sensors can provide valuable complementary data to more common methods to monitor flying insect populations, such as mosquitoes or pollinators.

14. Schneider, A. C., Cronin, E., Daur, N., Bucher, D., & Nadim, F. (2024). Convergent comodulation reduces interindividual variability of circuit output [Journal Article]. Eneuro, 11(9), ENEURO.0167–0124.2024. https://doi.org/10.1523/eneuro.0167-24.2024
    DOI ABSTRACT

    @article{schneider2024convergent,
      title = {Convergent comodulation reduces interindividual variability of circuit output},
      author = {Schneider, Anna C and Cronin, Elizabeth and Daur, Nelly and Bucher, Dirk and Nadim, Farzan},
      year = {2024},
      journal = {Eneuro},
      publisher = {Society for Neuroscience},
      volume = {11},
      number = {9},
      pages = {ENEURO.0167--24.2024},
      doi = {10.1523/eneuro.0167-24.2024},
      url = {https://www.eneuro.org/content/eneuro/11/9/ENEURO.0167-24.2024.full.pdf},
      type = {Journal Article}
    }
    

    Ionic current levels of identified neurons vary substantially across individual animals. Yet, under similar conditions, neural circuit output can be remarkably similar, as evidenced in many motor systems. All neural circuits are influenced by multiple neuromodulators, which provide flexibility to their output. These neuromodulators often overlap in their actions by modulating the same channel type or synapse, yet have neuron-specific actions resulting from distinct receptor expression. Because of this different receptor expression pattern, in the presence of multiple convergent neuromodulators, a common downstream target would be activated more uniformly in circuit neurons across individuals. We therefore propose that a baseline tonic (non-saturating) level of comodulation by convergent neuromodulators can reduce interindividual variability of circuit output. We tested this hypothesis in the pyloric circuit of the crab, Cancer borealis. Multiple excitatory neuropeptides converge to activate the same voltage-gated current in this circuit, but different subsets of pyloric neurons have receptors for each peptide. We quantified the interindividual variability of the unmodulated pyloric circuit output by measuring the activity phases, cycle frequency, and intraburst spike number and frequency. We then examined the variability in the presence of different combinations and concentrations of three neuropeptides. We found that at mid-level concentration (30\hspace0.25emnM) but not at near-threshold (1\hspace0.25emnM) or saturating (1\hspace0.25em\mathrmμM) concentrations, comodulation by multiple neuropeptides reduced the circuit output variability. Notably, the interindividual variability of response properties of an isolated neuron was not reduced by comodulation, suggesting that the reduction of output variability may emerge as a network effect.

15. Sosiak, C., Cockx, P., Suarez, P. A., McKellar, R., & Barden, P. (2024). Prolonged faunal turnover in earliest ants revealed by North American Cretaceous amber. Current Biology, 34(8), 1755–1761.

    @article{sosiak2024prolonged,
      title = {Prolonged faunal turnover in earliest ants revealed by North American Cretaceous amber},
      author = {Sosiak, Christine and Cockx, Pierre and Suarez, Pablo Aragon{\'e}s and McKellar, Ryan and Barden, Phillip},
      year = {2024},
      journal = {Current Biology},
      publisher = {Elsevier},
      volume = {34},
      number = {8},
      pages = {1755--1761}
    }
    

16. Thomas, A., Kolb, T., Biederman, J., Venturas, M. D., Ma, Q., Yang, D., Dore, S., & Tai, X. (2024). Mitigating drought mortality by incorporating topography into variable forest thinning strategies [Journal Article]. Environmental Research Letters, 19(3), 034035.

    @article{RN952,
      title = {Mitigating drought mortality by incorporating topography into variable forest thinning strategies},
      author = {Thomas, Anooja and Kolb, Thomas and Biederman, Joel and Venturas, Martin D and Ma, Qin and Yang, Di and Dore, Sabina and Tai, Xiaonan},
      year = {2024},
      journal = {Environmental Research Letters},
      volume = {19},
      number = {3},
      pages = {034035},
      issn = {1748-9326},
      type = {Journal Article}
    }
    

17. Vargas, A. M., DeBiasse, M. B., Dykes, L. L., Edgar, A., Hayes, T. D., Groso, D. J., Babonis, L. S., Martindale, M. Q., & Ryan, J. F. (2024). Morphological and dietary changes encoded in the genome of Beroe ovata, a ctenophore-eating ctenophore. NAR Genomics and Bioinformatics, 6(2). https://doi.org/10.1093/nargab/lqae072
    DOI

    @article{Vargas_2024,
      title = {Morphological and dietary changes encoded in the genome of Beroe ovata, a ctenophore-eating ctenophore},
      author = {Vargas, Alexandra~M and DeBiasse, Melissa~B and Dykes, Lana~L and Edgar, Allison and Hayes, T~Danielle and Groso, Daniel~J and Babonis, Leslie~S and Martindale, Mark~Q and Ryan, Joseph~F},
      year = {2024},
      month = apr,
      journal = {NAR Genomics and Bioinformatics},
      publisher = {Oxford University Press (OUP)},
      volume = {6},
      number = {2},
      doi = {10.1093/nargab/lqae072},
      issn = {2631-9268},
      url = {http://dx.doi.org/10.1093/nargab/lqae072}
    }
    

18. Washburn, S., Oñate, M., Yoshida, J., Vera, J., Bhuvanasundaram, R., Khatami, L., Nadim, F., & Khodakhah, K. (2024). The cerebellum directly modulates the substantia nigra dopaminergic activity. Nature Neuroscience, 27(3), 497–513.

    @article{washburn2024cerebellum,
      title = {The cerebellum directly modulates the substantia nigra dopaminergic activity},
      author = {Washburn, Samantha and O{\~n}ate, Maritza and Yoshida, Junichi and Vera, Jorge and Bhuvanasundaram, Ramakrishnan and Khatami, Leila and Nadim, Farzan and Khodakhah, Kamran},
      year = {2024},
      journal = {Nature neuroscience},
      publisher = {Nature Publishing Group US New York},
      volume = {27},
      number = {3},
      pages = {497--513}
    }
    

19. Yang, Y., Yared, D. G., Fortune, E. S., & Cowan, N. J. (2024). Sensorimotor adaptation to destabilizing dynamics in weakly electric fish. Current Biology, 34(10), 2118–2131.

    @article{yang2024sensorimotor,
      title = {Sensorimotor adaptation to destabilizing dynamics in weakly electric fish},
      author = {Yang, Yu and Yared, Dominic G and Fortune, Eric S and Cowan, Noah J},
      year = {2024},
      journal = {Current Biology},
      publisher = {Elsevier},
      volume = {34},
      number = {10},
      pages = {2118--2131}
    }
    

2023

1. Amendolara, A. B., Sant, D., Rotstein, H. G., & Fortune, E. (2023). LSTM-based recurrent neural network provides effective short term flu forecasting. BMC Public Health, 23(1), 1788.

   @article{amendolara2023lstm,
     title = {LSTM-based recurrent neural network provides effective short term flu forecasting},
     author = {Amendolara, Alfred B and Sant, David and Rotstein, Horacio G and Fortune, Eric},
     year = {2023},
     journal = {BMC Public Health},
     publisher = {BioMed Central London},
     volume = {23},
     number = {1},
     pages = {1788}
   }
   

2. Araújo, N. A. M., Janssen, L. M. C., Barois, T., Boffetta, G., Cohen, I., Corbetta, A., Dauchot, O., Dijkstra, M., Durham, W. M., Dussutour, A., Garnier, S., Gelderblom, H., Golestanian, R., Isa, L., Koenderink, G. H., Löwen, H., Metzler, R., Polin, M., Royall, C. P., … Volpe, G. (2023). Steering self-organisation through confinement. Soft Matter, 19(9), 1695–1704. https://doi.org/10.1039/d2sm01562e
   DOI ABSTRACT

   @article{Araujo2023hw,
     title = {Steering self-organisation through confinement},
     author = {Ara\'{u}jo, Nuno A M and Janssen, Liesbeth M C and Barois, Thomas and Boffetta, Guido and Cohen, Itai and Corbetta, Alessandro and Dauchot, Olivier and Dijkstra, Marjolein and Durham, William M and Dussutour, Audrey and Garnier, Simon and Gelderblom, Hanneke and Golestanian, Ramin and Isa, Lucio and Koenderink, Gijsje H and L\"{o}wen, Hartmut and Metzler, Ralf and Polin, Marco and Royall, C Patrick and \v{S}ari\'{c}, An\dj{}ela and Sengupta, Anupam and Sykes, C\'{e}cile and Trianni, Vito and Tuval, Idan and Vogel, Nicolas and Yeomans, Julia M and Zuriguel, Iker and Marin, Alvaro and Volpe, Giorgio},
     year = {2023},
     month = {1~mar},
     journal = {Soft matter},
     volume = {19},
     number = {9},
     pages = {1695--1704},
     doi = {10.1039/d2sm01562e},
     issn = {1744-683X,1744-6848},
     url = {http://dx.doi.org/10.1039/d2sm01562e},
     affiliation = {Departamento de F\'{\i}sica, Faculdade de Ci\^{e}ncias, Universidade de Lisboa, 1749-016, Lisboa, Portugal. nmaraujo\@fc.ul.pt. Centro de F\'{\i}sica Te\'{o}rica e Computacional, Faculdade de Ci\^{e}ncias, Universidade de Lisboa, 1749-016, Lisboa, Portugal. Department of Applied Physics and Science Education, Eindhoven University of Technology, P.O. Box 513, 5600 MB, Eindhoven, The Netherlands. l.m.c.janssen\@tue.nl. Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB, Eindhoven, The Netherlands. University of Bordeaux, CNRS, LOMA, UMR 5798, F-33400, Talence, France. Department of Physics and INFN, University of Torino, via Pietro Giuria 1, 10125, Torino, Italy. Kavli Institute at Cornell for Nanoscale Science, Cornell University, Ithaca, New York, USA. Laboratory of Atomic and Solid-State Physics, Cornell University, Ithaca, New York, USA. Gulliver UMR CNRS 7083, ESPCI Paris, Universit\'{e} PSL, 75005, Paris, France. Soft condensed matter, Department of Physics, Debye institute for Nanomaterials Science, Utrecht University, Princetonplein 1, 3584 CC, Utrecht, The Netherlands. Department of Physics and Astronomy, University of Sheffield, Hounsfield Road, Sheffield, S3 7RH, UK. Research Centre on Animal Cognition (CRCA), Centre for Integrative Biology (CBI), Toulouse University, CNRS, UPS, Toulouse, 31062, AD, France. Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ, 07102, USA. Department of Applied Physics and J. M. Burgers Center for Fluid Dynamics, Eindhoven University of Technology, P.O. Box 513, 5600 MB, Eindhoven, The Netherlands. Max Planck Institute for Dynamics and Self-Organization (MPI-DS), 37077, G\"{o}ttingen, Germany. Rudolf Peierls Centre for Theoretical Physics, University of Oxford, Oxford, OX1 3PU, UK. Laboratory for Soft Materials and Interfaces, Department of Materials, ETH Z\"{u}rich, 8093, Z\"{u}rich, Switzerland. Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, 2629 HZ, Delft, The Netherlands. Institut f\"{u}r Theoretische Physik II: Weiche Materie, Heinrich-Heine-Universit\"{a}t D\"{u}sseldorf, Universit\"{a}tsstrasse 1, 40225, D\"{u}sseldorf, Germany. Institute of Physics \& Astronomy, University of Potsdam, Karl-Liebknecht-Str 24/25, D-14476, Potsdam-Golm, Germany. Mediterranean Institute for Advanced Studies, IMEDEA UIB-CSIC, C/Miquel Marqu\'{e}s 21, 07190, Esporles, Spain. Department of Physics, University of Warwick, Gibbet Hill road, CV4 7AL, Coventry, UK. Institute of Science and Technology Austria, 3400, Klosterneuburg, Austria. Physics of Living Matter, Department of Physics and Materials Science, University of Luxembourg, 162 A, Avenue de la Fa\"{\i}encerie, L-1511, Luxembourg. Laboratoire de Physique de l\'{E}cole normale sup\'{e}rieure, ENS, Universit\'{e} PSL, CNRS, Sorbonne Universit\'{e}, Universit\'{e} Paris Cit\'{e}, F-75005, Paris, France. Institute of Cognitive Sciences and Technologies, CNR, Via San Martino della Battaglia 44, 00185, Rome, Italy. Institute of Particle Technology, Friedrich-Alexander Universit\"{a}t Erlangen-N\"{u}rnberg, Cauerstrasse 4, 91058, Erlangen, Germany. Departamento de F\'{\i}sica y Matem\'{a}tica Aplicada, Facultad de Ciencias, Universidad de Navarra, Pamplona, Spain. Physics of Fluids Group, Mesa+ Institute, Max Planck Center for Complex Fluid Dynamics and J. M. Burgers Center for Fluid Dynamics, University of Twente, 7500AE, Enschede, The Netherlands. a.marin\@utwente.nl. Department of Chemistry, University College London, 20 Gordon Street, London, WC1H 0AJ, UK. g.volpe\@ucl.ac.uk.},
     file = {All Papers/2023/Araújo et al. 2023 - Steering self-organisation through confinement.pdf},
     pmc = {PMC9977364},
     pmid = {36779972},
     language = {en}
   }
   

   Self-organisation is the spontaneous emergence of spatio-temporal structures and patterns from the interaction of smaller individual units. Examples are found across many scales in very different systems and scientific disciplines, from physics, materials science and robotics to biology, geophysics and astronomy. Recent research has highlighted how self-organisation can be both mediated and controlled by confinement. Confinement is an action over a system that limits its units’ translational and rotational degrees of freedom, thus also influencing the system’s phase space probability density; it can function as either a catalyst or inhibitor of self-organisation. Confinement can then become a means to actively steer the emergence or suppression of collective phenomena in space and time. Here, to provide a common framework and perspective for future research, we examine the role of confinement in the self-organisation of soft-matter systems and identify overarching scientific challenges that need to be addressed to harness its full scientific and technological potential in soft matter and related fields. By drawing analogies with other disciplines, this framework will accelerate a common deeper understanding of self-organisation and trigger the development of innovative strategies to steer it using confinement, with impact on, e.g., the design of smarter materials, tissue engineering for biomedicine and in guiding active matter.

3. Atkins, J. W., Bhatt, P., Carrasco, L., Francis, E., Garabedian, J. E., Hakkenberg, C. R., Hardiman, B. S., Jung, J., Koirala, A., LaRue, E. A., Oh, S., Shao, G., Shao, G., Shugart, H. H., Spiers, A., Stovall, A. E. L., Surasinghe, T. D., Tai, X., Zhai, L., … Krause, K. (2023). Integrating forest structural diversity measurement into ecological research [Journal Article]. Ecosphere, 14(9), e4633.

   @article{RN1020,
     title = {Integrating forest structural diversity measurement into ecological research},
     author = {Atkins, Jeff W and Bhatt, Parth and Carrasco, Luis and Francis, Emily and Garabedian, James E and Hakkenberg, Christopher R and Hardiman, Brady S and Jung, Jinha and Koirala, Anil and LaRue, Elizabeth A and Oh, Sungchan and Shao, Gang and Shao, Guofan and Shugart, H. H. and Spiers, Anna and Stovall, Atticus E. L. and Surasinghe, Thilina D. and Tai, Xiaonan and Zhai, Lu and Zhang, Tao and Krause, Keith},
     year = {2023},
     journal = {Ecosphere},
     volume = {14},
     number = {9},
     pages = {e4633},
     issn = {2150-8925},
     type = {Journal Article}
   }
   

4. Barden, P. (2023). Community form, function and phylogenetic diversity respond differently across microhabitat and recovery gradients. Journal of Animal Ecology, 92(7), 1290–1293.

   @article{barden2023community,
     title = {Community form, function and phylogenetic diversity respond differently across microhabitat and recovery gradients},
     author = {Barden, Phillip},
     year = {2023},
     journal = {Journal of Animal Ecology},
     volume = {92},
     number = {7},
     pages = {1290--1293}
   }
   

5. Barden, P. (2023). Where the Hell Ants Came From. American Entomologist, 69(3), 36–37.

   @article{barden2023hell,
     title = {Where the Hell Ants Came From},
     author = {Barden, Phillip},
     year = {2023},
     journal = {American Entomologist},
     publisher = {Oxford University Press US},
     volume = {69},
     number = {3},
     pages = {36--37}
   }
   

6. Barden, P. M. (2023). Collaborative Research: RUI: Uncovering eusocial pathways and consequences: Phylogenomics, morphological, and molecular evolution in Synalpheus snapping shrimps. NSF Award Number 2306958. Directorate for Biological Sciences, 23(2306958), 6958.

   @article{barden2023collaborative,
     title = {Collaborative Research: RUI: Uncovering eusocial pathways and consequences: Phylogenomics, morphological, and molecular evolution in Synalpheus snapping shrimps.},
     author = {Barden, Phillip M},
     year = {2023},
     journal = {NSF Award Number 2306958. Directorate for Biological Sciences},
     volume = {23},
     number = {2306958},
     pages = {6958}
   }
   

7. Biswas, D., Lamperski, A., Yang, Y., Hoffman, K., Guckenheimer, J., Fortune, E. S., & Cowan, N. J. (2023). Organisms use mode-switching to solve the explore-vs-exploit problem. BioRxiv, 2023–2001.

   @article{biswas2023organisms,
     title = {Organisms use mode-switching to solve the explore-vs-exploit problem},
     author = {Biswas, Debojyoti and Lamperski, Andrew and Yang, Yu and Hoffman, Kathleen and Guckenheimer, John and Fortune, Eric S and Cowan, Noah J},
     year = {2023},
     journal = {bioRxiv},
     publisher = {Cold Spring Harbor Laboratory},
     pages = {2023--01}
   }
   

8. Biswas, D., Lamperski, A., Yang, Y., Hoffman, K., Guckenheimer, J., Fortune, E. S., & Cowan, N. J. (2023). Mode switching in organisms for solving explore-versus-exploit problems. Nature Machine Intelligence, 5(11), 1285–1296.

   @article{biswas2023mode,
     title = {Mode switching in organisms for solving explore-versus-exploit problems},
     author = {Biswas, Debojyoti and Lamperski, Andrew and Yang, Yu and Hoffman, Kathleen and Guckenheimer, John and Fortune, Eric S and Cowan, Noah J},
     year = {2023},
     journal = {Nature Machine Intelligence},
     publisher = {Nature Publishing Group UK London},
     volume = {5},
     number = {11},
     pages = {1285--1296}
   }
   

9. Carlesso, D., McNab, J. M., Lustri, C. J., Garnier, S., & Reid, C. R. (2023). A simple mechanism for collective decision-making in the absence of payoff information. Proceedings of the National Academy of Sciences of the United States of America, 120(29), e2216217120. https://doi.org/10.1073/pnas.2216217120
   DOI ABSTRACT

   @article{Carlesso2023ot,
     title = {A simple mechanism for collective decision-making in the absence of payoff information},
     author = {Carlesso, Daniele and McNab, Justin M and Lustri, Christopher J and Garnier, Simon and Reid, Chris R},
     year = {2023},
     month = {18~jul},
     journal = {Proceedings of the National Academy of Sciences of the United States of America},
     volume = {120},
     number = {29},
     pages = {e2216217120},
     doi = {10.1073/pnas.2216217120},
     issn = {0027-8424,1091-6490},
     url = {http://dx.doi.org/10.1073/pnas.2216217120},
     affiliation = {School of Natural Sciences, Macquarie University, Sydney, NSW 2109, Australia. School of Mathematics and Statistics, The University of Sydney, Camperdown, NSW 2006, Australia. School of Mathematical and Physical Sciences, Macquarie University, Sydney, NSW 2109, Australia. Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ 07102.},
     file = {All Papers/2023/Carlesso et al. 2023 - A simple mechanism for collective decision-making in the absence of payoff information.pdf},
     eprint = {https://www.pnas.org/doi/pdf/10.1073/pnas.2216217120},
     keywords = {collective behavior; collective decision-making; self-assembly; swarm intelligence; uncertainty},
     pmc = {PMC10629567},
     pmid = {37428910},
     language = {en}
   }
   

   Animals are often faced with time-critical decisions without prior information about their actions’ outcomes. In such scenarios, individuals budget their investment into the task to cut their losses in case of an adverse outcome. In animal groups, this may be challenging because group members can only access local information, and consensus can only be achieved through distributed interactions among individuals. Here, we combined experimental analyses with theoretical modeling to investigate how groups modulate their investment into tasks in uncertain conditions. Workers of the arboreal weaver ant Oecophylla smaragdina form three-dimensional chains using their own bodies to bridge vertical gaps between existing trails and new areas to explore. The cost of a chain increases with its length because ants participating in the structure are prevented from performing other tasks. The payoffs of chain formation, however, remain unknown to the ants until the chain is complete and they can explore the new area. We demonstrate that weaver ants cap their investment into chains, and do not form complete chains when the gap is taller than 90 mm. We show that individual ants budget the time they spend in chains depending on their distance to the ground, and propose a distance-based model of chain formation that explains the emergence of this tradeoff without the need to invoke complex cognition. Our study provides insights into the proximate mechanisms that lead individuals to engage (or not) in collective actions and furthers our knowledge of how decentralized groups make adaptive decisions in uncertain conditions.

10. Cronin, E. M., Schneider, A. C., Nadim, F., & Bucher, D. (2023). Neuropeptides with different cellular targets elicit similar output in a central pattern generating circuit. Biorxiv: the Preprint Server for Biology.

    @article{cronin2023neuropeptides,
      title = {Neuropeptides with different cellular targets elicit similar output in a central pattern generating circuit.},
      author = {Cronin, Elizabeth M and Schneider, Anna C and Nadim, Farzan and Bucher, Dirk},
      year = {2023},
      journal = {Biorxiv: the Preprint Server for Biology}
    }
    

11. Edgar, A., Ponciano, J. M., & Martindale, M. Q. (2023). Reply to Soto-Angel et al.: Is “larva” a natural kind? Phylogenetic thinking provides clarity. Proceedings of the National Academy of Sciences, 120(4). https://doi.org/10.1073/pnas.2219704120
    DOI

    @article{Edgar_2023,
      title = {Reply to Soto-Angel et~al.: Is ``larva'' a natural kind? Phylogenetic thinking provides clarity},
      author = {Edgar, Allison and Ponciano, Jos\'{e} Miguel and Martindale, Mark Q.},
      year = {2023},
      month = jan,
      journal = {Proceedings of the National Academy of Sciences},
      publisher = {Proceedings of the National Academy of Sciences},
      volume = {120},
      number = {4},
      doi = {10.1073/pnas.2219704120},
      issn = {1091-6490},
      url = {http://dx.doi.org/10.1073/pnas.2219704120}
    }
    

12. Fan, X., Ma, R., Yue, C., Liu, J., Yue, B., Yang, W., Li, Y., Gu, J., Ayala, J. E., Bunker, D. E., & others. (2023). A snapshot of climate drivers and temporal variation of Ixodes ovatus abundance from a giant panda living in the wild. International Journal for Parasitology: Parasites and Wildlife, 20, 162–169.

    @article{fan2023snapshot,
      title = {A snapshot of climate drivers and temporal variation of Ixodes ovatus abundance from a giant panda living in the wild},
      author = {Fan, Xueyang and Ma, Rui and Yue, Changjuan and Liu, Jiabin and Yue, Bisong and Yang, Wanjing and Li, Yunli and Gu, Jiang and Ayala, James E and Bunker, Daniel E and others},
      year = {2023},
      journal = {International Journal for Parasitology: Parasites and Wildlife},
      publisher = {Elsevier},
      volume = {20},
      pages = {162--169}
    }
    

13. Fiorentino, G., Lattke, J., Troya, A., Sosiak, C., Dong, M., & Barden, P. (2023). Deep time extinction of largest insular ant predators and the first fossil Neoponera (Formicidae: Ponerinae) from Miocene age Dominican amber. BMC Biology, 21(1), 26.

    @article{fiorentino2023deep,
      title = {Deep time extinction of largest insular ant predators and the first fossil Neoponera (Formicidae: Ponerinae) from Miocene age Dominican amber},
      author = {Fiorentino, Gianpiero and Lattke, John and Troya, Adrian and Sosiak, Christine and Dong, Minsoo and Barden, Phillip},
      year = {2023},
      journal = {BMC biology},
      publisher = {BioMed Central London},
      volume = {21},
      number = {1},
      pages = {26}
    }
    

14. Gumuskaya, G., Srivastava, P., Cooper, B. G., Lesser, H., Semegran, B., Garnier, S., & Levin, M. (2023). Motile Living Biobots Self-Construct from Adult Human Somatic Progenitor Seed Cells. Advancement of Science, 11(4), e2303575. https://doi.org/10.1002/advs.202303575
    DOI ABSTRACT

    @article{Gumuskaya2023dk,
      title = {Motile Living Biobots Self-Construct from Adult Human Somatic Progenitor Seed Cells},
      author = {Gumuskaya, Gizem and Srivastava, Pranjal and Cooper, Ben G and Lesser, Hannah and Semegran, Ben and Garnier, Simon and Levin, Michael},
      year = {2023},
      month = {22~feb},
      journal = {Advancement of science},
      publisher = {John Wiley \& Sons, Ltd},
      volume = {11},
      number = {4},
      pages = {e2303575},
      doi = {10.1002/advs.202303575},
      issn = {0001-866X},
      url = {http://dx.doi.org/10.1002/advs.202303575},
      affiliation = {Allen Discovery Center at Tufts University, and Department of Biology, Tufts University, Medford, MA, 02155, USA. Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA, 02115, USA. Federated Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ, 07102, USA.},
      file = {All Papers/2023/Gumuskaya et al. 2023 - Motile Living Biobots Self-Construct from Adult Human Somatic Progenitor Seed Cells.pdf;All Papers/2023/Gumuskaya et al. 2023 - Motile Living Biobots Self-Construct from Adult Human Somatic Progenitor Seed Cells.pdf},
      keywords = {biobot; bioengineering; emergence; morphogenesis; repair; self-assembly},
      pmc = {PMC10811512},
      pmid = {38032125},
      language = {en}
    }
    

    Fundamental knowledge gaps exist about the plasticity of cells from adult soma and the potential diversity of body shape and behavior in living constructs derived from genetically wild-type cells. Here anthrobots are introduced, a spheroid-shaped multicellular biological robot (biobot) platform with diameters ranging from 30 to 500 microns and cilia-powered locomotive abilities. Each Anthrobot begins as a single cell, derived from the adult human lung, and self-constructs into a multicellular motile biobot after being cultured in extra cellular matrix for 2 weeks and transferred into a minimally viscous habitat. Anthrobots exhibit diverse behaviors with motility patterns ranging from tight loops to straight lines and speeds ranging from 5-50 microns s-1 . The anatomical investigations reveal that this behavioral diversity is significantly correlated with their morphological diversity. Anthrobots can assume morphologies with fully polarized or wholly ciliated bodies and spherical or ellipsoidal shapes, each related to a distinct movement type. Anthrobots are found to be capable of traversing, and inducing rapid repair of scratches in, cultured human neural cell sheets in vitro. By controlling microenvironmental cues in bulk, novel structures, with new and unexpected behavior and biomedically-relevant capabilities, can be discovered in morphogenetic processes without direct genetic editing or manual sculpting.

15. Haspel, G., Baker, B., Beets, I., Boyden, E. S., Brown, J., Church, G., Cohen, N., Colon-Ramos, D., Dyer, E., Fang-Yen, C., & others. (2023). The time is ripe to reverse engineer an entire nervous system: simulating behavior from neural interactions. ArXiv Preprint ArXiv:2308.06578.

    @article{haspel2023time,
      title = {The time is ripe to reverse engineer an entire nervous system: simulating behavior from neural interactions},
      author = {Haspel, Gal and Baker, Ben and Beets, Isabel and Boyden, Edward S and Brown, Jeffrey and Church, George and Cohen, Netta and Colon-Ramos, Daniel and Dyer, Eva and Fang-Yen, Christopher and others},
      year = {2023},
      journal = {arXiv preprint arXiv:2308.06578}
    }
    

16. Haspel, G., Boyden, E. S., Brown, J., Church, G., Cohen, N., Fang-Yen, C., Flavell, S., Goodman, M. B., Hart, A. C., Hobert, O., & others. (2023). To reverse engineer an entire nervous system. ArXiv Preprint ArXiv:2308.06578.

    @article{haspel2023reverse,
      title = {To reverse engineer an entire nervous system},
      author = {Haspel, Gal and Boyden, Edward S and Brown, Jeffrey and Church, George and Cohen, Netta and Fang-Yen, Christopher and Flavell, Steven and Goodman, Miriam B and Hart, Anne C and Hobert, Oliver and others},
      year = {2023},
      journal = {arXiv preprint arXiv:2308.06578}
    }
    

17. Levenstein, D., Alvarez, V. A., Amarasingham, A., Azab, H., Chen, Z. S., Gerkin, R. C., Hasenstaub, A., Iyer, R., Jolivet, R. B., Marzen, S., & others. (2023). On the role of theory and modeling in neuroscience. Journal of Neuroscience, 43(7), 1074–1088.

    @article{levenstein2023role,
      title = {On the role of theory and modeling in neuroscience},
      author = {Levenstein, Daniel and Alvarez, Veronica A and Amarasingham, Asohan and Azab, Habiba and Chen, Zhe S and Gerkin, Richard C and Hasenstaub, Andrea and Iyer, Ramakrishnan and Jolivet, Renaud B and Marzen, Sarah and others},
      year = {2023},
      journal = {Journal of Neuroscience},
      publisher = {Society for Neuroscience},
      volume = {43},
      number = {7},
      pages = {1074--1088}
    }
    

18. Li, X., Itani, O., Bucher, D. M., Rotstein, H. G., & Nadim, F. (2023). Distinct mechanisms underlie electrical coupling resonance and its interaction with membrane potential resonance [Journal Article]. Frontiers in Systems Biology, 3, 1122433. https://doi.org/10.3389/fsysb.2023.1122433
    DOI ABSTRACT

    @article{li2023distinct,
      title = {Distinct mechanisms underlie electrical coupling resonance and its interaction with membrane potential resonance},
      author = {Li, Xinping and Itani, Omar and Bucher, Dirk M and Rotstein, Horacio G and Nadim, Farzan},
      year = {2023},
      journal = {Frontiers in Systems Biology},
      publisher = {Frontiers Media SA},
      volume = {3},
      pages = {1122433},
      doi = {10.3389/fsysb.2023.1122433},
      issn = {2674-0702},
      url = {https://www.frontiersin.org/articles/10.3389/fsysb.2023.1122433},
      keywords = {oscillation,central pattern generator,Stomatogastric,Gap Junctions,resonance},
      type = {Journal Article}
    }
    

    Neurons in oscillatory networks often exhibit membrane potential resonance, a peak impedance at a non-zero input frequency. In electrically coupled oscillatory networks, the coupling coefficient (the ratio of post- and prejunctional voltage responses) could also show resonance. Such coupling resonance may emerge from the interaction between the coupling current and resonance properties of the coupled neurons, but this relationship has not been clearly described. Additionally, it is unknown if the gap-junction mediated electrical coupling conductance may have frequency dependence. We examined these questions by recording a pair of electrically coupled neurons in the oscillatory pyloric network of the crab Cancer borealis. We performed dual current- and voltage-clamp recordings and quantified the frequency preference of the coupled neurons, the coupling coefficient, the electrical conductance, and the postjunctional neuronal response. We found that all components exhibit frequency selectivity, but with distinct preferred frequencies. Mathematical and computational analysis showed that membrane potential resonance of the postjunctional neuron was sufficient to give rise to resonance properties of the coupling coefficient, but not the coupling conductance. A distinct coupling conductance resonance frequency therefore emerges either from other circuit components or from the gating properties of the gap junctions. Finally, to explore the functional effect of the resonance of the coupling conductance, we examined its role in synchronizing neuronal the activities of electrically coupled bursting model neurons. Together, our findings elucidate factors that produce electrical coupling resonance and the function of this resonance in oscillatory networks.

19. Ma, Q., Su, Y., Niu, C., Ma, Q., Hu, T., Luo, X., Tai, X., Qiu, T., Zhang, Y., & Bales, R. C. (2023). Tree mortality during long-term droughts is lower in structurally complex forest stands [Journal Article]. Nature Communications, 14(1), 7467.

    @article{RN1019,
      title = {Tree mortality during long-term droughts is lower in structurally complex forest stands},
      author = {Ma, Qin and Su, Yanjun and Niu, Chunyue and Ma, Qin and Hu, Tianyu and Luo, Xiangzhong and Tai, Xiaonan and Qiu, Tong and Zhang, Yao and Bales, Roger C},
      year = {2023},
      journal = {Nature communications},
      volume = {14},
      number = {1},
      pages = {7467},
      issn = {2041-1723},
      type = {Journal Article}
    }
    

20. Muratore, I. B., & Garnier, S. (2023). Ontogeny of collective behaviour. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences, 378(1874), 20220065. https://doi.org/10.1098/rstb.2022.0065
    DOI ABSTRACT

    @article{Muratore2023fo,
      title = {Ontogeny of collective behaviour},
      author = {Muratore, Isabella Benter and Garnier, Simon},
      year = {2023},
      month = {10~apr},
      journal = {Philosophical transactions of the Royal Society of London. Series B, Biological sciences},
      publisher = {Royal Society},
      volume = {378},
      number = {1874},
      pages = {20220065},
      doi = {10.1098/rstb.2022.0065},
      issn = {0962-8436,1471-2970},
      url = {http://dx.doi.org/10.1098/rstb.2022.0065},
      affiliation = {Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ 07102, USA.},
      file = {All Papers/2023/Muratore and Garnier 2023 - Ontogeny of collective behaviour.pdf},
      keywords = {collective architecture; collective behaviour; development; ontogeny; self-assemblage; social insects},
      pmc = {PMC9939274},
      pmid = {36802780},
      language = {en}
    }
    

    During their lifetime, superorganisms, like unitary organisms, undergo transformations that change the machinery of their collective behaviour. Here, we suggest that these transformations are largely understudied and propose that more systematic research into the ontogeny of collective behaviours is needed if we hope to better understand the link between proximate behavioural mechanisms and the development of collective adaptive functions. In particular, certain social insects engage in self-assemblage, forming dynamic and physically connected architectures with striking similarities to developing multicellular organisms, making them good model systems for ontogenetic studies of collective behaviour. However, exhaustive time series and three-dimensional data are required to thoroughly characterize the different life stages of the collective structures and the transitions between these stages. The well-established fields of embryology and developmental biology offer practical tools and theoretical frameworks that could speed up the acquisition of new knowledge about the formation, development, maturity and dissolution of social insect self-assemblages and, by extension, other superorganismal behaviours. We hope that this review will encourage an expansion of the ontogenetic perspective in the field of collective behaviour and, in particular, in self-assemblage research, which has far-reaching applications in robotics, computer science and regenerative medicine. This article is part of a discussion meeting issue ’Collective behaviour through time’.

21. Papadopoulou, M., Fürtbauer, I., O'Bryan, L. R., Garnier, S., Georgopoulou, D. G., Bracken, A. M., Christensen, C., & King, A. J. (2023). Dynamics of collective motion across time and species. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences, 378(1874), 20220068. https://doi.org/10.1098/rstb.2022.0068
    DOI ABSTRACT

    @article{Papadopoulou2023rr,
      title = {Dynamics of collective motion across time and species},
      author = {Papadopoulou, Marina and F\"{u}rtbauer, Ines and O\'Bryan, Lisa R and Garnier, Simon and Georgopoulou, Dimitra G and Bracken, Anna M and Christensen, Charlotte and King, Andrew J},
      year = {2023},
      month = {10~apr},
      journal = {Philosophical transactions of the Royal Society of London. Series B, Biological sciences},
      publisher = {Royal Society},
      volume = {378},
      number = {1874},
      pages = {20220068},
      doi = {10.1098/rstb.2022.0068},
      issn = {0962-8436,1471-2970},
      url = {http://dx.doi.org/10.1098/rstb.2022.0068},
      affiliation = {Biosciences, School of Biosciences, Geography and Physics, Faculty of Science and Engineering, Swansea University, SA2 8PP Swansea, UK. Department of Psychological Sciences, Rice University, Houston, TX 77005, USA. Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ 07102, USA. Institute of Marine Biology, Biotechnology \& Aquaculture, HCMR, 71500 Hersonissos, Crete, Greece. School of Biodiversity, One Health and Veterinary Medicine, Graham Kerr Building, Glasgow G12 8QQ, UK. Department of Evolutionary Biology and Environmental Studies, University of Zurich, 8057 Z\"{u}rich, Switzerland.},
      file = {All Papers/2023/Papadopoulou et al. 2023 - Dynamics of collective motion across time and species.pdf},
      keywords = {baboon troop; bird flock; collective animal behaviour; fish school; goat herd},
      pmc = {PMC9939269},
      pmid = {36802781},
      language = {en}
    }
    

    Most studies of collective animal behaviour rely on short-term observations, and comparisons of collective behaviour across different species and contexts are rare. We therefore have a limited understanding of intra- and interspecific variation in collective behaviour over time, which is crucial if we are to understand the ecological and evolutionary processes that shape collective behaviour. Here, we study the collective motion of four species: shoals of stickleback fish (Gasterosteus aculeatus), flocks of homing pigeons (Columba livia), a herd of goats (Capra aegagrus hircus) and a troop of chacma baboons (Papio ursinus). First, we describe how local patterns (inter-neighbour distances and positions), and group patterns (group shape, speed and polarization) during collective motion differ across each system. Based on these, we place data from each species within a ’swarm space’, affording comparisons and generating predictions about the collective motion across species and contexts. We encourage researchers to add their own data to update the ’swarm space’ for future comparative work. Second, we investigate intraspecific variation in collective motion over time and provide guidance for researchers on when observations made over different time scales can result in confident inferences regarding species collective motion. This article is part of a discussion meeting issue ’Collective behaviour through time’.

22. Rouhana, L., Edgar, A., Hugosson, F., Dountcheva, V., Martindale, M. Q., & Ryan, J. F. (2023). Cytoplasmic polyadenylation is an ancestral hallmark of early development in animals. https://doi.org/10.1101/2023.05.10.540224
    DOI

    @article{Rouhana_2023,
      title = {Cytoplasmic polyadenylation is an ancestral hallmark of early development in animals},
      author = {Rouhana, Labib and Edgar, Allison and Hugosson, Fredrik and Dountcheva, Valeria and Martindale, Mark Q. and Ryan, Joseph F.},
      year = {2023},
      month = may,
      publisher = {Cold Spring Harbor Laboratory},
      doi = {10.1101/2023.05.10.540224},
      url = {http://dx.doi.org/10.1101/2023.05.10.540224}
    }
    

23. Saro-Cortes, V., Cui, Y., Yanez, J., Flammang, B., & Wissa, A. (2023). Experimental study of the effect of caudal fin stiffness on taxi locomotion of a robotic flying fish model. Bulletin of the American Physical Society.

    @article{saro2023experimental,
      title = {Experimental study of the effect of caudal fin stiffness on taxi locomotion of a robotic flying fish model.},
      author = {Saro-Cortes, Valeria and Cui, Yuhe and Yanez, Jose and Flammang, Brooke and Wissa, Aimy},
      year = {2023},
      journal = {Bulletin of the American Physical Society},
      publisher = {American Physical Society}
    }
    

24. Sawh, I., Bae, E., Camilo, L., Lanan, M., Lucky, A., Menezes, H. M., Fiorentino, G., Sosiak, C., Khadempour, L., & Barden, P. (2023). The first fossil replete ant worker establishes living food storage in the Eocene. Myrmecological News, 33, 139–147.

    @article{sawh2023first,
      title = {The first fossil replete ant worker establishes living food storage in the Eocene},
      author = {Sawh, Indira and Bae, Eunice and Camilo, Luciana and Lanan, Michele and Lucky, Andrea and Menezes, Henrique Morais and Fiorentino, Gianpiero and Sosiak, Christine and Khadempour, Lily and Barden, Phillip},
      year = {2023},
      journal = {Myrmecological News},
      volume = {33},
      pages = {139--147}
    }
    

25. Soares, D., Gallman, K., Bichuette, M. E., & Fortune, E. S. (2023). Adaptive shift of active electroreception in weakly electric fish for troglobitic life. Frontiers in Ecology and Evolution, 11, 1180506.

    @article{soares2023adaptive,
      title = {Adaptive shift of active electroreception in weakly electric fish for troglobitic life},
      author = {Soares, Daphne and Gallman, Kathryn and Bichuette, Maria Elina and Fortune, Eric S},
      year = {2023},
      journal = {Frontiers in Ecology and Evolution},
      publisher = {Frontiers Media SA},
      volume = {11},
      pages = {1180506}
    }
    

26. Sosiak, C., Janovitz, T., Perrichot, V., Timonera, J. P., & Barden, P. (2023). Trait-based paleontological niche prediction recovers extinct ecological breadth of the earliest specialized ant predators. The American Naturalist.

    @article{sosiak2023trait,
      title = {Trait-based paleontological niche prediction recovers extinct ecological breadth of the earliest specialized ant predators},
      author = {Sosiak, Christine and Janovitz, Tyler and Perrichot, Vincent and Timonera, John Paul and Barden, Phillip},
      year = {2023},
      journal = {The American Naturalist}
    }
    

27. Sosiak, C. E., Borowiec, M. L., & Barden, P. (2023). An Invited Reply to: A Comment on: An Eocene army ant (2022) by Sosiak CE et al. Biology Letters, 19(4), 20230140.

    @article{sosiak2023invited,
      title = {An Invited Reply to: A Comment on: An Eocene army ant (2022) by Sosiak CE et al.},
      author = {Sosiak, Christine E and Borowiec, Marek L and Barden, Phillip},
      year = {2023},
      journal = {Biology Letters},
      publisher = {The Royal Society},
      volume = {19},
      number = {4},
      pages = {20230140}
    }
    

28. Tai, X., Trugman, A. T., & Anderegg, W. R. L. (2023). Linking remotely sensed ecosystem resilience with forest mortality across the continental United States [Journal Article]. Global Change Biology, 29(4), 1096–1105.

    @article{RN1021,
      title = {Linking remotely sensed ecosystem resilience with forest mortality across the continental United States},
      author = {Tai, Xiaonan and Trugman, Anna T and Anderegg, William RL},
      year = {2023},
      journal = {Global Change Biology},
      volume = {29},
      number = {4},
      pages = {1096--1105},
      issn = {1354-1013},
      type = {Journal Article}
    }
    

29. Wilson, M. M., Emam, A., Davis, S. R., Hall, G., Barden, P., & Ware, J. L. (2023). Description of a novel termite ectoparasite, Termitaria hexasporodochia sp. nov.(Kathistaceae), presenting an unusual six-sectioned infestation, and a key to the fungal family Kathistaceae. Phytotaxa, 591(2), 106–124.

    @article{wilson2023description,
      title = {Description of a novel termite ectoparasite, Termitaria hexasporodochia sp. nov.(Kathistaceae), presenting an unusual six-sectioned infestation, and a key to the fungal family Kathistaceae},
      author = {Wilson, Megan M and Emam, Amany and Davis, Steven R and Hall, Gene and Barden, Phillip and Ware, Jessica L},
      year = {2023},
      journal = {Phytotaxa},
      volume = {591},
      number = {2},
      pages = {106--124}
    }
    

2022

1. Anwar, H., Martinez, D., Bucher, D., & Nadim, F. (2022). Inter-Animal Variability in Activity Phase Is Constrained by Synaptic Dynamics in an Oscillatory Network [Journal Article]. ENeuro, 9(4). https://doi.org/10.1523/ENEURO.0027-22.2022
   DOI ABSTRACT

   @article{RN4061,
     title = {Inter-Animal Variability in Activity Phase Is Constrained by Synaptic Dynamics in an Oscillatory Network},
     author = {Anwar, H. and Martinez, D. and Bucher, D. and Nadim, F.},
     year = {2022},
     journal = {eNeuro},
     publisher = {Society for Neuroscience},
     volume = {9},
     number = {4},
     doi = {10.1523/ENEURO.0027-22.2022},
     issn = {2373-2822 (Electronic) 2373-2822 (Linking)},
     url = {https://www.ncbi.nlm.nih.gov/pubmed/35817566 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9319424/pdf/ENEURO.0027-22.2022.pdf},
     note = {Anwar, Haroon Martinez, Diana Bucher, Dirk Nadim, Farzan eng R01 MH060605/MH/NIMH NIH HHS/ Research Support, N.I.H., Extramural eNeuro. 2022 Jul 25;9(4). pii: ENEURO.0027-22.2022. doi: 10.1523/ENEURO.0027-22.2022. Print 2022 Jul-Aug.},
     keywords = {Animals \textasteriskcenteredBrachyura Ganglia \textasteriskcenteredGanglia, Invertebrate/physiology Neurons/physiology Pylorus/physiology \textasteriskcenteredcorrelations \textasteriskcentereddynamic clamp \textasteriskcenteredoscillation \textasteriskcenteredphase maintenance \textasteriskcenteredstomatogastric \textasteriskcenteredsynaptic dynamics},
     type = {Journal Article}
   }
   

   The levels of voltage-gated and synaptic currents in the same neuron type can vary substantially across individuals. Yet, the phase relationships between neurons in oscillatory circuits are often maintained, even in the face of varying oscillation frequencies. We examined whether synaptic and intrinsic currents are matched to maintain constant activity phases across preparations, using the lateral pyloric (LP) neuron of the stomatogastric ganglion (STG) of the crab, Cancer borealis LP produces stable oscillatory bursts on release from inhibition, with an onset phase that is independent of oscillation frequency. We quantified the parameters that define the shape of the synaptic current inputs across preparations and found no linear correlations with voltage-gated currents. However, several synaptic parameters were correlated with oscillation period and burst onset phase, suggesting they may play a role in phase maintenance. We used dynamic clamp to apply artificial synaptic inputs and found that those synaptic parameters correlated with phase and period were ineffective in influencing burst onset. Instead, parameters that showed the least variability across preparations had the greatest influence. Thus, parameters that influence circuit phasing are constrained across individuals, while those that have little effect simply co-vary with phase and frequency.

2. Barden, P., & Engel, M. S. (2022). The vision of David Grimaldi. Palaeoentomology, 5(5), 406–429.

   @article{barden2022vision,
     title = {The vision of David Grimaldi},
     author = {Barden, Phillip and Engel, Michael S},
     year = {2022},
     journal = {Palaeoentomology},
     volume = {5},
     number = {5},
     pages = {406--429}
   }
   

3. Barden, P., Sosiak, C. E., Grajales, J., Hawkins, J., Rizzo, L., Clark, A., Gatley, S., Gatley, I., & Federici, J. (2022). Non-destructive comparative evaluation of fossil amber using terahertz time-domain spectroscopy. Plos One, 17(3), e0262983.

   @article{barden2022non,
     title = {Non-destructive comparative evaluation of fossil amber using terahertz time-domain spectroscopy},
     author = {Barden, Phillip and Sosiak, Christine E and Grajales, Jonpierre and Hawkins, John and Rizzo, Louis and Clark, Alexander and Gatley, Samuel and Gatley, Ian and Federici, John},
     year = {2022},
     journal = {Plos One},
     publisher = {Public Library of Science San Francisco, CA USA},
     volume = {17},
     number = {3},
     pages = {e0262983}
   }
   

4. Barden, P. M. (2022). CAREER: Fossil Amber Insight Into Macroevolutionary Dynamics in an Ecologically Diverse Island System. NSF Award Number 2144915. Directorate for Biological Sciences, 21(2144915), 44915.

   @article{barden2022career,
     title = {CAREER: Fossil Amber Insight Into Macroevolutionary Dynamics in an Ecologically Diverse Island System},
     author = {Barden, Phillip M},
     year = {2022},
     journal = {NSF Award Number 2144915. Directorate for Biological Sciences},
     volume = {21},
     number = {2144915},
     pages = {44915}
   }
   

5. Boudinot, B. E., Khouri, Z., Richter, A., Griebenow, Z. H., van de Kamp, T., Perrichot, V., & Barden, P. (2022). Evolution and systematics of the Aculeata and kin (Hymenoptera), with emphasis on the ants (Formicoidea:\textdagger\@\@\@idae fam. nov., Formicidae). BioRxiv, 2022–2002.

   @article{boudinot2022evolution,
     title = {Evolution and systematics of the Aculeata and kin (Hymenoptera), with emphasis on the ants (Formicoidea:\textdagger{}\@\@\@ idae fam. nov., Formicidae)},
     author = {Boudinot, Brendon E and Khouri, Ziad and Richter, Adrian and Griebenow, Zachary H and van de Kamp, Thomas and Perrichot, Vincent and Barden, Phillip},
     year = {2022},
     journal = {BioRxiv},
     publisher = {Cold Spring Harbor Laboratory},
     pages = {2022--02}
   }
   

6. Clark, A. T., D’Anna, S., Nemati, J., Barden, P., Gatley, I., & Federici, J. (2022). Evaluation of fossil amber birefringence and inclusions using terahertz time-domain spectroscopy. Polymers, 14(24), 5506.

   @article{clark2022evaluation,
     title = {Evaluation of fossil amber birefringence and inclusions using terahertz time-domain spectroscopy},
     author = {Clark, Alexander T and D'Anna, Sophia and Nemati, Jessy and Barden, Phillip and Gatley, Ian and Federici, John},
     year = {2022},
     journal = {Polymers},
     publisher = {MDPI},
     volume = {14},
     number = {24},
     pages = {5506}
   }
   

7. Coleman, M. J., Day, N. F., & Fortune, E. S. (2022). Neural mechanisms for turn-taking in duetting plain-tailed wrens. Frontiers in Neural Circuits, 16, 970434.

   @article{coleman2022neural,
     title = {Neural mechanisms for turn-taking in duetting plain-tailed wrens},
     author = {Coleman, Melissa J and Day, Nancy F and Fortune, Eric S},
     year = {2022},
     journal = {Frontiers in Neural Circuits},
     publisher = {Frontiers Media SA},
     volume = {16},
     pages = {970434}
   }
   

8. Crawford, C. H., Webber-Schultz, A., Hart, P. B., Randall, Z. S., Cerrato-Morales, C., Kellogg, A. B., Amplo, H. E., Suvarnaraksha, A., Page, L. M., Chakrabarty, P., & others. (2022). They like to move it (move it): walking kinematics of balitorid loaches of Thailand. Journal of Experimental Biology, 225(6), jeb242906.

   @article{crawford2022they,
     title = {They like to move it (move it): walking kinematics of balitorid loaches of Thailand},
     author = {Crawford, Callie H and Webber-Schultz, Amani and Hart, Pamela B and Randall, Zachary S and Cerrato-Morales, Cristian and Kellogg, Audrey B and Amplo, Haley E and Suvarnaraksha, Apinun and Page, Lawrence M and Chakrabarty, Prosanta and others},
     year = {2022},
     journal = {Journal of Experimental Biology},
     publisher = {The Company of Biologists Ltd},
     volume = {225},
     number = {6},
     pages = {jeb242906}
   }
   

9. Edgar, A., Ponciano, J. M., & Martindale, M. Q. (2022). Ctenophores are direct developers that reproduce continuously beginning very early after hatching. Proceedings of the National Academy of Sciences, 119(18). https://doi.org/10.1073/pnas.2122052119
   DOI

   @article{Edgar_2022,
     title = {Ctenophores are direct developers that reproduce continuously beginning very early after hatching},
     author = {Edgar, Allison and Ponciano, Jos\'{e} Miguel and Martindale, Mark Q.},
     year = {2022},
     month = apr,
     journal = {Proceedings of the National Academy of Sciences},
     publisher = {Proceedings of the National Academy of Sciences},
     volume = {119},
     number = {18},
     doi = {10.1073/pnas.2122052119},
     issn = {1091-6490},
     url = {http://dx.doi.org/10.1073/pnas.2122052119}
   }
   

10. Engel, M. S., Herhold, H. W., & Barden, P. (2022). A proctotrupid wasp in Lebanese Lower Cretaceous amber (Hymenoptera: Proctotrupidae). Palaeoentomology, 5(5), 439–444.

    @article{engel2022proctotrupid,
      title = {A proctotrupid wasp in Lebanese Lower Cretaceous amber (Hymenoptera: Proctotrupidae)},
      author = {Engel, Michael S and Herhold, Hollister W and Barden, Phillip},
      year = {2022},
      journal = {Palaeoentomology},
      publisher = {Magnolia Press},
      volume = {5},
      number = {5},
      pages = {439--444}
    }
    

11. Fan, X., Wang, C., & Bunker, D. E. (2022). Population structure of German cockroaches (Blattodea: Ectobiidae) in an urban environment based on single nucleotide polymorphisms. Journal of Medical Entomology, 59(4), 1319–1327.

    @article{fan2022population,
      title = {Population structure of German cockroaches (Blattodea: Ectobiidae) in an urban environment based on single nucleotide polymorphisms},
      author = {Fan, X and Wang, C and Bunker, DE},
      year = {2022},
      journal = {Journal of medical entomology},
      publisher = {Oxford University Press US},
      volume = {59},
      number = {4},
      pages = {1319--1327}
    }
    

12. Fan, X., Ma, R., Yue, C., Liu, J., Yue, B., Yang, Z., Yang, W., Li, Y., Gu, J., Yan, X., & others. (2022). Climate drivers and temporal variation of Ixode ovatus abundance on a giant panda living in the wild.

    @article{fan2022climate,
      title = {Climate drivers and temporal variation of Ixode ovatus abundance on a giant panda living in the wild},
      author = {Fan, Xueyang and Ma, Rui and Yue, Changjuan and Liu, Jiabin and Yue, Bisong and Yang, Zhisong and Yang, Wanjing and Li, Yunli and Gu, Jiang and Yan, Xia and others},
      year = {2022}
    }
    

13. Flammang, B. E. (2022). Bioinspired design in research: Evolution as beta-testing. Integrative and Comparative Biology, 62(5), 1164–1173.

    @article{flammang2022bioinspired,
      title = {Bioinspired design in research: Evolution as beta-testing},
      author = {Flammang, Brooke E},
      year = {2022},
      journal = {Integrative and comparative biology},
      publisher = {Oxford University Press},
      volume = {62},
      number = {5},
      pages = {1164--1173}
    }
    

14. Garnier, S., & Moussaı̈d Mehdi. (2022). We the swarm–Methodological, theoretical, and societal (r)evolutions in collective decision-making research. Collective Intelligence, 1(2), 26339137221133400. https://doi.org/10.1177/26339137221133400
    DOI ABSTRACT

    @article{Garnier2022zl,
      title = {We the swarm--Methodological, theoretical, and societal (r)evolutions in collective decision-making research},
      author = {Garnier, Simon and Moussa\"{\i}d, Mehdi},
      year = {2022},
      month = {1~oct},
      journal = {Collective Intelligence},
      publisher = {SAGE Publications},
      volume = {1},
      number = {2},
      pages = {26339137221133400},
      doi = {10.1177/26339137221133400},
      issn = {2633-9137},
      url = {https://doi.org/10.1177/26339137221133400},
      file = {All Papers/2022/Garnier and Moussaïd 2022 - We the swarm—Methodological, theoretical, and societal (r)evolutions in collective decision-making research.pdf}
    }
    

    Collective decision-making constitutes a core function of social systems and is, therefore, a central tenet of collective intelligence research. From fish schools to human crowds, we start by interrogating ourselves about the very definition of collective decision-making and the scope of the scientific research that falls under it. We then summarize its history through the lenses of social choice theory and swarm intelligence and their accelerating collaboration over the past 20 or so years. Finally, we offer our perspective on the future of collective decision-making research in 3 mutually inclusive directions. We argue (1) that the possibility to collect data of a new nature, including fine-grain tracking information, virtual reality, and brain imaging inputs, will enable a direct link between plastic individual cognitive processes and the ontogeny of collective behaviors; (2) that current theoretical frameworks are not well suited to describe the long-term consequences of individual plasticity on collective decision-making processes and that, therefore, new formalisms are necessary; and finally (3) that applying the results of collective decision-making research to real-world situations will require the development of practical tools, the implementation of monitoring processes that respect civil liberties, and, possibly, government regulations of social interventions by public and private actors.

15. Ghobreal, B., Nadim, F., & Sahin, M. (2022). Selective neural stimulation by leveraging electrophysiological differentiation and using pre-pulsing and non-rectangular waveforms. Journal of Computational Neuroscience, 50(3), 313–330.

    @article{ghobreal2022selective,
      title = {Selective neural stimulation by leveraging electrophysiological differentiation and using pre-pulsing and non-rectangular waveforms},
      author = {Ghobreal, Bemin and Nadim, Farzan and Sahin, Mesut},
      year = {2022},
      journal = {Journal of Computational Neuroscience},
      publisher = {Springer US New York},
      volume = {50},
      number = {3},
      pages = {313--330}
    }
    

16. Gorur–Shandilya, S., Cronin, E. M., Schneider, A. C., Haddad, S. A., Rosenbaum, P., Bucher, D., Nadim, F., & Marder, E. (2022). Mapping circuit dynamics during function and dysfunction [Journal Article]. ELIFE, 11, e76579. https://doi.org/10.7554/eLife.76579
    DOI ABSTRACT

    @article{gorur2022mapping,
      title = {Mapping circuit dynamics during function and dysfunction},
      author = {Gorur--Shandilya, Srinivas and Cronin, Elizabeth M and Schneider, Anna C and Haddad, Sara Ann and Rosenbaum, Philipp and Bucher, Dirk and Nadim, Farzan and Marder, Eve},
      year = {2022},
      journal = {ELIFE},
      publisher = {eLIFE SCIENCES PUBL LTD SHERATON HOUSE, CASTLE PARK, CAMBRIDGE, CB3 0AX, ENGLAND},
      volume = {11},
      pages = {e76579},
      doi = {10.7554/eLife.76579},
      issn = {2050-084X (Electronic) 2050-084X (Linking)},
      url = {https://www.ncbi.nlm.nih.gov/pubmed/35302489 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9000962/pdf/elife-76579.pdf},
      note = {Gorur-Shandilya, Srinivas Cronin, Elizabeth M Schneider, Anna C Haddad, Sara A Rosenbaum, Philipp Bucher, Dirk M Nadim, Farzan Marder, Eve eng T32 NS007292/NH/NIH HHS/ R35 NS097343/NH/NIH HHS/ MH060605/NH/NIH HHS/ DFG SCHN 1594/1-1/Deutsche Forschungsgemeinschaft England Elife. 2022 Mar 18;11. pii: 76579. doi: 10.7554/eLife.76579.},
      keywords = {computational biology neuroscience systems biology exist.},
      type = {Journal Article}
    }
    

    Neural circuits can generate many spike patterns, but only some are functional. The study of how circuits generate and maintain functional dynamics is hindered by a poverty of description of circuit dynamics across functional and dysfunctional states. For example, although the regular oscillation of a central pattern generator is well characterized by its frequency and the phase relationships between its neurons, these metrics are ineffective descriptors of the irregular and aperiodic dynamics that circuits can generate under perturbation or in disease states. By recording the circuit dynamics of the well-studied pyloric circuit in Cancer borealis, we used statistical features of spike times from neurons in the circuit to visualize the spike patterns generated by this circuit under a variety of conditions. This approach captures both the variability of functional rhythms and the diversity of atypical dynamics in a single map. Clusters in the map identify qualitatively different spike patterns hinting at different dynamical states in the circuit. State probability and the statistics of the transitions between states varied with environmental perturbations, removal of descending neuromodulatory inputs, and the addition of exogenous neuromodulators. This analysis reveals strong mechanistically interpretable links between complex changes in the collective behavior of a neural circuit and specific experimental manipulations, and can constrain hypotheses of how circuits generate functional dynamics despite variability in circuit architecture and environmental perturbations.

17. Harreguy, M. B., Tanvir, Z., Shah, E., Simprevil, B., Tran, T. S., & Haspel, G. (2022). Semaphorin signaling restricts neuronal regeneration in C. elegans. Frontiers in Cell and Developmental Biology, 10, 814160.

    @article{harreguy2022semaphorin,
      title = {Semaphorin signaling restricts neuronal regeneration in C. elegans},
      author = {Harreguy, Maria B and Tanvir, Zainab and Shah, Esha and Simprevil, Blandine and Tran, Tracy S and Haspel, Gal},
      year = {2022},
      journal = {Frontiers in Cell and Developmental Biology},
      publisher = {Frontiers Media SA},
      volume = {10},
      pages = {814160}
    }
    

18. Haspel, G., & Cohen, N. (2022). Neurodevelopment: Maintaining function during circuit reconfiguration. Current Biology, 32(21), R1226–R1228.

    @article{haspel2022neurodevelopment,
      title = {Neurodevelopment: Maintaining function during circuit reconfiguration},
      author = {Haspel, Gal and Cohen, Netta},
      year = {2022},
      journal = {Current Biology},
      publisher = {Elsevier},
      volume = {32},
      number = {21},
      pages = {R1226--R1228}
    }
    

19. Hyland Bruno, J., Boyd, B., & Rothenberg, D. (2022). Editorial: Songs and Signs: Interdisciplinary Perspectives on Cultural Transmission and Inheritance in Human and Nonhuman Animals. Frontiers in Psychology, 13. https://doi.org/10.3389/fpsyg.2022.953813
    DOI

    @article{Hyland_Bruno_2022,
      title = {Editorial: Songs and Signs: Interdisciplinary Perspectives on Cultural Transmission and Inheritance in Human and Nonhuman Animals},
      author = {Hyland Bruno, Julia and Boyd, Brian and Rothenberg, David},
      year = {2022},
      journal = {Frontiers in Psychology},
      publisher = {Frontiers Media SA},
      volume = {13},
      doi = {10.3389/fpsyg.2022.953813}
    }
    

20. Mashintonio, A. F., Harris, G. M., Stewart, D. R., Butler, M. J., Sanderson, J., & Russell, G. (2022). Estimating species richness with camera traps: modeling the effects of delay period, deployment length, number of sites, and interference imagery. Wildlife Society Bulletin, 46(4), e1357. https://doi.org/10.1002/wsb.1357
    DOI ABSTRACT

    @article{mashintonio2022estimating,
      title = {Estimating species richness with camera traps: modeling the effects of delay period, deployment length, number of sites, and interference imagery},
      author = {Mashintonio, Andrew F and Harris, Grant M and Stewart, David R and Butler, Matthew J and Sanderson, Jim and Russell, Gareth},
      year = {2022},
      journal = {Wildlife Society Bulletin},
      volume = {46},
      number = {4},
      pages = {e1357},
      doi = {10.1002/wsb.1357}
    }
    

    Biologists commonly use camera traps for estimating species richness to inform conservation actions, steer land protection, and reveal effects of climate change. Long-term studies using short delay periods (≤1\hspace0.167emmin) and numerous cameras produce voluminous amounts of redundant imagery. Thus, camera-trapping procedures maximizing richness estimates while minimizing data collection need development. We used imagery of mammals spanning 4 deserts in the United States to model the effects of delay, deployment length (i.e., study duration), number of sampling sites, and interference events on the proportion of known species richness detected (Rp). We also determined the proportion of subsamples containing each species (SR) under different sampling conditions to inform subsequent occupancy estimation. We generated contour plots describing the optimal configuration of sites and deployment length that minimized the image acquisition required to estimate Rp\hspace0.167em=\hspace0.167em0.9. The optimal configuration was independent of delay (requiring ∼50 sites and 13 months). The shortest delay (10\hspace0.167emsec) generated  8 times more images than the longest (3600\hspace0.167emsec) without substantially improving Rp and rare species detection. The shortest duration to acquire Rp\hspace0.167em=\hspace0.167em0.9 was 10 months but required ∼70 sites. The fewest sites needed were 22 and 29, depending on camera placement, requiring approximately 50 months of deployment. Simulated short, one-month studies were only able to obtain Rp  0.6 with 40–70 sites. Obtaining SR\hspace0.167em=\hspace0.167em0.8 with a 3600\hspace0.167emsec delay required between 1–12\hspace0.167emmonths and 10 sites or 1–17 sites and 6 months for uncommon species. Adding interference imagery, even with long delays, produced SR\hspace0.167em≥\hspace0.167em0.5 for rare species, generating data suitable for occupancy estimation. Overall, interference imagery had minimal effects on reducing SR estimates, unless the interference occurred continuously. Our guidance optimizes the number of sites, deployment length, and delay period while minimizing imagery acquisition to meet Rp and occupancy objectives with confidence.

21. McCreery, H. F., Gemayel, G., Pais, A. I., Garnier, S., & Nagpal, R. (2022). Hysteresis stabilizes dynamic control of self-assembled army ant constructions. Nature Communications, 13(1), 1160. https://doi.org/10.1038/s41467-022-28773-z
    DOI ABSTRACT

    @article{McCreery2022ta,
      title = {Hysteresis stabilizes dynamic control of self-assembled army ant constructions},
      author = {McCreery, Helen F and Gemayel, Georgina and Pais, Ana Isabel and Garnier, Simon and Nagpal, Radhika},
      year = {2022},
      month = {4~mar},
      journal = {Nature communications},
      publisher = {Nature Publishing Group},
      volume = {13},
      number = {1},
      pages = {1160},
      doi = {10.1038/s41467-022-28773-z},
      issn = {2041-1723,2041-1723},
      url = {http://dx.doi.org/10.1038/s41467-022-28773-z},
      affiliation = {School of Engineering and Applied Sciences, Harvard University, Boston, MA, 02134, USA. hmccreery\@gmail.com. University of Southern California, Los Angeles, CA, 90007, USA. Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ, 07102, USA. Rutgers University, Newark, Newark, NJ, 07102, USA. School of Engineering and Applied Sciences, Harvard University, Boston, MA, 02134, USA. Wyss Institute for Biologically Inspired Engineering, Boston, MA, 02115, USA. School of Engineering and Applied Sciences, Princeton University, Princeton, NJ, 08544, USA.},
      file = {All Papers/2022/McCreery et al. 2022 - Hysteresis stabilizes dynamic control of self-assembled army ant constructions.pdf},
      pmc = {PMC8897433},
      pmid = {35246567},
      language = {en}
    }
    

    Biological systems must adjust to changing external conditions, and their resilience depends on their control mechanisms. How is dynamic control implemented in noisy, decentralized systems? Army ants’ self-assembled bridges are built on unstable features, like leaves, which frequently move. Using field experiments and simulations, we characterize the bridges’ response as the gaps they span change in size, identify the control mechanism, and explore how this emerges from individuals’ decisions. For a given gap size, bridges were larger after the gap increased rather than decreased. This hysteresis was best explained by an accumulator model, in which individual decisions to join or leave a bridge depend on the difference between its current and equilibrium state. This produces robust collective structures that adjust to lasting perturbations while ignoring small, momentary shifts. Our field data support separate joining and leaving cues; joining is prompted by high bridge performance and leaving by an excess of ants. This leads to stabilizing hysteresis, an important feature of many biological and engineered systems.

22. Nadim, F. (2022). Invertebrate Pattern Generation: Overview. Encyclopedia of Computational Neuroscience, 60–62.

    @article{nadim2022invertebrate,
      title = {Invertebrate Pattern Generation: Overview},
      author = {Nadim, Farzan},
      year = {2022},
      journal = {Encyclopedia of Computational Neuroscience},
      publisher = {Springer New York New York, NY},
      pages = {60--62}
    }
    

23. Saro-Cortes, V., Cui, Y., Dufficy, T., Boctor, A., Flammang, B. E., & Wissa, A. (2022). An adaptable flying fish robotic model for aero-and hydrodynamic experimentation. Integrative and Comparative Biology, 62(5), 1202–1216.

    @article{saro2022adaptable,
      title = {An adaptable flying fish robotic model for aero-and hydrodynamic experimentation},
      author = {Saro-Cortes, Valeria and Cui, Yuhe and Dufficy, Tierney and Boctor, Arsanious and Flammang, Brooke E and Wissa, Aimy},
      year = {2022},
      journal = {Integrative and Comparative Biology},
      publisher = {Oxford University Press},
      volume = {62},
      number = {5},
      pages = {1202--1216}
    }
    

24. Schneider, A. C., Itani, O., Bucher, D., & Nadim, F. (2022). Neuromodulation reduces interindividual variability of neuronal output [Journal Article]. ENeuro, 9(4). https://doi.org/10.1523/ENEURO.0166-22.2022
    DOI ABSTRACT

    @article{RN3991,
      title = {Neuromodulation reduces interindividual variability of neuronal output},
      author = {Schneider, A. C. and Itani, O. and Bucher, D. and Nadim, F.},
      year = {2022},
      journal = {eNeuro},
      publisher = {Society for Neuroscience},
      volume = {9},
      number = {4},
      doi = {10.1523/ENEURO.0166-22.2022},
      issn = {2373-2822 (Electronic) 2373-2822 (Linking)},
      url = {https://www.ncbi.nlm.nih.gov/pubmed/35853725 https://www.eneuro.org/content/eneuro/9/4/ENEURO.0166-22.2022.full.pdf},
      note = {Schneider, Anna C Itani, Omar Bucher, Dirk Nadim, Farzan eng R01 MH060605/MH/NIMH NIH HHS/ eNeuro. 2022 Jul 18;9(4):ENEURO.0166-22.2022. doi: 10.1523/ENEURO.0166-22.2022.},
      keywords = {Bursting Neuron Central Pattern Generator Stomatogastric Variability},
      type = {Journal Article}
    }
    

    In similar states, neural circuits produce similar outputs across individuals despite substantial interindividual variability in neuronal ionic conductances and synapses. Circuit states are largely shaped by neuromodulators that tune ionic conductances. It is therefore possible that, in addition to producing flexible circuit output, neuromodulators also contribute to output similarity despite varying ion channel expression. We studied whether neuromodulation at saturating concentrations can increase the output similarity of a single identified neuron across individual animals. Using the LP neuron of the crab stomatogastric ganglion (STG), we compared the variability of f-I curves and rebound properties in the presence of neuropeptides. The two neuropeptides we used converge to activate the same target current, which increases neuronal excitability. Output variability was lower in the presence of the neuropeptides, regardless of whether the neuropeptides significantly changed the mean of the corresponding parameter or not. However, the addition of the second neuropeptide did not add further to the reduction of variability. With a family of computational LP-like models, we explored how increased excitability and target variability contribute to output similarity and found two mechanisms: Saturation of the responses and a differential increase in baseline activity. Saturation alone can reduce the interindividual variability only if the population shares a similar ceiling for the responses. In contrast, reduction of variability due to the increase in baseline activity is independent of ceiling effects.Significance StatementThe activity of single neurons and neural circuits can be very similar across individuals even though the ionic currents underlying activity are variable. The mechanisms that compensate for the underlying variability and promote output similarity are poorly understood but may involve neuromodulation. Using an identified neuron, we show that neuropeptide modulation of excitability can reduce interindividual variability of response properties at a single-neuron level in two ways. First, the neuropeptide increases baseline excitability in a differential manner, resulting in similar response thresholds. Second, the neuropeptide increases excitability towards a shared saturation level, promoting similar maximal firing rates across individuals. Such tuning of neuronal excitability could be an important mechanism compensating for interindividual variability of ion channel expression.

25. Sosiak, C. E., Borowiec, M. L., & Barden, P. (2022). RETRACTED: An Eocene army ant. Biology Letters, 18(11), 20220398.

    @article{sosiak2022retracted,
      title = {RETRACTED: An Eocene army ant},
      author = {Sosiak, Christine E and Borowiec, Marek L and Barden, Phillip},
      year = {2022},
      journal = {Biology Letters},
      publisher = {The Royal Society},
      volume = {18},
      number = {11},
      pages = {20220398}
    }
    

26. Wiśniewska, M., Puga-Gonzalez, I., Lee, P., Moss, C., Russell, G., Garnier, S., & Sueur, C. (2022). Simulated poaching affects global connectivity and efficiency in social networks of African savanna elephants–An exemplar of how human disturbance impacts group-living species. PLoS Computational Biology, 18(1), e1009792. https://doi.org/10.1371/journal.pcbi.1009792
    DOI ABSTRACT

    @article{wisniewska2022simulated,
      title = {Simulated poaching affects global connectivity and efficiency in social networks of African savanna elephants--An exemplar of how human disturbance impacts group-living species},
      author = {Wi{\'s}niewska, Maggie and Puga-Gonzalez, Ivan and Lee, Phyllis and Moss, Cynthia and Russell, Gareth and Garnier, Simon and Sueur, C{\'e}dric},
      year = {2022},
      month = jan,
      journal = {PLoS computational biology},
      publisher = {Public Library of Science San Francisco, CA USA},
      volume = {18},
      number = {1},
      pages = {e1009792},
      doi = {10.1371/journal.pcbi.1009792},
      issn = {1553-734X,1553-7358},
      url = {http://dx.doi.org/10.1371/journal.pcbi.1009792},
      affiliation = {Department of Biological Sciences, New Jersey Institute of Technology, Newark, New Jersey, United States of America. Institutt for global utvikling og samfunnsplanlegging, Universitetet i Agder, Kristiansand, Norway. Center for Modeling Social Systems at NORCE, Kristiansand, Norway. Amboseli Trust for Elephants, Nairobi, Kenya. Faculty of Natural Science, University of Stirling, Stirling, United Kingdom. Universit\'{e} de Strasbourg, CNRS, IPHC, UMR 7178, Strasbourg, France. Institut Universitaire de France, Paris, France.},
      file = {All Papers/2022/Wiśniewska et al. 2022 - Simulated poaching affects global connectivity ... nts-An exemplar of how human disturbance impacts group-living species.pdf},
      pmc = {PMC8797174},
      pmid = {35041648},
      language = {en}
    }
    

    Selective harvest, such as poaching, impacts group-living animals directly through mortality of individuals with desirable traits, and indirectly by altering the structure of their social networks. Understanding the relationship between disturbance-induced, structural network changes and group performance in wild animals remains an outstanding problem. To address this problem, we evaluated the immediate effect of disturbance on group sociality in African savanna elephants–an example, group-living species threatened by poaching. Drawing on static association data from ten free-ranging groups, we constructed one empirically based, population-wide network and 100 virtual networks; performed a series of experiments ‘poaching’ the oldest, socially central or random individuals; and quantified the immediate change in the theoretical indices of network connectivity and efficiency of social diffusion. Although the social networks never broke down, targeted elimination of the socially central conspecifics, regardless of age, decreased network connectivity and efficiency. These findings hint at the need to further study resilience by modeling network reorganization and interaction-mediated socioecological learning, empirical data permitting. The main contribution of our work is in quantifying connectivity together with global efficiency in multiple social networks that feature the sociodemographic diversity likely found in wild elephant populations. The basic design of our simulation makes it adaptable for hypothesis testing about the consequences of anthropogenic disturbance or lethal management on social interactions in a variety of group-living species with limited, real-world data.

27. Yoshida, J., Oñate, M., Khatami, L., Vera, J., Nadim, F., & Khodakhah, K. (2022). Cerebellar contributions to the basal ganglia influence motor coordination, reward processing, and movement vigor. Journal of Neuroscience, 42(45), 8406–8415.

    @article{yoshida2022cerebellar,
      title = {Cerebellar contributions to the basal ganglia influence motor coordination, reward processing, and movement vigor},
      author = {Yoshida, Junichi and O{\~n}ate, Maritza and Khatami, Leila and Vera, Jorge and Nadim, Farzan and Khodakhah, Kamran},
      year = {2022},
      journal = {Journal of Neuroscience},
      publisher = {Society for Neuroscience},
      volume = {42},
      number = {45},
      pages = {8406--8415}
    }
    

2021

1. Blackiston, D., Lederer, E., Kriegman, S., Garnier, S., Bongard, J., & Levin, M. (2021). A cellular platform for the development of synthetic living machines. Science Robotics, 6(52). https://doi.org/10.1126/scirobotics.abf1571
   DOI ABSTRACT

   @article{Blackiston2021qb,
     title = {A cellular platform for the development of synthetic living machines},
     author = {Blackiston, Douglas and Lederer, Emma and Kriegman, Sam and Garnier, Simon and Bongard, Joshua and Levin, Michael},
     year = {2021},
     month = {31~mar},
     journal = {Science robotics},
     publisher = {Science Robotics},
     volume = {6},
     number = {52},
     doi = {10.1126/scirobotics.abf1571},
     issn = {2470-9476},
     url = {http://dx.doi.org/10.1126/scirobotics.abf1571},
     affiliation = {Allen Discovery Center at Tufts University, Medford, MA 02155, USA. Department of Computer Science, University of Vermont, Burlington, VT 05405, USA. Federated Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ 07102, USA. Allen Discovery Center at Tufts University, Medford, MA 02155, USA. michael.levin\@tufts.edu. Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA 02115, USA.},
     file = {All Papers/2021/Blackiston et al. 2021 - A cellular platform for the development of synthetic living machines.pdf},
     pmid = {34043553},
     language = {en}
   }
   

   Robot swarms have, to date, been constructed from artificial materials. Motile biological constructs have been created from muscle cells grown on precisely shaped scaffolds. However, the exploitation of emergent self-organization and functional plasticity into a self-directed living machine has remained a major challenge. We report here a method for generation of in vitro biological robots from frog (Xenopus laevis) cells. These xenobots exhibit coordinated locomotion via cilia present on their surface. These cilia arise through normal tissue patterning and do not require complicated construction methods or genomic editing, making production amenable to high-throughput projects. The biological robots arise by cellular self-organization and do not require scaffolds or microprinting; the amphibian cells are highly amenable to surgical, genetic, chemical, and optical stimulation during the self-assembly process. We show that the xenobots can navigate aqueous environments in diverse ways, heal after damage, and show emergent group behaviors. We constructed a computational model to predict useful collective behaviors that can be elicited from a xenobot swarm. In addition, we provide proof of principle for a writable molecular memory using a photoconvertible protein that can record exposure to a specific wavelength of light. Together, these results introduce a platform that can be used to study many aspects of self-assembly, swarm behavior, and synthetic bioengineering, as well as provide versatile, soft-body living machines for numerous practical applications in biomedicine and the environment.

2. Brooks, P. D., Gelderloos, A., Wolf, M. A., Jamison, L. R., Strong, C., Solomon, D. K., Bowen, G. J., Burian, S., Tai, X., & Arens, S. (2021). Groundwater-Mediated Memory of Past Climate Controls Water Yield in Snowmelt-Dominated Catchments [Journal Article]. Water Resources Research, 57(10), e2021WR030605.

   @article{RN770,
     title = {Groundwater-Mediated Memory of Past Climate Controls Water Yield in Snowmelt-Dominated Catchments},
     author = {Brooks, Paul D and Gelderloos, Andrew and Wolf, Margaret A and Jamison, Logan R and Strong, Courtenay and Solomon, D Kip and Bowen, Gabriel J and Burian, Steve and Tai, Xiaonan and Arens, Seth},
     year = {2021},
     journal = {Water Resources Research},
     volume = {57},
     number = {10},
     pages = {e2021WR030605},
     issn = {0043-1397},
     type = {Journal Article}
   }
   

3. Chak, S. T. C., Baeza, J. A., & Barden, P. (2021). Eusociality shapes convergent patterns of molecular evolution across mitochondrial genomes of snapping shrimps. Molecular Biology and Evolution, 38(4), 1372–1383.

   @article{chak2021eusociality,
     title = {Eusociality shapes convergent patterns of molecular evolution across mitochondrial genomes of snapping shrimps},
     author = {Chak, Solomon TC and Baeza, Juan Antonio and Barden, Phillip},
     year = {2021},
     journal = {Molecular Biology and Evolution},
     publisher = {Oxford University Press},
     volume = {38},
     number = {4},
     pages = {1372--1383}
   }
   

4. Christensen, L., Adams, H. R., Tai, X., Barnard, H. R., & Brooks, P. D. (2021). Increasing plant water stress and decreasing summer streamflow in response to a warmer and wetter climate in seasonally snow-covered forests [Journal Article]. Ecohydrology, 14(1), e2256.

   @article{RN1022,
     title = {Increasing plant water stress and decreasing summer streamflow in response to a warmer and wetter climate in seasonally snow-covered forests},
     author = {Christensen, Lindsey and Adams, Hallie R and Tai, Xiaonan and Barnard, Holly R and Brooks, Paul D},
     year = {2021},
     journal = {Ecohydrology},
     volume = {14},
     number = {1},
     pages = {e2256},
     issn = {1936-0584},
     type = {Journal Article}
   }
   

5. Christie, K. W., & Severi, K. E. (2021). Motor behavior: A feedforward circuit for zebrafish escape. Current Biology, 31(15), R965–R967.

   @article{christie2021motor,
     title = {Motor behavior: A feedforward circuit for zebrafish escape},
     author = {Christie, Kevin W and Severi, Kristen E},
     year = {2021},
     journal = {Current Biology},
     publisher = {Elsevier},
     volume = {31},
     number = {15},
     pages = {R965--R967}
   }
   

6. Coleman, M. J., Day, N. F., Rivera-Parra, P., & Fortune, E. S. (2021). Neurophysiological coordination of duet singing. Proceedings of the National Academy of Sciences, 118(23), e2018188118.

   @article{coleman2021neurophysiological,
     title = {Neurophysiological coordination of duet singing},
     author = {Coleman, Melissa J and Day, Nancy F and Rivera-Parra, Pamela and Fortune, Eric S},
     year = {2021},
     journal = {Proceedings of the National Academy of Sciences},
     publisher = {National Academy of Sciences},
     volume = {118},
     number = {23},
     pages = {e2018188118}
   }
   

7. Daur, N., Nadim, F., & Bucher, D. (2021). Synaptic dynamics convey differential sensitivity to input pattern changes in two muscles innervated by the same motor neurons [Journal Article]. ENeuro, 8(6). https://doi.org/10.1523/ENEURO.0351-21.2021
   DOI ABSTRACT

   @article{RN3931,
     title = {Synaptic dynamics convey differential sensitivity to input pattern changes in two muscles innervated by the same motor neurons},
     author = {Daur, N. and Nadim, F. and Bucher, D.},
     year = {2021},
     journal = {eNeuro},
     publisher = {Society for Neuroscience},
     volume = {8},
     number = {6},
     doi = {10.1523/ENEURO.0351-21.2021},
     issn = {2373-2822 (Electronic) 2373-2822 (Linking)},
     url = {https://www.ncbi.nlm.nih.gov/pubmed/34764189 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8609967/pdf/ENEURO.0351-21.2021.pdf https://www.eneuro.org/content/eneuro/8/6/ENEURO.0351-21.2021.full.pdf},
     note = {Daur, Nelly Nadim, Farzan Bucher, Dirk eng eNeuro. 2021 Nov 10. pii: ENEURO.0351-21.2021. doi: 10.1523/ENEURO.0351-21.2021.},
     keywords = {bursting neuron depression facilitation frequency filtering short-term synaptic plasticity stomatogastric},
     type = {Journal Article}
   }
   

   Postsynaptic responses depend on input patterns as well as short-term synaptic plasticity, summation, and postsynaptic membrane properties, but the interactions of those dynamics with realistic input patterns are not well understood. We recorded the responses of the two pyloric dilator muscles, cpv2a and cpv2b, that are innervated by and receive identical periodic bursting input from the same two motor neurons in the lobster Homarus americanus Cpv2a and cpv2b showed quantitative differences in membrane nonlinearities and synaptic summation. At a short timescale, responses in both muscles were dominated by facilitation, albeit with different frequency- and time-dependence. Realistic burst stimulations revealed more substantial differences. Across bursts, cpv2a showed transient depression, whereas cpv2b showed transient facilitation. Steady-state responses to bursting input also differed substantially. Neither muscle had a monotonic dependence on frequency, but cpv2b showed particularly pronounced band-pass filtering. Cpv2a was sensitive to changes in both burst frequency and intra-burst spike frequency, whereas, despite its much slower responses, cpv2b was largely insensitive to changes in burst frequency. Cpv2a was sensitive to both burst duration and number of spikes per burst, whereas cpv2b was sensitive only to the former parameter. Neither muscle showed consistent sensitivity to changes in the overall spike interval structure, but cpv2b was surprisingly sensitive to changes in the first intervals in each burst, a parameter known to be regulated by dopamine modulation of spike propagation of the presynaptic axon. These findings highlight how seemingly minor circuit output changes mediated by neuromodulation could be read out differentially at the two synapses.Significance statementStudies of neural coding have focused mainly on patterns of activity, and less on how postsynaptic targets read out these inputs, which is dependent on short-term synaptic plasticity and postsynaptic membrane properties. We show that subthreshold postsynaptic responses at two crustacean neuromuscular junctions formed by the same motor neuron increase in strength with repeated activation. However, stimulation with more complex bursting patterns that mimicked different circuit states revealed very different sensitivities to specific pattern attributes. Consequently, pre- and postsynaptic dynamics enabled differential readout of input changes arising from circuit modulation. Such differential readout may play an important role in neural processing in general, as different pathways may pay attention to different information encoded in the same activity patterns.

8. Deng, L., Denham, J. E., Arya, C., Yuval, O., Cohen, N., & Haspel, G. (2021). Inhibition underlies fast undulatory locomotion in Caenorhabditis elegans. Eneuro, 8(2).

   @article{deng2021inhibition,
     title = {Inhibition underlies fast undulatory locomotion in Caenorhabditis elegans},
     author = {Deng, Lan and Denham, Jack E and Arya, Charu and Yuval, Omer and Cohen, Netta and Haspel, Gal},
     year = {2021},
     journal = {Eneuro},
     publisher = {Society for Neuroscience},
     volume = {8},
     number = {2}
   }
   

9. Edgar, A., Mitchell, D. G., & Martindale, M. Q. (2021). Whole-Body Regeneration in the Lobate Ctenophore Mnemiopsis leidyi. Genes, 12(6), 867. https://doi.org/10.3390/genes12060867
   DOI

   @article{Edgar_2021,
     title = {Whole-Body Regeneration in the Lobate Ctenophore Mnemiopsis leidyi},
     author = {Edgar, Allison and Mitchell, Dorothy G. and Martindale, Mark Q.},
     year = {2021},
     month = jun,
     journal = {Genes},
     publisher = {{MDPI} {AG}},
     volume = {12},
     number = {6},
     pages = {867},
     doi = {10.3390/genes12060867},
     url = {https://doi.org/10.3390%2Fgenes12060867}
   }
   

10. Ennis, C. C., Haeffner, N. N., Keyser, C. D., Leonard, S. T., Macdonald-Shedd, A. C., Savoie, A. M., Cronin, T. J., Veldsman, W. P., Barden, P., Chak, S. T. C., & others. (2021). Comparative mitochondrial genomics of sponge-dwelling snapping shrimps in the genus Synalpheus: exploring differences between eusocial and non-eusocial species and insights into phylogenetic relationships in caridean shrimps. Gene, 786, 145624.

    @article{ennis2021comparative,
      title = {Comparative mitochondrial genomics of sponge-dwelling snapping shrimps in the genus Synalpheus: exploring differences between eusocial and non-eusocial species and insights into phylogenetic relationships in caridean shrimps},
      author = {Ennis, Caroline C and Haeffner, Nariah N and Keyser, Cameron D and Leonard, Shannon T and Macdonald-Shedd, Austin C and Savoie, Avery M and Cronin, Timothy J and Veldsman, Werner P and Barden, Phillip and Chak, Solomon TC and others},
      year = {2021},
      journal = {Gene},
      publisher = {Elsevier},
      volume = {786},
      pages = {145624}
    }
    

11. Fu, P., Hu, L., Ainsworth, E. A., Tai, X., Myint, S. W., Zhan, W., Blakely, B. J., & Bernacchi, C. J. (2021). Enhanced drought resistance of vegetation growth in cities due to urban heat, CO2 domes and O3 troughs [Journal Article]. Environmental Research Letters, 16(12), 124052.

    @article{RN769,
      title = {Enhanced drought resistance of vegetation growth in cities due to urban heat, CO2 domes and O3 troughs},
      author = {Fu, Peng and Hu, Leiqiu and Ainsworth, Elizabeth A and Tai, Xiaonan and Myint, Soe W and Zhan, Wenfeng and Blakely, Bethany J and Bernacchi, Carl J},
      year = {2021},
      journal = {Environmental Research Letters},
      volume = {16},
      number = {12},
      pages = {124052},
      issn = {1748-9326},
      type = {Journal Article}
    }
    

12. Gershman, S., Harreguy, M. B., Yatom, S., Raitses, Y., Efthimion, P., & Haspel, G. (2021). A low power flexible dielectric barrier discharge disinfects surfaces and improves the action of hydrogen peroxide. Scientific Reports, 11(1), 4626.

    @article{gershman2021low,
      title = {A low power flexible dielectric barrier discharge disinfects surfaces and improves the action of hydrogen peroxide},
      author = {Gershman, Sophia and Harreguy, Maria B and Yatom, Shurik and Raitses, Yevgeny and Efthimion, Phillip and Haspel, Gal},
      year = {2021},
      journal = {Scientific reports},
      publisher = {Nature Publishing Group UK London},
      volume = {11},
      number = {1},
      pages = {4626}
    }
    

13. Gordon, R. L., Ravignani, A., Hyland Bruno, J., Robinson, C. M., Scartozzi, A., Embalabala, R., Niarchou, M., Cox, N. J., & Creanza, N. (2021). Linking the genomic signatures of human beat synchronization and learned song in birds. Philosophical Transactions of the Royal Society B: Biological Sciences, 376(1835), 20200329. https://doi.org/10.1098/rstb.2020.0329
    DOI

    @article{Gordon_2021,
      title = {Linking the genomic signatures of human beat synchronization and learned song in birds},
      author = {Gordon, Reyna L. and Ravignani, Andrea and Hyland Bruno, Julia and Robinson, Cristina M. and Scartozzi, Alyssa and Embalabala, Rebecca and Niarchou, Maria and Cox, Nancy J. and Creanza, Nicole},
      year = {2021},
      journal = {Philosophical Transactions of the Royal Society B: Biological Sciences},
      publisher = {The Royal Society},
      volume = {376},
      number = {1835},
      pages = {20200329},
      doi = {10.1098/rstb.2020.0329}
    }
    

14. Haspel, G., Severi, K. E., Fauci, L. J., Cohen, N., Tytell, E. D., & Morgan, J. R. (2021). Resilience of neural networks for locomotion. The Journal of Physiology, 599(16), 3825–3840.

    @article{haspel2021resilience,
      title = {Resilience of neural networks for locomotion},
      author = {Haspel, Gal and Severi, Kristen E and Fauci, Lisa J and Cohen, Netta and Tytell, Eric D and Morgan, Jennifer R},
      year = {2021},
      journal = {The Journal of Physiology},
      volume = {599},
      number = {16},
      pages = {3825--3840}
    }
    

15. Hyland Bruno, J., Jarvis, E. D., Liberman, M., & Tchernichovski, O. (2021). Birdsong Learning and Culture: Analogies with Human Spoken Language. Annual Review of Linguistics, 7(1), 449–472. https://doi.org/10.1146/annurev-linguistics-090420-121034
    DOI

    @article{Hyland_Bruno_2021,
      title = {Birdsong Learning and Culture: Analogies with Human Spoken Language},
      author = {Hyland Bruno, Julia and Jarvis, Erich D. and Liberman, Mark and Tchernichovski, Ofer},
      year = {2021},
      journal = {Annual Review of Linguistics},
      publisher = {Annual Reviews},
      volume = {7},
      number = {1},
      pages = {449–472},
      doi = {10.1146/annurev-linguistics-090420-121034}
    }
    

16. Jelley, C., & Barden, P. (2021). Vision-linked traits associated with antenna size and foraging ecology across ants. Insect Systematics and Diversity, 5(5), 9.

    @article{jelley2021vision,
      title = {Vision-linked traits associated with antenna size and foraging ecology across ants},
      author = {Jelley, Chloe and Barden, Phillip},
      year = {2021},
      journal = {Insect Systematics and Diversity},
      publisher = {Oxford University Press US},
      volume = {5},
      number = {5},
      pages = {9}
    }
    

17. Kennedy, L. W., Caplan, J. M., Garnier, S., Lersch, K., Miró-Llinares, F., Gibbs Van Brunschot, E. E., & Lopez, D. (2021). Editorial: Using Evidence Based Analytics to Create Narratives for Police Decision Making. Frontiers in Psychology, 12, 791605. https://doi.org/10.3389/fpsyg.2021.791605
    DOI

    @article{Kennedy2021nx,
      title = {Editorial: Using Evidence Based Analytics to Create Narratives for Police Decision Making},
      author = {Kennedy, Leslie W and Caplan, Joel M and Garnier, Simon and Lersch, Kim and Mir\'{o}-Llinares, Fernando and Gibbs Van Brunschot, Erin E and Lopez, David},
      year = {2021},
      month = {22~dec},
      journal = {Frontiers in psychology},
      volume = {12},
      pages = {791605},
      doi = {10.3389/fpsyg.2021.791605},
      issn = {1664-1078},
      url = {http://dx.doi.org/10.3389/fpsyg.2021.791605},
      affiliation = {School of Criminal Justice, Rutgers University, Newark, NJ, United States. Department of Biology, NJIT, Newark, NJ, United States. School of Information, University of South Florida, Tapa, FL, United States. Faculty of Social and Legal Sciences, Universidad Miquel Hernandez de Elche, Elche, Spain. Centre for Military, Security and Strategic Studies, University of Calgary, Calgary, AB, Canada. Rutgers Law School, Rutgers, The State University of New Jersey, Newark, NJ, United States.},
      file = {All Papers/2021/Kennedy et al. 2021 - Editorial - Using Evidence Based Analytics to Create Narratives for Police Decision Making.pdf},
      keywords = {analytics; evidence based; hot spots; narratives; police decision making},
      pmc = {PMC8728895},
      pmid = {35002885},
      language = {en}
    }
    

18. Lutz, M. J., Reid, C. R., Lustri, C. J., Kao, A. B., Garnier, S., & Couzin, I. D. (2021). Individual error correction drives responsive self-assembly of army ant scaffolds. Proceedings of the National Academy of Sciences of the United States of America, 118(17). https://doi.org/10.1073/pnas.2013741118
    DOI ABSTRACT

    @article{Lutz2021vu,
      title = {Individual error correction drives responsive self-assembly of army ant scaffolds},
      author = {Lutz, Matthew J and Reid, Chris R and Lustri, Christopher J and Kao, Albert B and Garnier, Simon and Couzin, Iain D},
      year = {2021},
      month = {27~apr},
      journal = {Proceedings of the National Academy of Sciences of the United States of America},
      publisher = {National Academy of Sciences},
      volume = {118},
      number = {17},
      doi = {10.1073/pnas.2013741118},
      issn = {0027-8424,1091-6490},
      url = {http://dx.doi.org/10.1073/pnas.2013741118},
      affiliation = {Department of Collective Behaviour, Max Planck Institute of Animal Behavior, Konstanz D-78457, Germany; matthew.lutz\@gmail.com chrisreidresearch\@gmail.com. Centre for the Advanced Study of Collective Behaviour, University of Konstanz, Konstanz D-78457, Germany. Department of Biology, University of Konstanz, Konstanz D-78457, Germany. Department of Biological Sciences, Macquarie University, Sydney, NSW 2109, Australia; matthew.lutz\@gmail.com chrisreidresearch\@gmail.com. Department of Mathematics and Statistics, Macquarie University, Sydney, NSW 2109, Australia. Santa Fe Institute, Santa Fe, NM 87501. Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ 07102. Department of Collective Behaviour, Max Planck Institute of Animal Behavior, Konstanz D-78457, Germany.},
      file = {All Papers/2021/Lutz et al. 2021 - Individual error correction drives responsive self-assembly of army ant scaffolds.pdf},
      keywords = {collective behavior; distributed control; infrastructure; resilience; self-assembly},
      pmc = {PMC8092576},
      pmid = {33893232},
      language = {en}
    }
    

    An inherent strength of evolved collective systems is their ability to rapidly adapt to dynamic environmental conditions, offering resilience in the face of disruption. This is thought to arise when individual sensory inputs are filtered through local interactions, producing an adaptive response at the group level. To understand how simple rules encoded at the individual level can lead to the emergence of robust group-level (or distributed) control, we examined structures we call “scaffolds,” self-assembled by Eciton burchellii army ants on inclined surfaces that aid travel during foraging and migration. We conducted field experiments with wild E. burchellii colonies, manipulating the slope over which ants traversed, to examine the formation of scaffolds and their effects on foraging traffic. Our results show that scaffolds regularly form on inclined surfaces and that they reduce losses of foragers and prey, by reducing slipping and/or falling of ants, thus facilitating traffic flow. We describe the relative effects of environmental geometry and traffic on their growth and present a theoretical model to examine how the individual behaviors underlying scaffold formation drive group-level effects. Our model describes scaffold growth as a control response at the collective level that can emerge from individual error correction, requiring no complex communication among ants. We show that this model captures the dynamics observed in our experiments and is able to predict the growth-and final size-of scaffolds, and we show how the analytical solution allows for estimation of these dynamics.

19. Mapalo, M. A., Robin, N., Boudinot, B. E., Ortega-Hernández, J., & Barden, P. (2021). A tardigrade in Dominican amber. Proceedings of the Royal Society B, 288(1960), 20211760.

    @article{mapalo2021tardigrade,
      title = {A tardigrade in Dominican amber},
      author = {Mapalo, Marc A and Robin, Ninon and Boudinot, Brendon E and Ortega-Hern{\'a}ndez, Javier and Barden, Phillip},
      year = {2021},
      journal = {Proceedings of the Royal Society B},
      publisher = {The Royal Society},
      volume = {288},
      number = {1960},
      pages = {20211760}
    }
    

20. Mitchell, D. G., Edgar, A., & Martindale, M. Q. (2021). Improved histological fixation of gelatinous marine invertebrates. Frontiers in Zoology, 18(1). https://doi.org/10.1186/s12983-021-00414-z
    DOI

    @article{Mitchell_2021,
      title = {Improved histological fixation of gelatinous marine invertebrates},
      author = {Mitchell, Dorothy G. and Edgar, Allison and Martindale, Mark Q.},
      year = {2021},
      month = jun,
      journal = {Frontiers in Zoology},
      publisher = {Springer Science and Business Media LLC},
      volume = {18},
      number = {1},
      doi = {10.1186/s12983-021-00414-z},
      issn = {1742-9994},
      url = {http://dx.doi.org/10.1186/s12983-021-00414-z}
    }
    

21. Moffett, M. W., Garnier, S., Eisenhardt, K. M., Furr, N. R., Warglien, M., Sartoris, C., Ocasio, W., Knudsen, T., Bach, L. A., & Offenberg, J. (2021). Ant colonies: building complex organizations with minuscule brains and no leaders. Journal of Organization Design, 10(1), 55–74. https://doi.org/10.1007/s41469-021-00093-4
    DOI ABSTRACT

    @article{Moffett2021io,
      title = {Ant colonies: building complex organizations with minuscule brains and no leaders},
      author = {Moffett, Mark W and Garnier, Simon and Eisenhardt, Kathleen M and Furr, Nathan R and Warglien, Massimo and Sartoris, Costanza and Ocasio, William and Knudsen, Thorbj\o{}rn and Bach, Lars A and Offenberg, Joachim},
      year = {2021},
      month = {1~mar},
      journal = {Journal of organization design},
      publisher = {Springer Science and Business Media LLC},
      volume = {10},
      number = {1},
      pages = {55--74},
      doi = {10.1007/s41469-021-00093-4},
      issn = {2245-408X},
      url = {https://doi.org/10.1007/s41469-021-00093-4},
      file = {All Papers/2021/Moffett et al. 2021 - Ant colonies - building complex organizations with minuscule brains and no leaders.pdf;All Papers/2021/Moffett et al. 2021 - Ant colonies - building complex organizations with minuscule brains and no leaders.pdf},
      language = {en}
    }
    

    Thus far the articles in the series JOD calls the “Organization Zoo” have employed the notion of a “zoo” metaphorically to describe an array of human institutions. Here we take the term literally to consider the design of the most complex organizations in the living world beside those of humans, a favorite of insect zoos around the world: ant colonies. We consider individuality and group identity in the functioning of ant organizations; advantages of a flat organization without hierarchies or leaders; self-organization; direct and indirect communication; job specialization; labor coordination; and the role of errors in innovation. The likely value and limitations of comparing ant and human organizations are briefly examined.

22. Sankey, D. W. E., O'Bryan, L. R., Garnier, S., Cowlishaw, G., Hopkins, P., Holton, M., Fürtbauer, I., & King, A. J. (2021). Consensus of travel direction is achieved by simple copying, not voting, in free-ranging goats. Royal Society Open Science, 8(2), 201128. https://doi.org/10.1098/rsos.201128
    DOI ABSTRACT

    @article{Sankey2021jk,
      title = {Consensus of travel direction is achieved by simple copying, not voting, in free-ranging goats},
      author = {Sankey, D W E and O\'Bryan, L R and Garnier, S and Cowlishaw, G and Hopkins, P and Holton, M and F\"{u}rtbauer, I and King, A J},
      year = {2021},
      month = {3~feb},
      journal = {Royal Society open science},
      publisher = {Royal Society},
      volume = {8},
      number = {2},
      pages = {201128},
      doi = {10.1098/rsos.201128},
      issn = {2054-5703},
      url = {http://dx.doi.org/10.1098/rsos.201128},
      affiliation = {Swansea University, Singleton Park, Swansea SA2 8PP, UK. New Jersey Institute of Technology, Newark, NJ 07102, USA. Institute of Zoology, Zoological Society of London, Regent's Park, London NW14RY, UK.},
      file = {All Papers/2021/Sankey et al. 2021 - Consensus of travel direction is achieved by simple copying, not voting, in free-ranging goats.pdf},
      keywords = {collective behaviour; coordination; decision-making; heuristics; rules-of-thumb; self-organization},
      pmc = {PMC8074689},
      pmid = {33972846},
      language = {en}
    }
    

    For group-living animals to remain cohesive they must agree on where to travel. Theoretical models predict shared group decisions should be favoured, and a number of empirical examples support this. However, the behavioural mechanisms that underpin shared decision-making are not fully understood. Groups may achieve consensus of direction by active communication of individual preferences (i.e. voting), or by responding to each other’s orientation and movement (i.e. copying). For example, African buffalo (Syncerus caffer) are reported to use body orientation to vote and indicate their preferred direction to achieve a consensus on travel direction, while golden shiners (Notemigonus crysoleucas) achieve consensus of direction by responding to the movement cues of their neighbours. Here, we present a conceptual model (supported by agent-based simulations) that allows us to distinguish patterns of motion that represent voting or copying. We test our model predictions using high-resolution GPS and magnetometer data collected from a herd of free-ranging goats (Capra aegagrus hircus) in the Namib Desert, Namibia. We find that decisions concerning travel direction were more consistent with individuals copying one another’s motion and find no evidence to support the use of voting with body orientation. Our findings highlight the role of simple behavioural rules for collective decision-making by animal groups.

23. Schneider, A. C., Fox, D., Itani, O., Golowasch, J., Bucher, D., & Nadim, F. (2021). Frequency-Dependent Action of Neuromodulation [Journal Article]. ENeuro, 8(6). https://doi.org/10.1523/ENEURO.0338-21.2021
    DOI ABSTRACT

    @article{RN3862,
      title = {Frequency-Dependent Action of Neuromodulation},
      author = {Schneider, A. C. and Fox, D. and Itani, O. and Golowasch, J. and Bucher, D. and Nadim, F.},
      year = {2021},
      journal = {eNeuro},
      publisher = {Society for Neuroscience},
      volume = {8},
      number = {6},
      doi = {10.1523/ENEURO.0338-21.2021},
      issn = {2373-2822 (Electronic) 2373-2822 (Linking)},
      url = {https://www.ncbi.nlm.nih.gov/pubmed/34593519 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8584230/pdf/ENEURO.0338-21.2021.pdf},
      note = {Schneider, Anna C Fox, David Itani, Omar Golowasch, Jorge Bucher, Dirk Nadim, Farzan eng R01 MH060605/MH/NIMH NIH HHS/ eNeuro. 2021 Nov 9;8(6). pii: ENEURO.0338-21.2021. doi: 10.1523/ENEURO.0338-21.2021. Print 2021 Nov-Dec.},
      keywords = {calcium central pattern generator modeling neuromodulation stomatogastric},
      type = {Journal Article}
    }
    

    In oscillatory circuits, some actions of neuromodulators depend on the oscillation frequency. However, the mechanisms are poorly understood. We explored this problem by characterizing neuromodulation of the lateral pyloric (LP) neuron of the crab stomatogastric ganglion (STG). Many peptide modulators, including proctolin, activate the same ionic current (I MI) in STG neurons. Because I MI is fast and non-inactivating, its peak level does not depend on the temporal properties of neuronal activity. We found, however, that the amplitude and peak time of the proctolin-activated current in LP is frequency dependent. Because frequency affects the rate of voltage change, we measured these currents with voltage ramps of different slopes and found that proctolin activated two kinetically distinct ionic currents: the known I MI, whose amplitude is independent of ramp slope or direction, and an inactivating current (I MI-T), which was only activated by positive ramps and whose amplitude increased with increasing ramp slope. Using a conductance-based model we found that I MI and I MI-T make distinct contributions to the bursting activity, with I MI increasing the excitability, and I MI-T regulating the burst onset by modifying the postinhibitory rebound in a frequency-dependent manner. The voltage dependence and partial calcium permeability of I MI-T is similar to other characterized neuromodulator-activated currents in this system, suggesting that these are isoforms of the same channel. Our computational model suggests that calcium permeability may allow this current to also activate the large calcium-dependent potassium current in LP, providing an additional mechanism to regulate burst termination. These results demonstrate a mechanism for frequency-dependent actions of neuromodulators.

24. Schwaner, M. J., Hsieh, S. T., Braasch, I., Bradley, S., Campos, C. B., Collins, C. E., Donatelli, C. M., Fish, F. E., Fitch, O. E., Flammang, B. E., & others. (2021). Future tail tales: A forward-looking, integrative perspective on tail research. Integrative and Comparative Biology, 61(2), 521–537.

    @article{schwaner2021future,
      title = {Future tail tales: A forward-looking, integrative perspective on tail research},
      author = {Schwaner, MJ and Hsieh, ST and Braasch, I and Bradley, S and Campos, CB and Collins, CE and Donatelli, Cassandra M and Fish, FE and Fitch, OE and Flammang, BE and others},
      year = {2021},
      journal = {Integrative and Comparative Biology},
      publisher = {Oxford University Press},
      volume = {61},
      number = {2},
      pages = {521--537}
    }
    

25. Sosiak, C. E., & Barden, P. (2021). Multidimensional trait morphology predicts ecology across ant lineages. Functional Ecology, 35(1), 139–152.

    @article{sosiak2021multidimensional,
      title = {Multidimensional trait morphology predicts ecology across ant lineages},
      author = {Sosiak, Christine E and Barden, Phillip},
      year = {2021},
      journal = {Functional Ecology},
      volume = {35},
      number = {1},
      pages = {139--152}
    }
    

26. Tai, X., Venturas, M. D., Mackay, D. S., Brooks, P. D., & Flanagan, L. B. (2021). Lateral subsurface flow modulates forest mortality risk to future climate and elevated CO2 [Journal Article]. Environmental Research Letters, 16(8), 084015. https://doi.org/10.1088/1748-9326/ac1135
    DOI

    @article{RN764,
      title = {Lateral subsurface flow modulates forest mortality risk to future climate and elevated CO2},
      author = {Tai, Xiaonan and Venturas, Martin D. and Mackay, D. Scott and Brooks, Paul D. and Flanagan, Lawrence B.},
      year = {2021},
      journal = {Environmental Research Letters},
      volume = {16},
      number = {8},
      pages = {084015},
      doi = {10.1088/1748-9326/ac1135},
      issn = {1748-9326},
      url = {http://dx.doi.org/10.1088/1748-9326/ac1135},
      type = {Journal Article}
    }
    

27. Tanvir, Z., Rivera, D., Severi, K. E., Haspel, G., & Soares, D. (2021). Evolutionary and homeostatic changes in morphology of visual dendrites of Mauthner cells in Astyanax blind cavefish. Journal of Comparative Neurology, 529(8), 1779–1786.

    @article{tanvir2021evolutionary,
      title = {Evolutionary and homeostatic changes in morphology of visual dendrites of Mauthner cells in Astyanax blind cavefish},
      author = {Tanvir, Zainab and Rivera, Daihana and Severi, Kristen E and Haspel, Gal and Soares, Daphne},
      year = {2021},
      journal = {Journal of Comparative Neurology},
      publisher = {John Wiley \& Sons, Inc. Hoboken, USA},
      volume = {529},
      number = {8},
      pages = {1779--1786}
    }
    

28. Wilson, M., Barden, P., & Ware, J. (2021). A review of ectoparasitic fungi associated with termites. Annals of the Entomological Society of America, 114(4), 373–396.

    @article{wilson2021review,
      title = {A review of ectoparasitic fungi associated with termites},
      author = {Wilson, Megan and Barden, Phillip and Ware, Jessica},
      year = {2021},
      journal = {Annals of the Entomological Society of America},
      publisher = {Oxford University Press US},
      volume = {114},
      number = {4},
      pages = {373--396}
    }
    

29. Zaki, H., Lushi, E., & Severi, K. E. (2021). Larval zebrafish exhibit collective motion behaviors in constrained spaces. BioRxiv, 9, 2021–2007.

    @article{zaki2021larval,
      title = {Larval zebrafish exhibit collective motion behaviors in constrained spaces},
      author = {Zaki, Haider and Lushi, Enkeleida and Severi, Kristen E},
      year = {2021},
      journal = {bioRxiv},
      publisher = {Cold Spring Harbor Laboratory},
      volume = {9},
      pages = {2021--07}
    }
    

30. de Reus, K., Soma, M., Anichini, M., Gamba, M., de Heer Kloots, M., Lense, M., Hyland Bruno, J., Trainor, L., & Ravignani, A. (2021). Rhythm in dyadic interactions. Philosophical Transactions of the Royal Society B: Biological Sciences, 376(1835), 20200337. https://doi.org/10.1098/rstb.2020.0337
    DOI

    @article{de_Reus_2021,
      title = {Rhythm in dyadic interactions},
      author = {de Reus, Koen and Soma, Masayo and Anichini, Marianna and Gamba, Marco and de Heer Kloots, Marianne and Lense, Miriam and Hyland Bruno, Julia and Trainor, Laurel and Ravignani, Andrea},
      year = {2021},
      journal = {Philosophical Transactions of the Royal Society B: Biological Sciences},
      publisher = {The Royal Society},
      volume = {376},
      number = {1835},
      pages = {20200337},
      doi = {10.1098/rstb.2020.0337}
    }
    

2020

1. Bagchi-Sen, S., Schunder, T., & Tai, X. (2020). An analysis of employment patterns of domestic migrants and immigrants in a Rustbelt city: A study of Buffalo-Niagara Falls [Journal Article]. Growth and Change, 51(1), 123–143.

   @article{RN1023,
     title = {An analysis of employment patterns of domestic migrants and immigrants in a Rustbelt city: A study of Buffalo-Niagara Falls},
     author = {Bagchi-Sen, Sharmistha and Schunder, Torsten and Tai, Xiaonan},
     year = {2020},
     journal = {Growth and Change},
     volume = {51},
     number = {1},
     pages = {123--143},
     issn = {0017-4815},
     type = {Journal Article}
   }
   

2. Barden, P. (2020). Extinction through Ancient Compound Eyes. American Entomologist, 66(1), 64–64.

   @article{barden2020extinction,
     title = {Extinction through Ancient Compound Eyes},
     author = {Barden, Phillip},
     year = {2020},
     journal = {American Entomologist},
     publisher = {Oxford University Press US},
     volume = {66},
     number = {1},
     pages = {64--64}
   }
   

3. Barden, P., Perrichot, V., & Wang, B. (2020). Specialized predation drives aberrant morphological integration and diversity in the earliest ants. Current Biology, 30(19), 3818–3824.

   @article{barden2020specialized,
     title = {Specialized predation drives aberrant morphological integration and diversity in the earliest ants},
     author = {Barden, Phillip and Perrichot, Vincent and Wang, Bo},
     year = {2020},
     journal = {Current Biology},
     publisher = {Elsevier},
     volume = {30},
     number = {19},
     pages = {3818--3824}
   }
   

4. Chak, S. T. C., Barden, P., & Baeza, J. A. (2020). The complete mitochondrial genome of the eusocial sponge-dwelling snapping shrimp Synalpheus microneptunus. Scientific Reports, 10(1), 1–10.

   @article{chak2020complete,
     title = {The complete mitochondrial genome of the eusocial sponge-dwelling snapping shrimp Synalpheus microneptunus},
     author = {Chak, Solomon TC and Barden, Phillip and Baeza, J Antonio},
     year = {2020},
     journal = {Scientific reports},
     publisher = {Nature Publishing Group},
     volume = {10},
     number = {1},
     pages = {1--10}
   }
   

5. Cohen, K. E., Crawford, C. H., Hernandez, L. P., Beckert, M., Nadler, J. H., & Flammang, B. E. (2020). Sucker with a fat lip: The soft tissues underlying the viscoelastic grip of remora adhesion. Journal of Anatomy, 237(4), 643–654.

   @article{cohen2020sucker,
     title = {Sucker with a fat lip: The soft tissues underlying the viscoelastic grip of remora adhesion},
     author = {Cohen, Karly E and Crawford, Callie H and Hernandez, Luz Patricia and Beckert, Michael and Nadler, Jason H and Flammang, Brooke E},
     year = {2020},
     journal = {Journal of Anatomy},
     volume = {237},
     number = {4},
     pages = {643--654}
   }
   

6. Cohen, K. E., Flammang, B. E., Crawford, C. H., & Hernandez, L. P. (2020). Knowing when to stick: touch receptors found in the remora adhesive disc. Royal Society Open Science, 7(1), 190990.

   @article{cohen2020knowing,
     title = {Knowing when to stick: touch receptors found in the remora adhesive disc},
     author = {Cohen, Karly E and Flammang, Brooke E and Crawford, Callie H and Hernandez, L Patricia},
     year = {2020},
     journal = {Royal Society open science},
     publisher = {The Royal Society},
     volume = {7},
     number = {1},
     pages = {190990}
   }
   

7. Crawford, C. H., Randall, Z. S., Hart, P. B., Page, L. M., Chakrabarty, P., Suvarnaraksha, A., & Flammang, B. E. (2020). Skeletal and muscular pelvic morphology of hillstream loaches (Cypriniformes: Balitoridae). Journal of Morphology, 281(10), 1280–1295.

   @article{crawford2020skeletal,
     title = {Skeletal and muscular pelvic morphology of hillstream loaches (Cypriniformes: Balitoridae)},
     author = {Crawford, Callie H and Randall, Zachary S and Hart, Pamela B and Page, Lawrence M and Chakrabarty, Prosanta and Suvarnaraksha, Apinun and Flammang, Brooke E},
     year = {2020},
     journal = {Journal of Morphology},
     publisher = {John Wiley \& Sons, Inc. Hoboken, USA},
     volume = {281},
     number = {10},
     pages = {1280--1295}
   }
   

8. Deng, L., Denham, J., Arya, C., Yuval, O., Cohen, N., & Haspel, G. (2020). Inhibition underlies fast undulatory locomotion inC. elegans.

   @article{deng2020inhibition,
     title = {Inhibition underlies fast undulatory locomotion inC. elegans},
     author = {Deng, L and Denham, J and Arya, C and Yuval, O and Cohen, N and Haspel, G},
     year = {2020}
   }
   

9. Elie, J. E., Hoffmann, S., Dunning, J. L., Coleman, M. J., Fortune, E. S., & Prather, J. F. (2020). From perception to action: the role of auditory input in shaping vocal communication and social behaviors in birds. Brain Behavior and Evolution, 94(1-4), 51–60.

   @article{elie2020perception,
     title = {From perception to action: the role of auditory input in shaping vocal communication and social behaviors in birds},
     author = {Elie, Julie E and Hoffmann, Susanne and Dunning, Jeffery L and Coleman, Melissa J and Fortune, Eric S and Prather, Jonathan F},
     year = {2020},
     journal = {Brain Behavior and Evolution},
     publisher = {S. Karger AG},
     volume = {94},
     number = {1-4},
     pages = {51--60}
   }
   

10. Enos, J. K., Hyland Bruno, J., & Hauber, M. E. (2020). Aggressive responses of Eastern Phoebes ( Sayornis phoebe ) and American Robins ( Turdus migratorius ) toward brood parasites and nest predators: A model presentation experiment. The Wilson Journal of Ornithology, 132(2), 428–435. https://doi.org/10.1676/1559-4491-132.2.428
    DOI

    @article{Enos_2020,
      title = {Aggressive responses of Eastern Phoebes ( Sayornis phoebe ) and American Robins ( Turdus migratorius ) toward brood parasites and nest predators: A model presentation experiment},
      author = {Enos, Janice K. and Hyland Bruno, Julia and Hauber, Mark E.},
      year = {2020},
      journal = {The Wilson Journal of Ornithology},
      publisher = {Informa UK Limited},
      volume = {132},
      number = {2},
      pages = {428–435},
      doi = {10.1676/1559-4491-132.2.428}
    }
    

11. Flammang, B., Gamel, K., & Garner, A. (2020). Using robotics and physics to understand the evolution of novel functional morphologies. Bulletin of the American Physical Society, 65.

    @article{flammang2020using,
      title = {Using robotics and physics to understand the evolution of novel functional morphologies},
      author = {Flammang, Brooke and Gamel, Kaelyn and Garner, Austin},
      year = {2020},
      journal = {Bulletin of the American Physical Society},
      publisher = {American Physical Society},
      volume = {65}
    }
    

12. Flammang, B. E., Marras, S., Anderson, E. J., Lehmkuhl, O., Mukherjee, A., Cade, D. E., Beckert, M., Nadler, J. H., Houzeaux, G., Vázquez, M., & others. (2020). Remoras pick where they stick on blue whales. Journal of Experimental Biology, 223(20), jeb226654.

    @article{flammang2020remoras,
      title = {Remoras pick where they stick on blue whales},
      author = {Flammang, Brooke E and Marras, Simone and Anderson, Erik J and Lehmkuhl, Oriol and Mukherjee, Abhishek and Cade, David E and Beckert, Michael and Nadler, Jason H and Houzeaux, Guillaume and V{\'a}zquez, Mariano and others},
      year = {2020},
      journal = {Journal of Experimental Biology},
      publisher = {The Company of Biologists Ltd},
      volume = {223},
      number = {20},
      pages = {jeb226654}
    }
    

13. Fortune, E. S., Andanar, N., Madhav, M., Jayakumar, R. P., Cowan, N. J., Bichuette, M. E., & Soares, D. (2020). Spooky interaction at a distance in cave and surface dwelling electric fishes. Frontiers in Integrative Neuroscience, 14, 561524.

    @article{fortune2020spooky,
      title = {Spooky interaction at a distance in cave and surface dwelling electric fishes},
      author = {Fortune, Eric S and Andanar, Nicole and Madhav, Manu and Jayakumar, Ravikrishnan P and Cowan, Noah J and Bichuette, Maria Elina and Soares, Daphne},
      year = {2020},
      journal = {Frontiers in Integrative Neuroscience},
      publisher = {Frontiers Media SA},
      volume = {14},
      pages = {561524}
    }
    

14. Gallman, K., Fortune, E., Rivera, D., & Soares, D. (2020). Differences in behavior between surface and cave Astyanax mexicanus may be mediated by changes in catecholamine signaling. Journal of Comparative Neurology, 528(16), 2639–2653.

    @article{gallman2020differences,
      title = {Differences in behavior between surface and cave Astyanax mexicanus may be mediated by changes in catecholamine signaling},
      author = {Gallman, Kathryn and Fortune, Eric and Rivera, Daihana and Soares, Daphne},
      year = {2020},
      journal = {Journal of Comparative Neurology},
      publisher = {John Wiley \& Sons, Inc. Hoboken, USA},
      volume = {528},
      number = {16},
      pages = {2639--2653}
    }
    

15. Harreguy, M. B., Marfil, V., Grooms, N. W. F., Gabel, C. V., Chung, S. H., & Haspel, G. (2020). Ytterbium-doped fibre femtosecond laser offers robust operation with deep and precise microsurgery of C. elegans neurons. Scientific Reports, 10(1), 4545.

    @article{harreguy2020ytterbium,
      title = {Ytterbium-doped fibre femtosecond laser offers robust operation with deep and precise microsurgery of C. elegans neurons},
      author = {Harreguy, MB and Marfil, V and Grooms, NWF and Gabel, CV and Chung, SH and Haspel, G},
      year = {2020},
      journal = {Scientific reports},
      publisher = {Nature Publishing Group UK London},
      volume = {10},
      number = {1},
      pages = {4545}
    }
    

16. Hunyadi, J., Currier, T., Modarres-Sadeghi, Y., Flammang, B. E., & Clotfelter, E. D. (2020). Morphology, performance and fluid dynamics of the crayfish escape response. Journal of Experimental Biology, 223(15), jeb219873.

    @article{hunyadi2020morphology,
      title = {Morphology, performance and fluid dynamics of the crayfish escape response},
      author = {Hunyadi, Jocelyn and Currier, Todd and Modarres-Sadeghi, Yahya and Flammang, Brooke E and Clotfelter, Ethan D},
      year = {2020},
      journal = {Journal of Experimental Biology},
      publisher = {The Company of Biologists Ltd},
      volume = {223},
      number = {15},
      pages = {jeb219873}
    }
    

17. Kattge, J., Bönisch, G., Dı́az Sandra, Lavorel, S., Prentice, I. C., Leadley, P., Tautenhahn, S., Werner, G. D. A., Aakala, T., Abedi, M., & others. (2020). TRY plant trait database–enhanced coverage and open access. Global Change Biology, 26(1), 119–188.

    @article{kattge2020try,
      title = {TRY plant trait database--enhanced coverage and open access},
      author = {Kattge, Jens and B{\"o}nisch, Gerhard and D{\'\i}az, Sandra and Lavorel, Sandra and Prentice, Iain Colin and Leadley, Paul and Tautenhahn, Susanne and Werner, Gijsbert DA and Aakala, Tuomas and Abedi, Mehdi and others},
      year = {2020},
      journal = {Global change biology},
      volume = {26},
      number = {1},
      pages = {119--188}
    }
    

18. Liu, S., Shih, F. Y., Russell, G., Russell, K., & Phan, H. (2020). Classification of ecological data by deep learning. International Journal of Pattern Recognition and Artificial Intelligence, 34(13), 2052010. https://doi.org/10.1142/S0218001420520102
    DOI ABSTRACT

    @article{liu2020classification,
      title = {Classification of ecological data by deep learning},
      author = {Liu, Shaobo and Shih, Frank Y and Russell, Gareth and Russell, Kimberly and Phan, Hai},
      year = {2020},
      journal = {International Journal of Pattern Recognition and Artificial Intelligence},
      publisher = {World Scientific},
      volume = {34},
      number = {13},
      pages = {2052010},
      doi = {10.1142/S0218001420520102}
    }
    

    Ecologists have been studying different computational models in the classification of ecological species. In this paper, we intend to take advantages of variant deep-learning models, including LeNet, AlexNet, VGG models, residual neural network, and inception models, to classify ecological datasets, such as bee wing and butterfly. Since the datasets contain relatively small data samples and unbalanced samples in each class, we apply data augmentation and transfer learning techniques. Furthermore, newly designed inception residual and inception modules are developed to enhance feature extraction and increase classification rates. As comparing against currently available deep-learning models, experimental results show that the proposed inception residual block can avoid the vanishing gradient problem and achieve a high accuracy rate of 92%.

19. Mackay, D. S., Savoy, P. R., Grossiord, C., Tai, X., Pleban, J. R., Wang, D. R., McDowell, N. G., Adams, H. D., & Sperry, J. S. (2020). Conifers depend on established roots during drought: results from a coupled model of carbon allocation and hydraulics [Journal Article]. New Phytologist, 225(2), 679–692.

    @article{RN567,
      title = {Conifers depend on established roots during drought: results from a coupled model of carbon allocation and hydraulics},
      author = {Mackay, D Scott and Savoy, Philip R and Grossiord, Charlotte and Tai, Xiaonan and Pleban, Jonathan R and Wang, Diane R and McDowell, Nathan G and Adams, Henry D and Sperry, John S},
      year = {2020},
      journal = {New Phytologist},
      volume = {225},
      number = {2},
      pages = {679--692},
      issn = {0028-646X},
      type = {Journal Article}
    }
    

20. Perrichot, V., Wang, B., & Barden, P. (2020). New remarkable hell ants (Formicidae: Haidomyrmecinae stat. nov.) from mid-Cretaceous amber of northern Myanmar. Cretaceous Research, 109, 104381.

    @article{perrichot2020new,
      title = {New remarkable hell ants (Formicidae: Haidomyrmecinae stat. nov.) from mid-Cretaceous amber of northern Myanmar},
      author = {Perrichot, Vincent and Wang, Bo and Barden, Phillip},
      year = {2020},
      journal = {Cretaceous Research},
      publisher = {Academic Press},
      volume = {109},
      pages = {104381}
    }
    

21. Pilkiewicz, K. R., Lemasson, B. H., Rowland, M. A., Hein, A., Sun, J., Berdahl, A., Mayo, M. L., Moehlis, J., Porfiri, M., Fernández-Juricic, E., Garnier, S., Bollt, E. M., Carlson, J. M., Tarampi, M. R., Macuga, K. L., Rossi, L., & Shen, C.-C. (2020). Decoding collective communications using information theory tools. Journal of the Royal Society, Interface / the Royal Society, 17(164), 20190563. https://doi.org/10.1098/rsif.2019.0563
    DOI ABSTRACT

    @article{Pilkiewicz2020el,
      title = {Decoding collective communications using information theory tools},
      author = {Pilkiewicz, K R and Lemasson, B H and Rowland, M A and Hein, A and Sun, J and Berdahl, A and Mayo, M L and Moehlis, J and Porfiri, M and Fern\'{a}ndez-Juricic, E and Garnier, S and Bollt, E M and Carlson, J M and Tarampi, M R and Macuga, K L and Rossi, L and Shen, C-C},
      year = {2020},
      month = mar,
      journal = {Journal of the Royal Society, Interface / the Royal Society},
      volume = {17},
      number = {164},
      pages = {20190563},
      doi = {10.1098/rsif.2019.0563},
      issn = {1742-5689},
      url = {http://dx.doi.org/10.1098/rsif.2019.0563},
      affiliation = {Environmental Laboratory, U.S. Army Engineer Research and Development Center (EL-ERDC), Vicksburg, MS, USA. EL-ERDC, Newport, OR, USA. National Oceanic and Atmospheric Administration, Santa Cruz, CA, USA. University of California, Santa Cruz, CA, USA. Department of Mathematics, Clarkson University, Potsdam, NY, USA. School of Aquatic and Fishery Sciences, University of Washington, Seattle, WA, USA. Department of Mechanical Engineering, University of California, Santa Barbara, CA, USA. Department of Mechanical and Aerospace Engineering and Department of Biomedical Engineering, New York University Tandon School of Engineering, Brooklyn, NY, USA. Department of Biological Sciences, Purdue University, West Lafayette, IN, USA. Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ, USA. Department of Physics, University of California, Santa Barbara, CA, USA. Department of Psychology, University of Hartford, West Hartford, CT, USA. School of Psychological Science, Oregon State University, Corvallis, OR, USA. Department of Mathematical Sciences, University of Delaware, Newark, DE, USA. Department of Computer and Information Sciences, University of Delaware, Newark, DE, USA.},
      file = {All Papers/2020/Pilkiewicz et al. 2020 - Decoding collective communications using information theory tools.pdf;All Papers/2020/Pilkiewicz et al. 2020 - Decoding collective communications using information theory tools.pdf},
      keywords = {causation entropy; collective behaviour; mutual information; transfer entropy},
      pmc = {PMC7115225},
      pmid = {32183638},
      language = {en}
    }
    

    Organisms have evolved sensory mechanisms to extract pertinent information from their environment, enabling them to assess their situation and act accordingly. For social organisms travelling in groups, like the fish in a school or the birds in a flock, sharing information can further improve their situational awareness and reaction times. Data on the benefits and costs of social coordination, however, have largely allowed our understanding of why collective behaviours have evolved to outpace our mechanistic knowledge of how they arise. Recent studies have begun to correct this imbalance through fine-scale analyses of group movement data. One approach that has received renewed attention is the use of information theoretic (IT) tools like mutual information, transfer entropy and causation entropy, which can help identify causal interactions in the type of complex, dynamical patterns often on display when organisms act collectively. Yet, there is a communications gap between studies focused on the ecological constraints and solutions of collective action with those demonstrating the promise of IT tools in this arena. We attempt to bridge this divide through a series of ecologically motivated examples designed to illustrate the benefits and challenges of using IT tools to extract deeper insights into the interaction patterns governing group-level dynamics. We summarize some of the approaches taken thus far to circumvent existing challenges in this area and we conclude with an optimistic, yet cautionary perspective.

22. Rotstein, H. G., & Nadim, F. (2020). Neurons and neural networks: Computational models. ELS, 1–11.

    @article{rotstein2020neurons,
      title = {Neurons and neural networks: Computational models},
      author = {Rotstein, Horacio G and Nadim, Farzan},
      year = {2020},
      journal = {eLS},
      publisher = {John Wiley \& Sons, Ltd},
      pages = {1--11}
    }
    

23. Samson, J. E., Ray, D. D., Porfiri, M., Miller, L. A., & Garnier, S. (2020). Collective Pulsing in Xeniid Corals: Part I-Using Computer Vision and Information Theory to Search for Coordination. Bulletin of Mathematical Biology, 82(7), 90. https://doi.org/10.1007/s11538-020-00759-2
    DOI ABSTRACT

    @article{Samson2020rt,
      title = {Collective Pulsing in Xeniid Corals: Part I-Using Computer Vision and Information Theory to Search for Coordination},
      author = {Samson, Julia E and Ray, Dylan D and Porfiri, Maurizio and Miller, Laura A and Garnier, Simon},
      year = {2020},
      month = {7~jul},
      journal = {Bulletin of mathematical biology},
      volume = {82},
      number = {7},
      pages = {90},
      doi = {10.1007/s11538-020-00759-2},
      issn = {0092-8240,1522-9602},
      url = {http://dx.doi.org/10.1007/s11538-020-00759-2},
      affiliation = {Biology Department, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA. Department of Collective Behaviour, Max Planck Institute of Animal Behavior, Constance, Germany. Chair of Biodiversity and Collective Behaviour, Department of Biology, University of Konstanz, Constance, Germany. Centre for the Advanced Study of Collective Behaviour, University of Konstanz, Constance, Germany. Department of Mathematics, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA. Department of Mechanical and Aerospace Engineering and Department of Biomedical Engineering, New York University, Tandon School of Engineering, Brooklyn, NY, USA. Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ, USA. garnier\@njit.edu.},
      file = {All Papers/2020/Samson et al. 2020 - Collective Pulsing in Xeniid Corals - Part I-Using Computer Vision and Information Theory to Search for Coordination.pdf},
      keywords = {Collective behavior; Coral; ISOMAP; Pulsing; Transfer entropy},
      pmid = {32638174},
      language = {en}
    }
    

    Xeniid corals (Cnidaria: Alcyonacea), a family of soft corals, include species displaying a characteristic pulsing behavior. This behavior has been shown to increase oxygen diffusion away from the coral tissue, resulting in higher photosynthetic rates from mutualistic symbionts. Maintaining such a pulsing behavior comes at a high energetic cost, and it has been proposed that coordinating the pulse of individual polyps within a colony might enhance the efficiency of fluid transport. In this paper, we test whether patterns of collective pulsing emerge in coral colonies and investigate possible interactions between polyps within a colony. We video recorded different colonies of Heteroxenia sp. in a laboratory environment. Our methodology is based on the systematic integration of a computer vision algorithm (ISOMAP) and an information-theoretic approach (transfer entropy), offering a vantage point to assess coordination in collective pulsing. Perhaps surprisingly, we did not detect any form of collective pulsing behavior in the colonies. Using artificial data sets, however, we do demonstrate that our methodology is capable of detecting even weak information transfer. The lack of a coordination is consistent with previous work on many cnidarians where coordination between actively pulsing polyps and medusa has not been observed. In our companion paper, we show that there is no fluid dynamic benefit of coordinated pulsing, supporting this result. The lack of coordination coupled with no obvious fluid dynamic benefit to grouping suggests that there may be non-fluid mechanical advantages to forming colonies, such as predator avoidance and defense.

24. Schwaner, M. J., Deming, S., Kmec, J. A., & Flammang, B. E. (2020). Parenting Through Academia as a SICB member. Integrative and Comparative Biology, 60(3), 549–558.

    @article{schwaner2020parenting,
      title = {Parenting Through Academia as a SICB member},
      author = {Schwaner, M Janneke and Deming, Sarah and Kmec, Julie A and Flammang, Brooke E},
      year = {2020},
      journal = {Integrative and comparative biology},
      publisher = {Oxford University Press},
      volume = {60},
      number = {3},
      pages = {549--558}
    }
    

25. Tai, X., Anderegg, W. R. L., Blanken, P. D., Burns, S. P., Christensen, L., & Brooks, P. D. (2020). Hillslope hydrology influences the spatial and temporal patterns of remotely sensed ecosystem productivity [Journal Article]. Water Resources Research, 56(11), e2020WR027630.

    @article{RN757,
      title = {Hillslope hydrology influences the spatial and temporal patterns of remotely sensed ecosystem productivity},
      author = {Tai, Xiaonan and Anderegg, William RL and Blanken, Peter D and Burns, Sean P and Christensen, Lindsey and Brooks, Paul D},
      year = {2020},
      journal = {Water Resources Research},
      volume = {56},
      number = {11},
      pages = {e2020WR027630},
      issn = {0043-1397},
      type = {Journal Article}
    }
    

26. Tribull, C. M., Barden, P., & Olmi, M. (2020). Hybristodryinus moutesoe (Hymenoptera, Dryinidae), a new species from mid-Cretaceous Kachin (Burmese) amber. Cretaceous Research, 114, 104528.

    @article{tribull2020hybristodryinus,
      title = {Hybristodryinus moutesoe (Hymenoptera, Dryinidae), a new species from mid-Cretaceous Kachin (Burmese) amber},
      author = {Tribull, Carly Melissa and Barden, Phillip and Olmi, Massimo},
      year = {2020},
      journal = {Cretaceous Research},
      publisher = {Academic Press},
      volume = {114},
      pages = {104528}
    }
    

27. Uyanik, I., Sefati, S., Stamper, S. A., Cho, K.-A., Ankarali, M. M., Fortune, E. S., & Cowan, N. J. (2020). Variability in locomotor dynamics reveals the critical role of feedback in task control. Elife, 9, e51219.

    @article{uyanik2020variability,
      title = {Variability in locomotor dynamics reveals the critical role of feedback in task control},
      author = {Uyanik, Ismail and Sefati, Shahin and Stamper, Sarah A and Cho, Kyoung-A and Ankarali, M Mert and Fortune, Eric S and Cowan, Noah J},
      year = {2020},
      journal = {Elife},
      publisher = {eLife Sciences Publications, Ltd},
      volume = {9},
      pages = {e51219}
    }
    

28. Uyanık, İ., Cowan, N. J., & Fortune, E. S. (2020). Toward understanding neural mechanisms of active sensing in weakly electric fish. Anatomy: International Journal of Experimental & Clinical Anatomy, 14.

    @article{uyanik2020toward,
      title = {Toward understanding neural mechanisms of active sensing in weakly electric fish.},
      author = {Uyan{\i}k, {\.I}smail and Cowan, Noah J and Fortune, Eric S},
      year = {2020},
      journal = {Anatomy: International Journal of Experimental \& Clinical Anatomy},
      volume = {14}
    }
    

29. Walsh, J. T., Garnier, S., & Linksvayer, T. A. (2020). Ant Collective Behavior Is Heritable and Shaped by Selection. The American Naturalist, 196(5), 541–554. https://doi.org/10.1086/710709
    DOI ABSTRACT

    @article{Walsh2020xv,
      title = {Ant Collective Behavior Is Heritable and Shaped by Selection},
      author = {Walsh, Justin T and Garnier, Simon and Linksvayer, Timothy A},
      year = {2020},
      month = nov,
      journal = {The American naturalist},
      volume = {196},
      number = {5},
      pages = {541--554},
      doi = {10.1086/710709},
      issn = {0003-0147,1537-5323},
      url = {http://dx.doi.org/10.1086/710709},
      file = {All Papers/2020/Walsh et al. 2020 - Ant Collective Behavior Is Heritable and Shaped by Selection.pdf},
      keywords = {animal personality; caste ratio; collective behavior; genetic correlation; heritability; selection},
      pmid = {33064586},
      language = {en}
    }
    

    AbstractCollective behaviors are widespread in nature and usually assumed to be strongly shaped by natural selection. However, the degree to which variation in collective behavior is heritable and has fitness consequences-the two prerequisites for evolution by natural selection-is largely unknown. We used a new pharaoh ant (Monomorium pharaonis) mapping population to estimate the heritability, genetic correlations, and fitness consequences of three collective behaviors (foraging, aggression, and exploration), as well as of body size, sex ratio, and caste ratio. Heritability estimates for the collective behaviors were moderate, ranging from 0.17 to 0.32, but lower than our estimates for the heritability of caste ratio, sex ratio, and body size of new workers, queens, and males. Moreover, variation in collective behaviors among colonies was phenotypically correlated, suggesting that selection may shape multiple colony collective behaviors simultaneously. Finally, we found evidence for directional selection that was similar in strength to estimates of selection in natural populations. Altogether, our study begins to elucidate the genetic architecture of collective behavior and is one of the first studies to demonstrate that it is shaped by selection.

30. Wang, L., Israel, J. W., Edgar, A., Raff, R. A., Raff, E. C., Byrne, M., & Wray, G. A. (2020). Genetic basis for divergence in developmental gene expression in two closely related sea urchins. Nature Ecology & Evolution, 4(6), 831–840. https://doi.org/10.1038/s41559-020-1165-y
    DOI

    @article{Wang_2020,
      title = {Genetic basis for divergence in developmental gene expression in two closely related sea urchins},
      author = {Wang, Lingyu and Israel, Jennifer W. and Edgar, Allison and Raff, Rudolf A. and Raff, Elizabeth C. and Byrne, Maria and Wray, Gregory A.},
      year = {2020},
      month = apr,
      journal = {Nature Ecology {\&} Evolution},
      publisher = {Springer Science and Business Media {LLC}},
      volume = {4},
      number = {6},
      pages = {831--840},
      doi = {10.1038/s41559-020-1165-y},
      url = {https://doi.org/10.1038%2Fs41559-020-1165-y}
    }
    

31. Yoffe, M., Patel, K., Palia, E., Kolawole, S., Streets, A., Haspel, G., & Soares, D. (2020). Morphological malleability of the lateral line allows for surface fish (Astyanax mexicanus) adaptation to cave environments. Journal of Experimental Zoology Part B: Molecular and Developmental Evolution, 334(7-8), 511–517.

    @article{yoffe2020morphological,
      title = {Morphological malleability of the lateral line allows for surface fish (Astyanax mexicanus) adaptation to cave environments},
      author = {Yoffe, Marina and Patel, Kush and Palia, Eric and Kolawole, Samuel and Streets, Amy and Haspel, Gal and Soares, Daphne},
      year = {2020},
      journal = {Journal of Experimental Zoology Part B: Molecular and Developmental Evolution},
      volume = {334},
      number = {7-8},
      pages = {511--517}
    }
    

32. Yu, C.-C., Barry, N. C., Wassie, A. T., Sinha, A., Bhattacharya, A., Asano, S., Zhang, C., Chen, F., Hobert, O., Goodman, M. B., & others. (2020). Expansion microscopy of C. elegans. Elife, 9, e46249.

    @article{yu2020expansion,
      title = {Expansion microscopy of C. elegans},
      author = {Yu, Chih-Chieh and Barry, Nicholas C and Wassie, Asmamaw T and Sinha, Anubhav and Bhattacharya, Abhishek and Asano, Shoh and Zhang, Chi and Chen, Fei and Hobert, Oliver and Goodman, Miriam B and others},
      year = {2020},
      journal = {Elife},
      publisher = {eLife Sciences Publications, Ltd},
      volume = {9},
      pages = {e46249}
    }
    

All since 2020

1. Amendolara, A. B., Sant, D., Rotstein, H. G., & Fortune, E. (2023). LSTM-based recurrent neural network provides effective short term flu forecasting. BMC Public Health, 23(1), 1788.

   @article{amendolara2023lstm,
     title = {LSTM-based recurrent neural network provides effective short term flu forecasting},
     author = {Amendolara, Alfred B and Sant, David and Rotstein, Horacio G and Fortune, Eric},
     year = {2023},
     journal = {BMC Public Health},
     publisher = {BioMed Central London},
     volume = {23},
     number = {1},
     pages = {1788}
   }
   

2. Amplo, H. E., Camp, A., Harb, S., Sawiki, G., Craw-Ford, C., & Flammang, B. E. (2023). Using XROMM and morphological data to assess pronation in frogfishes. INTEGRATIVE AND COMPARATIVE BIOLOGY, 62, S10–S10.

   @inproceedings{amplo2023using,
     title = {Using XROMM and morphological data to assess pronation in frogfishes},
     author = {Amplo, HE and Camp, A and Harb, S and Sawiki, G and Craw-Ford, C and Flammang, BE},
     year = {2023},
     booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
     volume = {62},
     pages = {S10--S10},
     organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
   }
   

3. Amplo, H. E., & Flammang, B. E. (2020). Frogfish Pectoral Fin Functional Morphology. INTEGRATIVE AND COMPARATIVE BIOLOGY, 60, E5–E5.

   @inproceedings{amplo2020frogfish,
     title = {Frogfish Pectoral Fin Functional Morphology},
     author = {Amplo, HE and Flammang, BE},
     year = {2020},
     booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
     volume = {60},
     pages = {E5--E5},
     organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
   }
   

4. Amplo, H. E., Flammang, B. E., & Camp, C. (2021). Flipping frogfish fins: Using XROMM to study frogfish pectoral fins during locomotion. INTEGRATIVE AND COMPARATIVE BIOLOGY, 61, E18–E19.

   @inproceedings{amplo2021flipping,
     title = {Flipping frogfish fins: Using XROMM to study frogfish pectoral fins during locomotion},
     author = {Amplo, HE and Flammang, BE and Camp, C},
     year = {2021},
     booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
     volume = {61},
     pages = {E18--E19},
     organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
   }
   

5. Amplo, H., Camp, A., & Flammang, B. (2023). Exploring the Range of Motion of Antennarius commerson using XROMM. INTEGRATIVE AND COMPARATIVE BIOLOGY, 63, S12–S12.

   @inproceedings{amplo2023exploring,
     title = {Exploring the Range of Motion of Antennarius commerson using XROMM},
     author = {Amplo, Haley and Camp, Ariel and Flammang, Brooke},
     year = {2023},
     booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
     volume = {63},
     pages = {S12--S12},
     organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
   }
   

6. Anwar, H., Martinez, D., Bucher, D., & Nadim, F. (2022). Inter-Animal Variability in Activity Phase Is Constrained by Synaptic Dynamics in an Oscillatory Network [Journal Article]. ENeuro, 9(4). https://doi.org/10.1523/ENEURO.0027-22.2022
   DOI ABSTRACT

   @article{RN4061,
     title = {Inter-Animal Variability in Activity Phase Is Constrained by Synaptic Dynamics in an Oscillatory Network},
     author = {Anwar, H. and Martinez, D. and Bucher, D. and Nadim, F.},
     year = {2022},
     journal = {eNeuro},
     publisher = {Society for Neuroscience},
     volume = {9},
     number = {4},
     doi = {10.1523/ENEURO.0027-22.2022},
     issn = {2373-2822 (Electronic) 2373-2822 (Linking)},
     url = {https://www.ncbi.nlm.nih.gov/pubmed/35817566 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9319424/pdf/ENEURO.0027-22.2022.pdf},
     note = {Anwar, Haroon Martinez, Diana Bucher, Dirk Nadim, Farzan eng R01 MH060605/MH/NIMH NIH HHS/ Research Support, N.I.H., Extramural eNeuro. 2022 Jul 25;9(4). pii: ENEURO.0027-22.2022. doi: 10.1523/ENEURO.0027-22.2022. Print 2022 Jul-Aug.},
     keywords = {Animals \textasteriskcenteredBrachyura Ganglia \textasteriskcenteredGanglia, Invertebrate/physiology Neurons/physiology Pylorus/physiology \textasteriskcenteredcorrelations \textasteriskcentereddynamic clamp \textasteriskcenteredoscillation \textasteriskcenteredphase maintenance \textasteriskcenteredstomatogastric \textasteriskcenteredsynaptic dynamics},
     type = {Journal Article}
   }
   

   The levels of voltage-gated and synaptic currents in the same neuron type can vary substantially across individuals. Yet, the phase relationships between neurons in oscillatory circuits are often maintained, even in the face of varying oscillation frequencies. We examined whether synaptic and intrinsic currents are matched to maintain constant activity phases across preparations, using the lateral pyloric (LP) neuron of the stomatogastric ganglion (STG) of the crab, Cancer borealis LP produces stable oscillatory bursts on release from inhibition, with an onset phase that is independent of oscillation frequency. We quantified the parameters that define the shape of the synaptic current inputs across preparations and found no linear correlations with voltage-gated currents. However, several synaptic parameters were correlated with oscillation period and burst onset phase, suggesting they may play a role in phase maintenance. We used dynamic clamp to apply artificial synaptic inputs and found that those synaptic parameters correlated with phase and period were ineffective in influencing burst onset. Instead, parameters that showed the least variability across preparations had the greatest influence. Thus, parameters that influence circuit phasing are constrained across individuals, while those that have little effect simply co-vary with phase and frequency.

7. Araújo, N. A. M., Janssen, L. M. C., Barois, T., Boffetta, G., Cohen, I., Corbetta, A., Dauchot, O., Dijkstra, M., Durham, W. M., Dussutour, A., Garnier, S., Gelderblom, H., Golestanian, R., Isa, L., Koenderink, G. H., Löwen, H., Metzler, R., Polin, M., Royall, C. P., … Volpe, G. (2023). Steering self-organisation through confinement. Soft Matter, 19(9), 1695–1704. https://doi.org/10.1039/d2sm01562e
   DOI ABSTRACT

   @article{Araujo2023hw,
     title = {Steering self-organisation through confinement},
     author = {Ara\'{u}jo, Nuno A M and Janssen, Liesbeth M C and Barois, Thomas and Boffetta, Guido and Cohen, Itai and Corbetta, Alessandro and Dauchot, Olivier and Dijkstra, Marjolein and Durham, William M and Dussutour, Audrey and Garnier, Simon and Gelderblom, Hanneke and Golestanian, Ramin and Isa, Lucio and Koenderink, Gijsje H and L\"{o}wen, Hartmut and Metzler, Ralf and Polin, Marco and Royall, C Patrick and \v{S}ari\'{c}, An\dj{}ela and Sengupta, Anupam and Sykes, C\'{e}cile and Trianni, Vito and Tuval, Idan and Vogel, Nicolas and Yeomans, Julia M and Zuriguel, Iker and Marin, Alvaro and Volpe, Giorgio},
     year = {2023},
     month = {1~mar},
     journal = {Soft matter},
     volume = {19},
     number = {9},
     pages = {1695--1704},
     doi = {10.1039/d2sm01562e},
     issn = {1744-683X,1744-6848},
     url = {http://dx.doi.org/10.1039/d2sm01562e},
     affiliation = {Departamento de F\'{\i}sica, Faculdade de Ci\^{e}ncias, Universidade de Lisboa, 1749-016, Lisboa, Portugal. nmaraujo\@fc.ul.pt. Centro de F\'{\i}sica Te\'{o}rica e Computacional, Faculdade de Ci\^{e}ncias, Universidade de Lisboa, 1749-016, Lisboa, Portugal. Department of Applied Physics and Science Education, Eindhoven University of Technology, P.O. Box 513, 5600 MB, Eindhoven, The Netherlands. l.m.c.janssen\@tue.nl. Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB, Eindhoven, The Netherlands. University of Bordeaux, CNRS, LOMA, UMR 5798, F-33400, Talence, France. Department of Physics and INFN, University of Torino, via Pietro Giuria 1, 10125, Torino, Italy. Kavli Institute at Cornell for Nanoscale Science, Cornell University, Ithaca, New York, USA. Laboratory of Atomic and Solid-State Physics, Cornell University, Ithaca, New York, USA. Gulliver UMR CNRS 7083, ESPCI Paris, Universit\'{e} PSL, 75005, Paris, France. Soft condensed matter, Department of Physics, Debye institute for Nanomaterials Science, Utrecht University, Princetonplein 1, 3584 CC, Utrecht, The Netherlands. Department of Physics and Astronomy, University of Sheffield, Hounsfield Road, Sheffield, S3 7RH, UK. Research Centre on Animal Cognition (CRCA), Centre for Integrative Biology (CBI), Toulouse University, CNRS, UPS, Toulouse, 31062, AD, France. Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ, 07102, USA. Department of Applied Physics and J. M. Burgers Center for Fluid Dynamics, Eindhoven University of Technology, P.O. Box 513, 5600 MB, Eindhoven, The Netherlands. Max Planck Institute for Dynamics and Self-Organization (MPI-DS), 37077, G\"{o}ttingen, Germany. Rudolf Peierls Centre for Theoretical Physics, University of Oxford, Oxford, OX1 3PU, UK. Laboratory for Soft Materials and Interfaces, Department of Materials, ETH Z\"{u}rich, 8093, Z\"{u}rich, Switzerland. Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, 2629 HZ, Delft, The Netherlands. Institut f\"{u}r Theoretische Physik II: Weiche Materie, Heinrich-Heine-Universit\"{a}t D\"{u}sseldorf, Universit\"{a}tsstrasse 1, 40225, D\"{u}sseldorf, Germany. Institute of Physics \& Astronomy, University of Potsdam, Karl-Liebknecht-Str 24/25, D-14476, Potsdam-Golm, Germany. Mediterranean Institute for Advanced Studies, IMEDEA UIB-CSIC, C/Miquel Marqu\'{e}s 21, 07190, Esporles, Spain. Department of Physics, University of Warwick, Gibbet Hill road, CV4 7AL, Coventry, UK. Institute of Science and Technology Austria, 3400, Klosterneuburg, Austria. Physics of Living Matter, Department of Physics and Materials Science, University of Luxembourg, 162 A, Avenue de la Fa\"{\i}encerie, L-1511, Luxembourg. Laboratoire de Physique de l\'{E}cole normale sup\'{e}rieure, ENS, Universit\'{e} PSL, CNRS, Sorbonne Universit\'{e}, Universit\'{e} Paris Cit\'{e}, F-75005, Paris, France. Institute of Cognitive Sciences and Technologies, CNR, Via San Martino della Battaglia 44, 00185, Rome, Italy. Institute of Particle Technology, Friedrich-Alexander Universit\"{a}t Erlangen-N\"{u}rnberg, Cauerstrasse 4, 91058, Erlangen, Germany. Departamento de F\'{\i}sica y Matem\'{a}tica Aplicada, Facultad de Ciencias, Universidad de Navarra, Pamplona, Spain. Physics of Fluids Group, Mesa+ Institute, Max Planck Center for Complex Fluid Dynamics and J. M. Burgers Center for Fluid Dynamics, University of Twente, 7500AE, Enschede, The Netherlands. a.marin\@utwente.nl. Department of Chemistry, University College London, 20 Gordon Street, London, WC1H 0AJ, UK. g.volpe\@ucl.ac.uk.},
     file = {All Papers/2023/Araújo et al. 2023 - Steering self-organisation through confinement.pdf},
     pmc = {PMC9977364},
     pmid = {36779972},
     language = {en}
   }
   

   Self-organisation is the spontaneous emergence of spatio-temporal structures and patterns from the interaction of smaller individual units. Examples are found across many scales in very different systems and scientific disciplines, from physics, materials science and robotics to biology, geophysics and astronomy. Recent research has highlighted how self-organisation can be both mediated and controlled by confinement. Confinement is an action over a system that limits its units’ translational and rotational degrees of freedom, thus also influencing the system’s phase space probability density; it can function as either a catalyst or inhibitor of self-organisation. Confinement can then become a means to actively steer the emergence or suppression of collective phenomena in space and time. Here, to provide a common framework and perspective for future research, we examine the role of confinement in the self-organisation of soft-matter systems and identify overarching scientific challenges that need to be addressed to harness its full scientific and technological potential in soft matter and related fields. By drawing analogies with other disciplines, this framework will accelerate a common deeper understanding of self-organisation and trigger the development of innovative strategies to steer it using confinement, with impact on, e.g., the design of smarter materials, tissue engineering for biomedicine and in guiding active matter.

8. Atkins, J. W., Bhatt, P., Carrasco, L., Francis, E., Garabedian, J. E., Hakkenberg, C. R., Hardiman, B. S., Jung, J., Koirala, A., LaRue, E. A., Oh, S., Shao, G., Shao, G., Shugart, H. H., Spiers, A., Stovall, A. E. L., Surasinghe, T. D., Tai, X., Zhai, L., … Krause, K. (2023). Integrating forest structural diversity measurement into ecological research [Journal Article]. Ecosphere, 14(9), e4633.

   @article{RN1020,
     title = {Integrating forest structural diversity measurement into ecological research},
     author = {Atkins, Jeff W and Bhatt, Parth and Carrasco, Luis and Francis, Emily and Garabedian, James E and Hakkenberg, Christopher R and Hardiman, Brady S and Jung, Jinha and Koirala, Anil and LaRue, Elizabeth A and Oh, Sungchan and Shao, Gang and Shao, Guofan and Shugart, H. H. and Spiers, Anna and Stovall, Atticus E. L. and Surasinghe, Thilina D. and Tai, Xiaonan and Zhai, Lu and Zhang, Tao and Krause, Keith},
     year = {2023},
     journal = {Ecosphere},
     volume = {14},
     number = {9},
     pages = {e4633},
     issn = {2150-8925},
     type = {Journal Article}
   }
   

9. Bagchi-Sen, S., Schunder, T., & Tai, X. (2020). An analysis of employment patterns of domestic migrants and immigrants in a Rustbelt city: A study of Buffalo-Niagara Falls [Journal Article]. Growth and Change, 51(1), 123–143.

   @article{RN1023,
     title = {An analysis of employment patterns of domestic migrants and immigrants in a Rustbelt city: A study of Buffalo-Niagara Falls},
     author = {Bagchi-Sen, Sharmistha and Schunder, Torsten and Tai, Xiaonan},
     year = {2020},
     journal = {Growth and Change},
     volume = {51},
     number = {1},
     pages = {123--143},
     issn = {0017-4815},
     type = {Journal Article}
   }
   

10. Bajor, A. A., Pettersson, G. M., Senftleben, M. L., Fouke, K. E., Graham, T. G., John, D. D., Morgan, J. R., Haspel, G., Abrahamsson, S., & others. (2024). High-speed 3D Imaging with 25-Camera Multifocus Microscope.

    @article{bajor2024high,
      title = {High-speed 3D Imaging with 25-Camera Multifocus Microscope},
      author = {Bajor, AA and Pettersson, GM and Senftleben, ML and Fouke, KE and Graham, TG and John, DD and Morgan, JR and Haspel, G and Abrahamsson, S and others},
      year = {2024}
    }
    

11. Barden, P. (2024). Data and results for Sosiak et al." Prolonged faunal turnover in earliest ants revealed by North American Cretaceous amber". (No Title).

    @article{barden2024data,
      title = {Data and results for Sosiak et al." Prolonged faunal turnover in earliest ants revealed by North American Cretaceous amber"},
      author = {Barden, Phillip},
      year = {2024},
      journal = {(No Title)},
      publisher = {Zenodo}
    }
    

12. Barden, P. (2023). Community form, function and phylogenetic diversity respond differently across microhabitat and recovery gradients. Journal of Animal Ecology, 92(7), 1290–1293.

    @article{barden2023community,
      title = {Community form, function and phylogenetic diversity respond differently across microhabitat and recovery gradients},
      author = {Barden, Phillip},
      year = {2023},
      journal = {Journal of Animal Ecology},
      volume = {92},
      number = {7},
      pages = {1290--1293}
    }
    

13. Barden, P. (2023). Where the Hell Ants Came From. American Entomologist, 69(3), 36–37.

    @article{barden2023hell,
      title = {Where the Hell Ants Came From},
      author = {Barden, Phillip},
      year = {2023},
      journal = {American Entomologist},
      publisher = {Oxford University Press US},
      volume = {69},
      number = {3},
      pages = {36--37}
    }
    

14. Barden, P. (2020). Extinction through Ancient Compound Eyes. American Entomologist, 66(1), 64–64.

    @article{barden2020extinction,
      title = {Extinction through Ancient Compound Eyes},
      author = {Barden, Phillip},
      year = {2020},
      journal = {American Entomologist},
      publisher = {Oxford University Press US},
      volume = {66},
      number = {1},
      pages = {64--64}
    }
    

15. Barden, P., & Engel, M. S. (2022). The vision of David Grimaldi. Palaeoentomology, 5(5), 406–429.

    @article{barden2022vision,
      title = {The vision of David Grimaldi},
      author = {Barden, Phillip and Engel, Michael S},
      year = {2022},
      journal = {Palaeoentomology},
      volume = {5},
      number = {5},
      pages = {406--429}
    }
    

16. Barden, P., & Engel, M. S. (2020). Fossil Social Insects. In Encyclopedia of Social Insects. Springer International.

    @incollection{barden2020fossil,
      title = {Fossil Social Insects},
      author = {Barden, Phillip and Engel, Michael S.},
      year = {2020},
      booktitle = {Encyclopedia of Social Insects},
      publisher = {Springer International}
    }
    

17. Barden, P., Perrichot, V., & Wang, B. (2020). Specialized predation drives aberrant morphological integration and diversity in the earliest ants. Current Biology, 30(19), 3818–3824.

    @article{barden2020specialized,
      title = {Specialized predation drives aberrant morphological integration and diversity in the earliest ants},
      author = {Barden, Phillip and Perrichot, Vincent and Wang, Bo},
      year = {2020},
      journal = {Current Biology},
      publisher = {Elsevier},
      volume = {30},
      number = {19},
      pages = {3818--3824}
    }
    

18. Barden, P., Sosiak, C. E., Grajales, J., Hawkins, J., Rizzo, L., Clark, A., Gatley, S., Gatley, I., & Federici, J. (2022). Non-destructive comparative evaluation of fossil amber using terahertz time-domain spectroscopy. Plos One, 17(3), e0262983.

    @article{barden2022non,
      title = {Non-destructive comparative evaluation of fossil amber using terahertz time-domain spectroscopy},
      author = {Barden, Phillip and Sosiak, Christine E and Grajales, Jonpierre and Hawkins, John and Rizzo, Louis and Clark, Alexander and Gatley, Samuel and Gatley, Ian and Federici, John},
      year = {2022},
      journal = {Plos One},
      publisher = {Public Library of Science San Francisco, CA USA},
      volume = {17},
      number = {3},
      pages = {e0262983}
    }
    

19. Barden, P. M. (2023). Collaborative Research: RUI: Uncovering eusocial pathways and consequences: Phylogenomics, morphological, and molecular evolution in Synalpheus snapping shrimps. NSF Award Number 2306958. Directorate for Biological Sciences, 23(2306958), 6958.

    @article{barden2023collaborative,
      title = {Collaborative Research: RUI: Uncovering eusocial pathways and consequences: Phylogenomics, morphological, and molecular evolution in Synalpheus snapping shrimps.},
      author = {Barden, Phillip M},
      year = {2023},
      journal = {NSF Award Number 2306958. Directorate for Biological Sciences},
      volume = {23},
      number = {2306958},
      pages = {6958}
    }
    

20. Barden, P. M. (2022). CAREER: Fossil Amber Insight Into Macroevolutionary Dynamics in an Ecologically Diverse Island System. NSF Award Number 2144915. Directorate for Biological Sciences, 21(2144915), 44915.

    @article{barden2022career,
      title = {CAREER: Fossil Amber Insight Into Macroevolutionary Dynamics in an Ecologically Diverse Island System},
      author = {Barden, Phillip M},
      year = {2022},
      journal = {NSF Award Number 2144915. Directorate for Biological Sciences},
      volume = {21},
      number = {2144915},
      pages = {44915}
    }
    

21. Behzadi, S., Ho, J., Tanvir, Z., Haspel, G., Freifeld, L., & Severi, K. E. (2025). Expansion microscopy reveals neural circuit organization in genetic animal models. Neurophotonics, 12(1), 010601–010601.

    @article{behzadi2025expansion,
      title = {Expansion microscopy reveals neural circuit organization in genetic animal models},
      author = {Behzadi, Shakila and Ho, Jacquelin and Tanvir, Zainab and Haspel, Gal and Freifeld, Limor and Severi, Kristen E},
      year = {2025},
      journal = {Neurophotonics},
      publisher = {Society of Photo-Optical Instrumentation Engineers},
      volume = {12},
      number = {1},
      pages = {010601--010601}
    }
    

22. Bhat, A., Madhav, M., Jayakumar, R., Cowan, N., & Fortune, E. (2021). Efficient localization of weakly electric fish with an electrode array. INTEGRATIVE AND COMPARATIVE BIOLOGY, 61, E1057–E1058.

    @inproceedings{bhat2021efficient,
      title = {Efficient localization of weakly electric fish with an electrode array},
      author = {Bhat, A and Madhav, M and Jayakumar, R and Cowan, N and Fortune, E},
      year = {2021},
      booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
      volume = {61},
      pages = {E1057--E1058},
      organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
    }
    

23. Biondi, A. A., Amplo, H. E., Crawford, C. H., Bemis, K. E., & Flammang, B. E. (2020). Adventures in scaling and remodeled morphology: the case of the Ocean Sunfish. INTEGRATIVE AND COMPARATIVE BIOLOGY, 60, E18–E18.

    @inproceedings{biondi2020adventures,
      title = {Adventures in scaling and remodeled morphology: the case of the Ocean Sunfish},
      author = {Biondi, AA and Amplo, HE and Crawford, CH and Bemis, KE and Flammang, BE},
      year = {2020},
      booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
      volume = {60},
      pages = {E18--E18},
      organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
    }
    

24. Biondi, A. A., & Flammang, B. E. (2021). Teaching a hands on, interactive course remotely in a socially distanced world. INTEGRATIVE AND COMPARATIVE BIOLOGY, 61, E1059–E1059.

    @inproceedings{biondi2021teaching,
      title = {Teaching a hands on, interactive course remotely in a socially distanced world},
      author = {Biondi, AA and Flammang, BE},
      year = {2021},
      booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
      volume = {61},
      pages = {E1059--E1059},
      organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
    }
    

25. Biondi, A. A., Kellogg, J. E., Ruane, S., Amplo, H. E., Crawford, C. H., & Flammang, B. E. (2021). Morphological based relationships of the Molidae family supported by molecular phylogeny and 3D geometric morphometrics. INTEGRATIVE AND COMPARATIVE BIOLOGY, 61, E60–E61.

    @inproceedings{biondi2021morphological,
      title = {Morphological based relationships of the Molidae family supported by molecular phylogeny and 3D geometric morphometrics},
      author = {Biondi, AA and Kellogg, JE and Ruane, S and Amplo, HE and Crawford, CH and Flammang, BE},
      year = {2021},
      booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
      volume = {61},
      pages = {E60--E61},
      organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
    }
    

26. Biswas, D., Lamperski, A., Yang, Y., Hoffman, K., Guckenheimer, J., Fortune, E. S., & Cowan, N. J. (2023). Organisms use mode-switching to solve the explore-vs-exploit problem. BioRxiv, 2023–2001.

    @article{biswas2023organisms,
      title = {Organisms use mode-switching to solve the explore-vs-exploit problem},
      author = {Biswas, Debojyoti and Lamperski, Andrew and Yang, Yu and Hoffman, Kathleen and Guckenheimer, John and Fortune, Eric S and Cowan, Noah J},
      year = {2023},
      journal = {bioRxiv},
      publisher = {Cold Spring Harbor Laboratory},
      pages = {2023--01}
    }
    

27. Biswas, D., Lamperski, A., Yang, Y., Hoffman, K., Guckenheimer, J., Fortune, E. S., & Cowan, N. J. (2023). Mode switching in organisms for solving explore-versus-exploit problems. Nature Machine Intelligence, 5(11), 1285–1296.

    @article{biswas2023mode,
      title = {Mode switching in organisms for solving explore-versus-exploit problems},
      author = {Biswas, Debojyoti and Lamperski, Andrew and Yang, Yu and Hoffman, Kathleen and Guckenheimer, John and Fortune, Eric S and Cowan, Noah J},
      year = {2023},
      journal = {Nature Machine Intelligence},
      publisher = {Nature Publishing Group UK London},
      volume = {5},
      number = {11},
      pages = {1285--1296}
    }
    

28. Blackiston, D., Lederer, E., Kriegman, S., Garnier, S., Bongard, J., & Levin, M. (2021). A cellular platform for the development of synthetic living machines. Science Robotics, 6(52). https://doi.org/10.1126/scirobotics.abf1571
    DOI ABSTRACT

    @article{Blackiston2021qb,
      title = {A cellular platform for the development of synthetic living machines},
      author = {Blackiston, Douglas and Lederer, Emma and Kriegman, Sam and Garnier, Simon and Bongard, Joshua and Levin, Michael},
      year = {2021},
      month = {31~mar},
      journal = {Science robotics},
      publisher = {Science Robotics},
      volume = {6},
      number = {52},
      doi = {10.1126/scirobotics.abf1571},
      issn = {2470-9476},
      url = {http://dx.doi.org/10.1126/scirobotics.abf1571},
      affiliation = {Allen Discovery Center at Tufts University, Medford, MA 02155, USA. Department of Computer Science, University of Vermont, Burlington, VT 05405, USA. Federated Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ 07102, USA. Allen Discovery Center at Tufts University, Medford, MA 02155, USA. michael.levin\@tufts.edu. Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA 02115, USA.},
      file = {All Papers/2021/Blackiston et al. 2021 - A cellular platform for the development of synthetic living machines.pdf},
      pmid = {34043553},
      language = {en}
    }
    

    Robot swarms have, to date, been constructed from artificial materials. Motile biological constructs have been created from muscle cells grown on precisely shaped scaffolds. However, the exploitation of emergent self-organization and functional plasticity into a self-directed living machine has remained a major challenge. We report here a method for generation of in vitro biological robots from frog (Xenopus laevis) cells. These xenobots exhibit coordinated locomotion via cilia present on their surface. These cilia arise through normal tissue patterning and do not require complicated construction methods or genomic editing, making production amenable to high-throughput projects. The biological robots arise by cellular self-organization and do not require scaffolds or microprinting; the amphibian cells are highly amenable to surgical, genetic, chemical, and optical stimulation during the self-assembly process. We show that the xenobots can navigate aqueous environments in diverse ways, heal after damage, and show emergent group behaviors. We constructed a computational model to predict useful collective behaviors that can be elicited from a xenobot swarm. In addition, we provide proof of principle for a writable molecular memory using a photoconvertible protein that can record exposure to a specific wavelength of light. Together, these results introduce a platform that can be used to study many aspects of self-assembly, swarm behavior, and synthetic bioengineering, as well as provide versatile, soft-body living machines for numerous practical applications in biomedicine and the environment.

29. Boudinot, B. E., Khouri, Z., Richter, A., Griebenow, Z. H., van de Kamp, T., Perrichot, V., & Barden, P. (2022). Evolution and systematics of the Aculeata and kin (Hymenoptera), with emphasis on the ants (Formicoidea:\textdagger\@\@\@idae fam. nov., Formicidae). BioRxiv, 2022–2002.

    @article{boudinot2022evolution,
      title = {Evolution and systematics of the Aculeata and kin (Hymenoptera), with emphasis on the ants (Formicoidea:\textdagger{}\@\@\@ idae fam. nov., Formicidae)},
      author = {Boudinot, Brendon E and Khouri, Ziad and Richter, Adrian and Griebenow, Zachary H and van de Kamp, Thomas and Perrichot, Vincent and Barden, Phillip},
      year = {2022},
      journal = {BioRxiv},
      publisher = {Cold Spring Harbor Laboratory},
      pages = {2022--02}
    }
    

30. Boudinot, B. F., Khouri, Z., Lieberman, Z., Richter, A., van de Kamp, T., Barden, P., Sosiak, C., Perrichot, V., Wang, B., & Chaul, J. (2020). The aculeate ancestry and evolution of the ants (Hymenoptera, Aculeata, Formicidae). 104th Annual Meeting of the Pacific Branch of the Entomological Society of America, id–151891.

    @inproceedings{boudinot2020aculeate,
      title = {The aculeate ancestry and evolution of the ants (Hymenoptera, Aculeata, Formicidae)},
      author = {Boudinot, Brendon F and Khouri, Ziad and Lieberman, Ziv and Richter, Adrian and van de Kamp, Thomas and Barden, Phillip and Sosiak, Christine and Perrichot, Vincent and Wang, Bo and Chaul, J{\'u}lio},
      year = {2020},
      booktitle = {104th Annual Meeting of the Pacific Branch of the Entomological Society of America},
      pages = {id--151891}
    }
    

31. Bouju, V., Chény, C., Gotzek, D., Perrichot, V., Fernandez, F., Barden, P., & Fiorentino, G. (2026). Solenopsis (Hymenoptera, Formicidae) thief ants in Dominican amber and putative subfossil resin. Fossil Record, 29(2), 499–517. https://doi.org/10.3897/fr.29.181268
    DOI ABSTRACT

    @article{Bouju26,
      title = {Solenopsis (Hymenoptera, Formicidae) thief ants in Dominican amber and putative subfossil resin},
      author = {Bouju, Valentine and Chény, Cédric and Gotzek, Dietrich and Perrichot, Vincent and Fernandez, Fernando and Barden, Phillip and Fiorentino, Gianpiero},
      year = {2026},
      journal = {Fossil Record},
      publisher = {Pensoft Publishers},
      volume = {29},
      number = {2},
      pages = {499--517},
      doi = {10.3897/fr.29.181268},
      issn = {2193-0066},
      url = {https://doi.org/10.3897/fr.29.181268},
      eprint = {https://doi.org/10.3897/fr.29.181268}
    }
    

    Solenopsis is a diverse genus of myrmicine ants with a global distribution. Several extinct species have been described but these occurrences are limited to the Palaearctic as imprint fossils. Wilson (1985, 1988) mentioned specimens of Solenopsis preserved in Dominican amber (Middle Miocene, ca. 16 Ma), though these have not been formally described. Through ethanol exposure and Raman spectroscopy, we assessed the provenance of several putative amber specimens in museum collections. We identified multiple instances of labeled amber specimens that are instead most likely subfossil copal or recent resin – these include specimens in a historical collection. Based on material with provenance and properties consistent with fossil resin, or, amber, we report five new fossil species of minor workers attributed to the genus Solenopsis: S. lamellata sp. nov., S. pilonaria sp. nov., S. merengue sp. nov., S. viralata sp. nov., and S. picapica sp. nov. One of the species described, S. lamellata sp. nov., is highly aberrant, possessing a spine-like lamella on the posterior margin of the propodeum, a trait not shared with any known Solenopsis species. The discovery of these five fossil species sheds light on the biogeographic history of the genus Solenopsis. Beyond ants, these results highlight the need for caution in assuming the provenance of specimens from museum collections and commercial sources.

32. Brooks, P. D., Gelderloos, A., Wolf, M. A., Jamison, L. R., Strong, C., Solomon, D. K., Bowen, G. J., Burian, S., Tai, X., & Arens, S. (2021). Groundwater-Mediated Memory of Past Climate Controls Water Yield in Snowmelt-Dominated Catchments [Journal Article]. Water Resources Research, 57(10), e2021WR030605.

    @article{RN770,
      title = {Groundwater-Mediated Memory of Past Climate Controls Water Yield in Snowmelt-Dominated Catchments},
      author = {Brooks, Paul D and Gelderloos, Andrew and Wolf, Margaret A and Jamison, Logan R and Strong, Courtenay and Solomon, D Kip and Bowen, Gabriel J and Burian, Steve and Tai, Xiaonan and Arens, Seth},
      year = {2021},
      journal = {Water Resources Research},
      volume = {57},
      number = {10},
      pages = {e2021WR030605},
      issn = {0043-1397},
      type = {Journal Article}
    }
    

33. Bruns, A., Flammang, B. E., Papotti, G., Mastropoll, C., Hansen, T., & Anderson, I. (2025). A bioinspired fish fin webbing for proprioceptive feedback. Bioinspiration & Biomimetics, 20(1), 016028.

    @article{bruns2025bioinspired,
      title = {A bioinspired fish fin webbing for proprioceptive feedback},
      author = {Bruns, Arne and Flammang, Brooke E and Papotti, Gabor and Mastropoll, Connor and Hansen, Tom and Anderson, Iain},
      year = {2025},
      journal = {Bioinspiration \& Biomimetics},
      publisher = {IOP Publishing},
      volume = {20},
      number = {1},
      pages = {016028}
    }
    

34. Bucher, D. M., Daur, N., Varughese, A., Schneider, A. C., & Nadim, F. (2026). High-Pass Filtering through Short-Term Synaptic Facilitation Amplifies Low-Frequency Modulation of Bursting Input [Journal Article]. The Journal of Neuroscience, 46(3), e1652252025. https://doi.org/10.1523/jneurosci.1652-25.2025
    DOI ABSTRACT

    @article{RN4354,
      title = {High-Pass Filtering through Short-Term Synaptic Facilitation Amplifies Low-Frequency Modulation of Bursting Input},
      author = {Bucher, Dirk M. and Daur, Nelly and Varughese, Abigail and Schneider, Anna C. and Nadim, Farzan},
      year = {2026},
      journal = {The Journal of Neuroscience},
      volume = {46},
      number = {3},
      pages = {e1652252025},
      doi = {10.1523/jneurosci.1652-25.2025},
      url = {https://www.jneurosci.org/content/jneuro/46/3/e1652252025.full.pdf},
      type = {Journal Article}
    }
    

    Regular rhythmic activity typically produces stereotypical synaptic responses, masking dynamics due to short-term synaptic plasticity (STP). Multiple-frequency (e.g., Poisson-like) inputs unveil canonical STP effects where facilitation or depression, respectively, favor high- or low-frequency inputs, and a mix of both favors intermediate frequencies. Notably, regular activity with multiple oscillatory components can produce synaptic responses that are not readily surmisable from canonical STP responses. In the responses of rhythmically activated muscles of the lobster (Homarus americanus), of either sex, slow modulation of bursting inputs, consisting of periodic changes in burst frequency and spike number, is amplified by dynamic neuromuscular synapses. Using a simple STP model, we demonstrate that facilitation enhances the difference (contrast) in responses to strong and weak bursts, while depression diminishes it. Nonintuitively, such changes in contrast imply that high-pass filtering enhances low-frequency components of the modulated bursting, whereas low-pass filtering attenuates them. For mixtures of facilitation and depression, our modeling results suggest a complex dependence of the readout of slow modulation on overall release probability and recovery times for vesicle depletion and calcium accumulation. Notably, these effects are reduced when the recovery time of STP exceeds the burst period and thereby allows a memory of prior activity across consecutive bursts. Additionally, with memory across bursts, response contrast does not change proportionally with input contrast and depends on the number of bursts per slow modulation cycle. Finally, a biophysical model of a postsynaptic cell demonstrates that simple subthreshold voltage-gated conductances can substantially contribute to the readout of low-frequency modulation.

35. Calbi, M., Boenisch, G., Boulangeat, I., Bunker, D., Catford, J. A., Changenet, A., Culshaw, V., Dias, A. S., Hauck, T., Joschinski, J., & others. (2024). A novel framework to generate plant functional groups for ecological modelling. Ecological Indicators, 166, 112370.

    @article{calbi2024novel,
      title = {A novel framework to generate plant functional groups for ecological modelling},
      author = {Calbi, Mariasole and Boenisch, Gerhard and Boulangeat, Isabelle and Bunker, Daniel and Catford, Jane A and Changenet, Alexandre and Culshaw, Victoria and Dias, Arildo S and Hauck, Thomas and Joschinski, Jens and others},
      year = {2024},
      journal = {Ecological Indicators},
      publisher = {Elsevier},
      volume = {166},
      pages = {112370}
    }
    

36. Capobianco, G., Chialva, U., & Rotstein, H. G. (2026). Data-Based Dynamical Systems Reconstruction: An Adequacy/Reliability Test. https://arxiv.org/abs/2606.24873
    ABSTRACT

    @unpublished{capobianco2026databaseddynamicalsystemsreconstruction,
      title = {Data-Based Dynamical Systems Reconstruction: An Adequacy/Reliability Test},
      author = {Capobianco, Guillermo and Chialva, Ulises and Rotstein, Horacio G.},
      year = {2026},
      url = {https://arxiv.org/abs/2606.24873},
      eprint = {2606.24873},
      archiveprefix = {arXiv},
      primaryclass = {math-ph}
    }
    

    In this work, we address the problem of validating the reconstruction of a stochastic system from noisy data. We demonstrate the limitations of criteria based solely on the loss function or on standard metrics used for reconstructing deterministic dynamics. We also propose an exploratory approach, based on a two-step test, which allows for a general assessment of the reconstruction without relying on arbitrary error-tolerance thresholds. However, we discuss how system degeneracy and non-identifiability, together with features intrinsic to stochastic dynamics, impose certain constraints on the application of this test.)

37. Carlesso, D., McNab, J. M., Lustri, C. J., Garnier, S., & Reid, C. R. (2023). A simple mechanism for collective decision-making in the absence of payoff information. Proceedings of the National Academy of Sciences of the United States of America, 120(29), e2216217120. https://doi.org/10.1073/pnas.2216217120
    DOI ABSTRACT

    @article{Carlesso2023ot,
      title = {A simple mechanism for collective decision-making in the absence of payoff information},
      author = {Carlesso, Daniele and McNab, Justin M and Lustri, Christopher J and Garnier, Simon and Reid, Chris R},
      year = {2023},
      month = {18~jul},
      journal = {Proceedings of the National Academy of Sciences of the United States of America},
      volume = {120},
      number = {29},
      pages = {e2216217120},
      doi = {10.1073/pnas.2216217120},
      issn = {0027-8424,1091-6490},
      url = {http://dx.doi.org/10.1073/pnas.2216217120},
      affiliation = {School of Natural Sciences, Macquarie University, Sydney, NSW 2109, Australia. School of Mathematics and Statistics, The University of Sydney, Camperdown, NSW 2006, Australia. School of Mathematical and Physical Sciences, Macquarie University, Sydney, NSW 2109, Australia. Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ 07102.},
      file = {All Papers/2023/Carlesso et al. 2023 - A simple mechanism for collective decision-making in the absence of payoff information.pdf},
      eprint = {https://www.pnas.org/doi/pdf/10.1073/pnas.2216217120},
      keywords = {collective behavior; collective decision-making; self-assembly; swarm intelligence; uncertainty},
      pmc = {PMC10629567},
      pmid = {37428910},
      language = {en}
    }
    

    Animals are often faced with time-critical decisions without prior information about their actions’ outcomes. In such scenarios, individuals budget their investment into the task to cut their losses in case of an adverse outcome. In animal groups, this may be challenging because group members can only access local information, and consensus can only be achieved through distributed interactions among individuals. Here, we combined experimental analyses with theoretical modeling to investigate how groups modulate their investment into tasks in uncertain conditions. Workers of the arboreal weaver ant Oecophylla smaragdina form three-dimensional chains using their own bodies to bridge vertical gaps between existing trails and new areas to explore. The cost of a chain increases with its length because ants participating in the structure are prevented from performing other tasks. The payoffs of chain formation, however, remain unknown to the ants until the chain is complete and they can explore the new area. We demonstrate that weaver ants cap their investment into chains, and do not form complete chains when the gap is taller than 90 mm. We show that individual ants budget the time they spend in chains depending on their distance to the ground, and propose a distance-based model of chain formation that explains the emergence of this tradeoff without the need to invoke complex cognition. Our study provides insights into the proximate mechanisms that lead individuals to engage (or not) in collective actions and furthers our knowledge of how decentralized groups make adaptive decisions in uncertain conditions.

38. Carlesso, D., Stewardson, M., McLean, D. J., Mazué, G. P. F., Garnier, S., Feinerman, O., & Reid, C. R. (2024). Leaderless consensus decision-making determines cooperative transport direction in weaver ants. Proceedings. Biological Sciences, 291(2028), 20232367. https://doi.org/10.1098/rspb.2023.2367
    DOI ABSTRACT

    @article{Carlesso2024wv,
      title = {Leaderless consensus decision-making determines cooperative transport direction in weaver ants},
      author = {Carlesso, Daniele and Stewardson, Madelyne and McLean, Donald James and Mazu\'{e}, Geoffrey P F and Garnier, Simon and Feinerman, Ofer and Reid, Chris R},
      year = {2024},
      month = aug,
      journal = {Proceedings. Biological sciences},
      publisher = {The Royal Society},
      volume = {291},
      number = {2028},
      pages = {20232367},
      doi = {10.1098/rspb.2023.2367},
      issn = {0962-8452,1471-2954},
      url = {https://royalsocietypublishing.org/doi/10.1098/rspb.2023.2367},
      file = {All Papers/2024/Carlesso et al. 2024 - Leaderless consensus decision-making determines cooperative transport direction in weaver ants.pdf},
      keywords = {collective behaviour; emergent behaviour; leadership; self-organization; swarm intelligence; wisdom-of-the-crowd},
      pmid = {39140325},
      language = {en}
    }
    

    Animal groups need to achieve and maintain consensus to minimize conflict among individuals and prevent group fragmentation. An excellent example of a consensus challenge is cooperative transport, where multiple individuals cooperate to move a large item together. This behaviour, regularly displayed by ants and humans only, requires individuals to agree on which direction to move in. Unlike humans, ants cannot use verbal communication but most likely rely on private information and/or mechanical forces sensed through the carried item to coordinate their behaviour. Here, we investigated how groups of weaver ants achieve consensus during cooperative transport using a tethered-object protocol, where ants had to transport a prey item that was tethered in place with a thin string. This protocol allows the decoupling of the movement of informed ants from that of uninformed individuals. We showed that weaver ants pool together the opinions of all group members to increase their navigational accuracy. We confirmed this result using a symmetry-breaking task, in which we challenged ants with navigating an open-ended corridor. Weaver ants are the first reported ant species to use a ’wisdom-of-the-crowd’ strategy for cooperative transport, demonstrating that consensus mechanisms may differ according to the ecology of each species.

39. Chak, S. T. C., Baeza, J. A., & Barden, P. (2021). Eusociality shapes convergent patterns of molecular evolution across mitochondrial genomes of snapping shrimps. Molecular Biology and Evolution, 38(4), 1372–1383.

    @article{chak2021eusociality,
      title = {Eusociality shapes convergent patterns of molecular evolution across mitochondrial genomes of snapping shrimps},
      author = {Chak, Solomon TC and Baeza, Juan Antonio and Barden, Phillip},
      year = {2021},
      journal = {Molecular Biology and Evolution},
      publisher = {Oxford University Press},
      volume = {38},
      number = {4},
      pages = {1372--1383}
    }
    

40. Chak, S. T. C., Barden, P., & Baeza, J. A. (2020). The complete mitochondrial genome of the eusocial sponge-dwelling snapping shrimp Synalpheus microneptunus. Scientific Reports, 10(1), 1–10.

    @article{chak2020complete,
      title = {The complete mitochondrial genome of the eusocial sponge-dwelling snapping shrimp Synalpheus microneptunus},
      author = {Chak, Solomon TC and Barden, Phillip and Baeza, J Antonio},
      year = {2020},
      journal = {Scientific reports},
      publisher = {Nature Publishing Group},
      volume = {10},
      number = {1},
      pages = {1--10}
    }
    

41. Christensen, L., Adams, H. R., Tai, X., Barnard, H. R., & Brooks, P. D. (2021). Increasing plant water stress and decreasing summer streamflow in response to a warmer and wetter climate in seasonally snow-covered forests [Journal Article]. Ecohydrology, 14(1), e2256.

    @article{RN1022,
      title = {Increasing plant water stress and decreasing summer streamflow in response to a warmer and wetter climate in seasonally snow-covered forests},
      author = {Christensen, Lindsey and Adams, Hallie R and Tai, Xiaonan and Barnard, Holly R and Brooks, Paul D},
      year = {2021},
      journal = {Ecohydrology},
      volume = {14},
      number = {1},
      pages = {e2256},
      issn = {1936-0584},
      type = {Journal Article}
    }
    

42. Christie, K. W., & Severi, K. E. (2021). Motor behavior: A feedforward circuit for zebrafish escape. Current Biology, 31(15), R965–R967.

    @article{christie2021motor,
      title = {Motor behavior: A feedforward circuit for zebrafish escape},
      author = {Christie, Kevin W and Severi, Kristen E},
      year = {2021},
      journal = {Current Biology},
      publisher = {Elsevier},
      volume = {31},
      number = {15},
      pages = {R965--R967}
    }
    

43. Clark, A. T., D’Anna, S., Nemati, J., Barden, P., Gatley, I., & Federici, J. (2022). Evaluation of fossil amber birefringence and inclusions using terahertz time-domain spectroscopy. Polymers, 14(24), 5506.

    @article{clark2022evaluation,
      title = {Evaluation of fossil amber birefringence and inclusions using terahertz time-domain spectroscopy},
      author = {Clark, Alexander T and D'Anna, Sophia and Nemati, Jessy and Barden, Phillip and Gatley, Ian and Federici, John},
      year = {2022},
      journal = {Polymers},
      publisher = {MDPI},
      volume = {14},
      number = {24},
      pages = {5506}
    }
    

44. Cohen, K. E., Crawford, C. H., Hernandez, L. P., Beckert, M., Nadler, J. H., & Flammang, B. E. (2020). Sucker with a fat lip: The soft tissues underlying the viscoelastic grip of remora adhesion. Journal of Anatomy, 237(4), 643–654.

    @article{cohen2020sucker,
      title = {Sucker with a fat lip: The soft tissues underlying the viscoelastic grip of remora adhesion},
      author = {Cohen, Karly E and Crawford, Callie H and Hernandez, Luz Patricia and Beckert, Michael and Nadler, Jason H and Flammang, Brooke E},
      year = {2020},
      journal = {Journal of Anatomy},
      volume = {237},
      number = {4},
      pages = {643--654}
    }
    

45. Cohen, K. E., Flammang, B. E., Crawford, C. H., & Hernandez, L. P. (2020). Knowing when to stick: touch receptors found in the remora adhesive disc. Royal Society Open Science, 7(1), 190990.

    @article{cohen2020knowing,
      title = {Knowing when to stick: touch receptors found in the remora adhesive disc},
      author = {Cohen, Karly E and Flammang, Brooke E and Crawford, Callie H and Hernandez, L Patricia},
      year = {2020},
      journal = {Royal Society open science},
      publisher = {The Royal Society},
      volume = {7},
      number = {1},
      pages = {190990}
    }
    

46. Coleman, M. J., Day, N. F., & Fortune, E. S. (2022). Neural mechanisms for turn-taking in duetting plain-tailed wrens. Frontiers in Neural Circuits, 16, 970434.

    @article{coleman2022neural,
      title = {Neural mechanisms for turn-taking in duetting plain-tailed wrens},
      author = {Coleman, Melissa J and Day, Nancy F and Fortune, Eric S},
      year = {2022},
      journal = {Frontiers in Neural Circuits},
      publisher = {Frontiers Media SA},
      volume = {16},
      pages = {970434}
    }
    

47. Coleman, M. J., Day, N. F., Rivera-Parra, P., & Fortune, E. S. (2021). Neurophysiological coordination of duet singing. Proceedings of the National Academy of Sciences, 118(23), e2018188118.

    @article{coleman2021neurophysiological,
      title = {Neurophysiological coordination of duet singing},
      author = {Coleman, Melissa J and Day, Nancy F and Rivera-Parra, Pamela and Fortune, Eric S},
      year = {2021},
      journal = {Proceedings of the National Academy of Sciences},
      publisher = {National Academy of Sciences},
      volume = {118},
      number = {23},
      pages = {e2018188118}
    }
    

48. Crawford, C. H., Cerrato-Morales, C. L., & Flammang, B. E. (2020). Comparative Kinematics of Terrestrial Walking in Two Balitorid Loaches. INTEGRATIVE AND COMPARATIVE BIOLOGY, 60, E49–E49.

    @inproceedings{crawford2020comparative,
      title = {Comparative Kinematics of Terrestrial Walking in Two Balitorid Loaches},
      author = {Crawford, CH and Cerrato-Morales, CL and Flammang, BE},
      year = {2020},
      booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
      volume = {60},
      pages = {E49--E49},
      organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
    }
    

49. Crawford, C. H., Cerrato-Moralse, C. L., Webber-Schultz, A. C., Hart, P. B., Randall, Z. S., Chakrabarty, P., Page, L. M., Suvarnaraksha, A., & Flammang, B. E. (2021). Kinematics of terrestrial walking in balitorid loaches. INTEGRATIVE AND COMPARATIVE BIOLOGY, 61, E169–E170.

    @inproceedings{crawford2021kinematics,
      title = {Kinematics of terrestrial walking in balitorid loaches},
      author = {Crawford, CH and Cerrato-Moralse, CL and Webber-Schultz, AC and Hart, PB and Randall, ZS and Chakrabarty, P and Page, LM and Suvarnaraksha, A and Flammang, BE},
      year = {2021},
      booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
      volume = {61},
      pages = {E169--E170},
      organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
    }
    

50. Crawford, C. H., Randall, Z. S., Hart, P. B., Page, L. M., Chakrabarty, P., Suvarnaraksha, A., & Flammang, B. E. (2020). Skeletal and muscular pelvic morphology of hillstream loaches (Cypriniformes: Balitoridae). Journal of Morphology, 281(10), 1280–1295.

    @article{crawford2020skeletal,
      title = {Skeletal and muscular pelvic morphology of hillstream loaches (Cypriniformes: Balitoridae)},
      author = {Crawford, Callie H and Randall, Zachary S and Hart, Pamela B and Page, Lawrence M and Chakrabarty, Prosanta and Suvarnaraksha, Apinun and Flammang, Brooke E},
      year = {2020},
      journal = {Journal of Morphology},
      publisher = {John Wiley \& Sons, Inc. Hoboken, USA},
      volume = {281},
      number = {10},
      pages = {1280--1295}
    }
    

51. Crawford, C. H., Webber-Schultz, A., Hart, P. B., Randall, Z. S., Cerrato-Morales, C., Kellogg, A. B., Amplo, H. E., Suvarnaraksha, A., Page, L. M., Chakrabarty, P., & others. (2022). They like to move it (move it): walking kinematics of balitorid loaches of Thailand. Journal of Experimental Biology, 225(6), jeb242906.

    @article{crawford2022they,
      title = {They like to move it (move it): walking kinematics of balitorid loaches of Thailand},
      author = {Crawford, Callie H and Webber-Schultz, Amani and Hart, Pamela B and Randall, Zachary S and Cerrato-Morales, Cristian and Kellogg, Audrey B and Amplo, Haley E and Suvarnaraksha, Apinun and Page, Lawrence M and Chakrabarty, Prosanta and others},
      year = {2022},
      journal = {Journal of Experimental Biology},
      publisher = {The Company of Biologists Ltd},
      volume = {225},
      number = {6},
      pages = {jeb242906}
    }
    

52. Cronin, E. M., Schneider, A. C., Nadim, F., & Bucher, D. (2024). Modulation by Neuropeptides with Overlapping Targets Results in Functional Overlap in Oscillatory Circuit Activation [Journal Article]. J Neurosci, 44(1). https://doi.org/10.1523/JNEUROSCI.1201-23.2023
    DOI ABSTRACT

    @article{RN4064,
      title = {Modulation by Neuropeptides with Overlapping Targets Results in Functional Overlap in Oscillatory Circuit Activation},
      author = {Cronin, E. M. and Schneider, A. C. and Nadim, F. and Bucher, D.},
      year = {2024},
      journal = {J Neurosci},
      publisher = {Society for Neuroscience},
      volume = {44},
      number = {1},
      doi = {10.1523/JNEUROSCI.1201-23.2023},
      issn = {1529-2401 (Electronic) 0270-6474 (Print) 0270-6474 (Linking)},
      url = {https://www.ncbi.nlm.nih.gov/pubmed/37968117},
      note = {Cronin, Elizabeth M Schneider, Anna C Nadim, Farzan Bucher, Dirk eng J Neurosci. 2024 Jan 3;44(1):e1201232023. doi: 10.1523/JNEUROSCI.1201-23.2023.},
      keywords = {Male Humans Animals \textasteriskcenteredNeuropeptides/metabolism Peptides/pharmacology Neurons/physiology Neurotransmitter Agents/pharmacology Signal Transduction \textasteriskcenteredBrachyura/physiology Ganglia, Invertebrate/physiology bursting neuron central pattern generator neuromodulation oscillation stomatogastric},
      type = {Journal Article}
    }
    

    Neuromodulation lends flexibility to neural circuit operation but the general notion that different neuromodulators sculpt neural circuit activity into distinct and characteristic patterns is complicated by interindividual variability. In addition, some neuromodulators converge onto the same signaling pathways, with similar effects on neurons and synapses. We compared the effects of three neuropeptides on the rhythmic pyloric circuit in the stomatogastric ganglion of male crabs, Cancer borealis Proctolin (PROC), crustacean cardioactive peptide (CCAP), and red pigment concentrating hormone (RPCH) activate the same modulatory inward current, I (MI), and have convergent actions on synapses. However, while PROC targets all four neuron types in the core pyloric circuit, CCAP and RPCH target the same subset of only two neurons. After removal of spontaneous neuromodulator release, none of the neuropeptides restored the control cycle frequency, but all restored the relative timing between neuron types. Consequently, differences between neuropeptide effects were mainly found in the spiking activity of different neuron types. We performed statistical comparisons using the Euclidean distance in the multidimensional space of normalized output attributes to obtain a single measure of difference between modulatory states. Across preparations, the circuit output in PROC was distinguishable from CCAP and RPCH, but CCAP and RPCH were not distinguishable from each other. However, we argue that even between PROC and the other two neuropeptides, population data overlapped enough to prevent reliable identification of individual output patterns as characteristic for a specific neuropeptide. We confirmed this notion by showing that blind classifications by machine learning algorithms were only moderately successful.Significance Statement It is commonly assumed that distinct behaviors or circuit activities can be elicited by different neuromodulators. Yet it is unknown to what extent these characteristic actions remain distinct across individuals. We use a well-studied circuit model of neuromodulation to examine the effects of three neuropeptides, each known to produce a distinct activity pattern in controlled studies. We find that, when compared across individuals, the three peptides elicit activity patterns that are either statistically indistinguishable or show too much overlap to be labeled characteristic. We ascribe this to interindividual variability and overlapping subcellular actions of the modulators. Because both factors are common in all neural circuits, these findings have broad significance for understanding chemical neuromodulatory actions while considering interindividual variability.

53. Cronin, E. M., Schneider, A. C., Nadim, F., & Bucher, D. (2023). Neuropeptides with different cellular targets elicit similar output in a central pattern generating circuit. Biorxiv: the Preprint Server for Biology.

    @article{cronin2023neuropeptides,
      title = {Neuropeptides with different cellular targets elicit similar output in a central pattern generating circuit.},
      author = {Cronin, Elizabeth M and Schneider, Anna C and Nadim, Farzan and Bucher, Dirk},
      year = {2023},
      journal = {Biorxiv: the Preprint Server for Biology}
    }
    

54. Cui, Y., Boctor, A., Dufficy, T., Saro-Cortes, V., Flammang, B., & Wissa, A. (2023). Designing a bioinspired flying fish tail. INTEGRATIVE AND COMPARATIVE BIOLOGY, 62, S68–S68.

    @inproceedings{cui2023designing,
      title = {Designing a bioinspired flying fish tail},
      author = {Cui, Y and Boctor, A and Dufficy, T and Saro-Cortes, V and Flammang, B and Wissa, A},
      year = {2023},
      booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
      volume = {62},
      pages = {S68--S68},
      organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
    }
    

55. Cui, Y., Saro-Cortes, V., Flammang, B., Wissa, A., & Yanez-Salas, J. (2023). A Flying Fish Robotic Model Organism: Designing a biologically relevant caudal fin. INTEGRATIVE AND COMPARATIVE BIOLOGY, 63, S99–S99.

    @inproceedings{cui2023flying,
      title = {A Flying Fish Robotic Model Organism: Designing a biologically relevant caudal fin},
      author = {Cui, Yuhe and Saro-Cortes, Valeria and Flammang, Brooke and Wissa, Aimy and Yanez-Salas, Jose},
      year = {2023},
      booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
      volume = {63},
      pages = {S99--S99},
      organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
    }
    

56. Daur, N., Nadim, F., & Bucher, D. (2021). Synaptic dynamics convey differential sensitivity to input pattern changes in two muscles innervated by the same motor neurons [Journal Article]. ENeuro, 8(6). https://doi.org/10.1523/ENEURO.0351-21.2021
    DOI ABSTRACT

    @article{RN3931,
      title = {Synaptic dynamics convey differential sensitivity to input pattern changes in two muscles innervated by the same motor neurons},
      author = {Daur, N. and Nadim, F. and Bucher, D.},
      year = {2021},
      journal = {eNeuro},
      publisher = {Society for Neuroscience},
      volume = {8},
      number = {6},
      doi = {10.1523/ENEURO.0351-21.2021},
      issn = {2373-2822 (Electronic) 2373-2822 (Linking)},
      url = {https://www.ncbi.nlm.nih.gov/pubmed/34764189 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8609967/pdf/ENEURO.0351-21.2021.pdf https://www.eneuro.org/content/eneuro/8/6/ENEURO.0351-21.2021.full.pdf},
      note = {Daur, Nelly Nadim, Farzan Bucher, Dirk eng eNeuro. 2021 Nov 10. pii: ENEURO.0351-21.2021. doi: 10.1523/ENEURO.0351-21.2021.},
      keywords = {bursting neuron depression facilitation frequency filtering short-term synaptic plasticity stomatogastric},
      type = {Journal Article}
    }
    

    Postsynaptic responses depend on input patterns as well as short-term synaptic plasticity, summation, and postsynaptic membrane properties, but the interactions of those dynamics with realistic input patterns are not well understood. We recorded the responses of the two pyloric dilator muscles, cpv2a and cpv2b, that are innervated by and receive identical periodic bursting input from the same two motor neurons in the lobster Homarus americanus Cpv2a and cpv2b showed quantitative differences in membrane nonlinearities and synaptic summation. At a short timescale, responses in both muscles were dominated by facilitation, albeit with different frequency- and time-dependence. Realistic burst stimulations revealed more substantial differences. Across bursts, cpv2a showed transient depression, whereas cpv2b showed transient facilitation. Steady-state responses to bursting input also differed substantially. Neither muscle had a monotonic dependence on frequency, but cpv2b showed particularly pronounced band-pass filtering. Cpv2a was sensitive to changes in both burst frequency and intra-burst spike frequency, whereas, despite its much slower responses, cpv2b was largely insensitive to changes in burst frequency. Cpv2a was sensitive to both burst duration and number of spikes per burst, whereas cpv2b was sensitive only to the former parameter. Neither muscle showed consistent sensitivity to changes in the overall spike interval structure, but cpv2b was surprisingly sensitive to changes in the first intervals in each burst, a parameter known to be regulated by dopamine modulation of spike propagation of the presynaptic axon. These findings highlight how seemingly minor circuit output changes mediated by neuromodulation could be read out differentially at the two synapses.Significance statementStudies of neural coding have focused mainly on patterns of activity, and less on how postsynaptic targets read out these inputs, which is dependent on short-term synaptic plasticity and postsynaptic membrane properties. We show that subthreshold postsynaptic responses at two crustacean neuromuscular junctions formed by the same motor neuron increase in strength with repeated activation. However, stimulation with more complex bursting patterns that mimicked different circuit states revealed very different sensitivities to specific pattern attributes. Consequently, pre- and postsynaptic dynamics enabled differential readout of input changes arising from circuit modulation. Such differential readout may play an important role in neural processing in general, as different pathways may pay attention to different information encoded in the same activity patterns.

57. DeVan, C., Bunker, D., Flemming, A., Konsolaki, M., Krohn, A., Shea, L., Sosiak, C., Waring, E., Bronson, C., Krumm, J. L., & Jordan, C. (2025). Morphology CURE: Exploring the Effects of Invasion on Plant Morphology. https://doi.org/doi:/10.25334/60MP-N775
    DOI ABSTRACT

    @article{QUBES3471,
      title = {Morphology CURE: Exploring the Effects of Invasion on Plant Morphology},
      author = {DeVan, Caroline and Bunker, Daniel and Flemming, Adania and Konsolaki, Mary and Krohn, Alex and Shea, Liz and Sosiak, Christine and Waring, Elizabeth and Bronson, Cecily and Krumm, Janice L. and Jordan, Carly},
      year = {2025},
      month = apr,
      doi = {doi:/10.25334/60MP-N775},
      url = {https://qubeshub.org/publications/3471/1}
    }
    

    This Course-based Undergraduate Research Experience (CURE) uses digitized natural history collections data to examine morphology of invasive plant species in their introduced and original ranges. This inclusive CURE requires only student access to a computer and the internet.

58. Deng, L., Denham, J., Arya, C., Yuval, O., Cohen, N., & Haspel, G. (2020). Inhibition underlies fast undulatory locomotion inC. elegans.

    @article{deng2020inhibition,
      title = {Inhibition underlies fast undulatory locomotion inC. elegans},
      author = {Deng, L and Denham, J and Arya, C and Yuval, O and Cohen, N and Haspel, G},
      year = {2020}
    }
    

59. Deng, L., Denham, J. E., Arya, C., Yuval, O., Cohen, N., & Haspel, G. (2021). Inhibition underlies fast undulatory locomotion in Caenorhabditis elegans. Eneuro, 8(2).

    @article{deng2021inhibition,
      title = {Inhibition underlies fast undulatory locomotion in Caenorhabditis elegans},
      author = {Deng, Lan and Denham, Jack E and Arya, Charu and Yuval, Omer and Cohen, Netta and Haspel, Gal},
      year = {2021},
      journal = {Eneuro},
      publisher = {Society for Neuroscience},
      volume = {8},
      number = {2}
    }
    

60. Edgar, A., Mitchell, D. G., & Martindale, M. Q. (2021). Whole-Body Regeneration in the Lobate Ctenophore Mnemiopsis leidyi. Genes, 12(6), 867. https://doi.org/10.3390/genes12060867
    DOI

    @article{Edgar_2021,
      title = {Whole-Body Regeneration in the Lobate Ctenophore Mnemiopsis leidyi},
      author = {Edgar, Allison and Mitchell, Dorothy G. and Martindale, Mark Q.},
      year = {2021},
      month = jun,
      journal = {Genes},
      publisher = {{MDPI} {AG}},
      volume = {12},
      number = {6},
      pages = {867},
      doi = {10.3390/genes12060867},
      url = {https://doi.org/10.3390%2Fgenes12060867}
    }
    

61. Edgar, A., Ponciano, J. M., & Martindale, M. Q. (2023). Reply to Soto-Angel et al.: Is “larva” a natural kind? Phylogenetic thinking provides clarity. Proceedings of the National Academy of Sciences, 120(4). https://doi.org/10.1073/pnas.2219704120
    DOI

    @article{Edgar_2023,
      title = {Reply to Soto-Angel et~al.: Is ``larva'' a natural kind? Phylogenetic thinking provides clarity},
      author = {Edgar, Allison and Ponciano, Jos\'{e} Miguel and Martindale, Mark Q.},
      year = {2023},
      month = jan,
      journal = {Proceedings of the National Academy of Sciences},
      publisher = {Proceedings of the National Academy of Sciences},
      volume = {120},
      number = {4},
      doi = {10.1073/pnas.2219704120},
      issn = {1091-6490},
      url = {http://dx.doi.org/10.1073/pnas.2219704120}
    }
    

62. Edgar, A., Ponciano, J. M., & Martindale, M. Q. (2022). Ctenophores are direct developers that reproduce continuously beginning very early after hatching. Proceedings of the National Academy of Sciences, 119(18). https://doi.org/10.1073/pnas.2122052119
    DOI

    @article{Edgar_2022,
      title = {Ctenophores are direct developers that reproduce continuously beginning very early after hatching},
      author = {Edgar, Allison and Ponciano, Jos\'{e} Miguel and Martindale, Mark Q.},
      year = {2022},
      month = apr,
      journal = {Proceedings of the National Academy of Sciences},
      publisher = {Proceedings of the National Academy of Sciences},
      volume = {119},
      number = {18},
      doi = {10.1073/pnas.2122052119},
      issn = {1091-6490},
      url = {http://dx.doi.org/10.1073/pnas.2122052119}
    }
    

63. Elie, J. E., Hoffmann, S., Dunning, J. L., Coleman, M. J., Fortune, E. S., & Prather, J. F. (2020). From perception to action: the role of auditory input in shaping vocal communication and social behaviors in birds. Brain Behavior and Evolution, 94(1-4), 51–60.

    @article{elie2020perception,
      title = {From perception to action: the role of auditory input in shaping vocal communication and social behaviors in birds},
      author = {Elie, Julie E and Hoffmann, Susanne and Dunning, Jeffery L and Coleman, Melissa J and Fortune, Eric S and Prather, Jonathan F},
      year = {2020},
      journal = {Brain Behavior and Evolution},
      publisher = {S. Karger AG},
      volume = {94},
      number = {1-4},
      pages = {51--60}
    }
    

64. Engel, M. S., Barden, P., Perrichot, V., LaPolla, J. S., & Wappler, T. (2025). Case 3858–Formiciinae Lutz, 1986 (Insecta, Hymenoptera): proposed conservation by replacement of the type species of Formicium Westwood, 1854. The Bulletin of Zoological Nomenclature, 82(1), 58–63.

    @article{engel2025case,
      title = {Case 3858--Formiciinae Lutz, 1986 (Insecta, Hymenoptera): proposed conservation by replacement of the type species of Formicium Westwood, 1854},
      author = {Engel, Michael S and Barden, Phillip and Perrichot, Vincent and LaPolla, John S and Wappler, Torsten},
      year = {2025},
      journal = {The Bulletin of Zoological Nomenclature},
      publisher = {BioOne},
      volume = {82},
      number = {1},
      pages = {58--63}
    }
    

65. Engel, M. S., Cerı́aco Luis MP, Daniel, G. M., Dellapé, P. M., Löbl, I., Marinov, M., Reis, R. E., Young, M. T., Dubois, A., Agarwal, I., & others. (2021). The taxonomic impediment: a shortage of taxonomists, not the lack of technical approaches. In Zoological Journal of the Linnean Society (Vol. 193, Issue 2, pp. 381–387). Oxford University Press UK.

    @misc{engel2021taxonomic,
      title = {The taxonomic impediment: a shortage of taxonomists, not the lack of technical approaches},
      author = {Engel, Michael S and Cer{\'\i}aco, Luis MP and Daniel, Gimo M and Dellap{\'e}, Pablo M and L{\"o}bl, Ivan and Marinov, Milen and Reis, Roberto E and Young, Mark T and Dubois, Alain and Agarwal, Ishan and others},
      year = {2021},
      journal = {Zoological Journal of the Linnean Society},
      publisher = {Oxford University Press UK},
      volume = {193},
      number = {2},
      pages = {381--387}
    }
    

66. Engel, M. S., Herhold, H. W., & Barden, P. (2022). A proctotrupid wasp in Lebanese Lower Cretaceous amber (Hymenoptera: Proctotrupidae). Palaeoentomology, 5(5), 439–444.

    @article{engel2022proctotrupid,
      title = {A proctotrupid wasp in Lebanese Lower Cretaceous amber (Hymenoptera: Proctotrupidae)},
      author = {Engel, Michael S and Herhold, Hollister W and Barden, Phillip},
      year = {2022},
      journal = {Palaeoentomology},
      publisher = {Magnolia Press},
      volume = {5},
      number = {5},
      pages = {439--444}
    }
    

67. Ennis, C. C., Haeffner, N. N., Keyser, C. D., Leonard, S. T., Macdonald-Shedd, A. C., Savoie, A. M., Cronin, T. J., Veldsman, W. P., Barden, P., Chak, S. T. C., & others. (2021). Comparative mitochondrial genomics of sponge-dwelling snapping shrimps in the genus Synalpheus: exploring differences between eusocial and non-eusocial species and insights into phylogenetic relationships in caridean shrimps. Gene, 786, 145624.

    @article{ennis2021comparative,
      title = {Comparative mitochondrial genomics of sponge-dwelling snapping shrimps in the genus Synalpheus: exploring differences between eusocial and non-eusocial species and insights into phylogenetic relationships in caridean shrimps},
      author = {Ennis, Caroline C and Haeffner, Nariah N and Keyser, Cameron D and Leonard, Shannon T and Macdonald-Shedd, Austin C and Savoie, Avery M and Cronin, Timothy J and Veldsman, Werner P and Barden, Phillip and Chak, Solomon TC and others},
      year = {2021},
      journal = {Gene},
      publisher = {Elsevier},
      volume = {786},
      pages = {145624}
    }
    

68. Eno, C., & Flammang, B. (2024). Parasitic Drag of Remora Species on a Range of Hosts. American Geophysical Union, Ocean Sciences Meeting, 1693, PI24B–1693.

    @inproceedings{eno2024parasitic,
      title = {Parasitic Drag of Remora Species on a Range of Hosts},
      author = {Eno, Catherine and Flammang, Brooke},
      year = {2024},
      booktitle = {American Geophysical Union, Ocean Sciences Meeting},
      number = {1693},
      pages = {PI24B--1693}
    }
    

69. Eno, C., Murphy, C., Flammang, B., Kellogg, A.-drey, & Damon, M. (2024). Enhancing 3D Models with RIPPLE: Overcoming Overlap Constraints for Accurate 3D Reconstruction. INTEGRATIVE AND COMPARATIVE BIOLOGY, 64, S146–S147.

    @inproceedings{eno2024enhancing,
      title = {Enhancing 3D Models with RIPPLE: Overcoming Overlap Constraints for Accurate 3D Reconstruction},
      author = {Eno, Catherine and Murphy, Christin and Flammang, Brooke and Kellogg, Au-drey and Damon, Mackenzie},
      year = {2024},
      booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
      volume = {64},
      pages = {S146--S147},
      organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
    }
    

70. Enos, J. K., Hyland Bruno, J., & Hauber, M. E. (2020). Aggressive responses of Eastern Phoebes ( Sayornis phoebe ) and American Robins ( Turdus migratorius ) toward brood parasites and nest predators: A model presentation experiment. The Wilson Journal of Ornithology, 132(2), 428–435. https://doi.org/10.1676/1559-4491-132.2.428
    DOI

    @article{Enos_2020,
      title = {Aggressive responses of Eastern Phoebes ( Sayornis phoebe ) and American Robins ( Turdus migratorius ) toward brood parasites and nest predators: A model presentation experiment},
      author = {Enos, Janice K. and Hyland Bruno, Julia and Hauber, Mark E.},
      year = {2020},
      journal = {The Wilson Journal of Ornithology},
      publisher = {Informa UK Limited},
      volume = {132},
      number = {2},
      pages = {428–435},
      doi = {10.1676/1559-4491-132.2.428}
    }
    

71. Fahoum, S.-R. H., Nadim, F., & Blitz, D. M. (2024). Electrical Synapse Rectification Enables Dual-Network Activity in the crab Cancer borealis. BioRxiv, 2024–2008.

    @article{fahoum2024electrical,
      title = {Electrical Synapse Rectification Enables Dual-Network Activity in the crab Cancer borealis},
      author = {Fahoum, Savanna-Rae H and Nadim, Farzan and Blitz, Dawn M},
      year = {2024},
      journal = {bioRxiv},
      publisher = {Cold Spring Harbor Laboratory},
      pages = {2024--08}
    }
    

72. Fan, X., Wang, C., & Bunker, D. E. (2022). Population structure of German cockroaches (Blattodea: Ectobiidae) in an urban environment based on single nucleotide polymorphisms. Journal of Medical Entomology, 59(4), 1319–1327.

    @article{fan2022population,
      title = {Population structure of German cockroaches (Blattodea: Ectobiidae) in an urban environment based on single nucleotide polymorphisms},
      author = {Fan, X and Wang, C and Bunker, DE},
      year = {2022},
      journal = {Journal of medical entomology},
      publisher = {Oxford University Press US},
      volume = {59},
      number = {4},
      pages = {1319--1327}
    }
    

73. Fan, X., Ma, R., Yue, C., Liu, J., Yue, B., Yang, W., Li, Y., Gu, J., Ayala, J. E., Bunker, D. E., & others. (2023). A snapshot of climate drivers and temporal variation of Ixodes ovatus abundance from a giant panda living in the wild. International Journal for Parasitology: Parasites and Wildlife, 20, 162–169.

    @article{fan2023snapshot,
      title = {A snapshot of climate drivers and temporal variation of Ixodes ovatus abundance from a giant panda living in the wild},
      author = {Fan, Xueyang and Ma, Rui and Yue, Changjuan and Liu, Jiabin and Yue, Bisong and Yang, Wanjing and Li, Yunli and Gu, Jiang and Ayala, James E and Bunker, Daniel E and others},
      year = {2023},
      journal = {International Journal for Parasitology: Parasites and Wildlife},
      publisher = {Elsevier},
      volume = {20},
      pages = {162--169}
    }
    

74. Fan, X., Ma, R., Yue, C., Liu, J., Yue, B., Yang, Z., Yang, W., Li, Y., Gu, J., Yan, X., & others. (2022). Climate drivers and temporal variation of Ixode ovatus abundance on a giant panda living in the wild.

    @article{fan2022climate,
      title = {Climate drivers and temporal variation of Ixode ovatus abundance on a giant panda living in the wild},
      author = {Fan, Xueyang and Ma, Rui and Yue, Changjuan and Liu, Jiabin and Yue, Bisong and Yang, Zhisong and Yang, Wanjing and Li, Yunli and Gu, Jiang and Yan, Xia and others},
      year = {2022}
    }
    

75. Fiorentino, G., Bouju, V., Sosa, D., Navarro, S., & Barden, P. (2026). The ant genus Hypoponera (Hymenoptera: Formicidae) in Dominican amber. Journal of Paleontology, 1–5. https://doi.org/10.1017/jpa.2025.10213
    DOI ABSTRACT

    @article{Fiorentino2026,
      title = {The ant genus Hypoponera (Hymenoptera: Formicidae) in Dominican amber},
      author = {Fiorentino, Gianpiero and Bouju, Valentine and Sosa, Diyael and Navarro, Santo and Barden, Phillip},
      year = {2026},
      journal = {Journal of Paleontology},
      pages = {1–5},
      doi = {10.1017/jpa.2025.10213}
    }
    

    Hypoponera Santschi, 1938 is a genus of ponerine ants, well known for its simplified morphology, lacking any clear autopomorphy, and its cosmopolitan distribution. Here, we describe the first Hypoponera in Dominican amber. The discovery of Hypoponera electrocacica new species confirms the long-expected presence of the genus in the Caribbean Miocene. The modern diversity of Hypoponera in the Greater Antilles now stands at five species and two putative subspecies.

76. Fiorentino, G., Lattke, J., Troya, A., Sosiak, C., Dong, M., & Barden, P. (2023). Deep time extinction of largest insular ant predators and the first fossil Neoponera (Formicidae: Ponerinae) from Miocene age Dominican amber. BMC Biology, 21(1), 26.

    @article{fiorentino2023deep,
      title = {Deep time extinction of largest insular ant predators and the first fossil Neoponera (Formicidae: Ponerinae) from Miocene age Dominican amber},
      author = {Fiorentino, Gianpiero and Lattke, John and Troya, Adrian and Sosiak, Christine and Dong, Minsoo and Barden, Phillip},
      year = {2023},
      journal = {BMC biology},
      publisher = {BioMed Central London},
      volume = {21},
      number = {1},
      pages = {26}
    }
    

77. Fiorentino, G., Probst, R., Richter, A., Economo, E. P., & Barden, P. (2025). A fossil-informed pattern of body size increase and local extinction in Basiceros dirt ants (Hymenoptera: Formicidae). Proceedings B, 292(2045), 20242171.

    @article{fiorentino2025fossil,
      title = {A fossil-informed pattern of body size increase and local extinction in Basiceros dirt ants (Hymenoptera: Formicidae)},
      author = {Fiorentino, Gianpiero and Probst, Rodolfo and Richter, Adrian and Economo, Evan P and Barden, Phillip},
      year = {2025},
      journal = {Proceedings B},
      publisher = {The Royal Society},
      volume = {292},
      number = {2045},
      pages = {20242171}
    }
    

78. Fiorentino, G., Sánchez, A., Barden, P., & others. (2025). A new species of Crematogaster (Hymenoptera: Formicidae: Myrmicinae) with contrasting coloration unique to the Caribbean. Novitates Caribaea, 26, 1–10. https://doi.org/10.33800/nc.vi26.374
    DOI ABSTRACT

    @article{fiorentino2025new,
      title = {A new species of Crematogaster (Hymenoptera: Formicidae: Myrmicinae) with contrasting coloration unique to the Caribbean},
      author = {Fiorentino, Gianpiero and S\'{a}nchez, Am{\'e}rica and Barden, Phillip and others},
      year = {2025},
      journal = {Novitates Caribaea},
      number = {26},
      pages = {1--10},
      doi = {10.33800/nc.vi26.374}
    }
    

    The cosmopolitan ant genus Crematogaster is a conspicuous lineage of myrmicine ants. Here, we describe a new species from Hispaniola, Crematogaster dorada sp. nov. C. dorada is readily diagnosable from other Caribbean ants through mesosomal thoracic sculpturing and a unique color pattern; its taxonomic affinities are consistent with other members of the Neocrema clade in the Orthocrema group, a lineage with no previous record in the Caribbean. The current diversity of Greater Antilles Crematogaster now stands at 10 species and three putative subspecies. Expanded sampling will likely yield additional species as much of the Caribbean fauna has been unrevised since the early 20th century.
    
    El género Crematogaster es un linaje conspicuo de hormigas mirmicinas distribuidas globalmente. Aquı́, describimos una nueva especie para la isla Hispaniola, Crematogaster dorada sp. nov. C. dorada se diferencia fácilmente de otras hormigas del Caribe por la escultura torácica del mesosoma y un patrón de color único; sus afinidades taxonómicas son consistentes con miembros del clado Neocrema, un linaje sin registro previo en el Caribe. La diversidad actual de Crematogaster en las Antillas Mayores asciende a 10 especies y tres subespecies putativas. Es probable que un muestreo expandido revele especies adicionales, dado que gran parte de la fauna del Caribe no ha sido revisada desde principios del siglo XX.

79. Flammang, B. E. (2023). Bioinspired Design Research: Evolution as BetaTesting. INTEGRATIVE AND COMPARATIVE BIOLOGY, 62, S95–S95.

    @inproceedings{flammang2023bioinspired,
      title = {Bioinspired Design Research: Evolution as BetaTesting},
      author = {Flammang, BE},
      year = {2023},
      booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
      volume = {62},
      pages = {S95--S95},
      organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
    }
    

80. Flammang, B. E., Marras, S., Anderson, E. J., Lehmkuhl, O., Mukherjee, A., Cade, D. E., Beckert, M., Nadler, J. H., Houzeaux, G., Vázquez, M., & others. (2021). Remoras pick where they stick on blue whales. INTEGRATIVE AND COMPARATIVE BIOLOGY, 61, E261–E261.

    @inproceedings{flammang2021remoras,
      title = {Remoras pick where they stick on blue whales},
      author = {Flammang, BE and Marras, S and Anderson, EJ and Lehmkuhl, O and Mukherjee, A and Cade, DE and Beckert, M and Nadler, JH and Houzeaux, G and V{\'a}zquez, M and others},
      year = {2021},
      booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
      volume = {61},
      pages = {E261--E261},
      organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
    }
    

81. Flammang, B. (2024). Flying Fish: swimming, gliding, and aerial-aquatic transitions. American Geophysical Union, Ocean Sciences Meeting, PI12A–06.

    @inproceedings{flammang2024flying,
      title = {Flying Fish: swimming, gliding, and aerial-aquatic transitions},
      author = {Flammang, Brooke},
      year = {2024},
      booktitle = {American Geophysical Union, Ocean Sciences Meeting},
      pages = {PI12A--06}
    }
    

82. Flammang, B. (2024). BioDesign: Bioinspired Sensor Attachment for Advancing Long-Term Telemetry of Critically Endangered Marine Organisms. NSF Award Number 2350158. Directorate for Biological Sciences, 23(2350158), 50158.

    @article{flammang2024biodesign,
      title = {BioDesign: Bioinspired Sensor Attachment for Advancing Long-Term Telemetry of Critically Endangered Marine Organisms},
      author = {Flammang, Brooke},
      year = {2024},
      journal = {NSF Award Number 2350158. Directorate for Biological Sciences},
      volume = {23},
      number = {2350158},
      pages = {50158}
    }
    

83. Flammang, B., Gamel, K., & Garner, A. (2020). Using robotics and physics to understand the evolution of novel functional morphologies. Bulletin of the American Physical Society, 65.

    @article{flammang2020using,
      title = {Using robotics and physics to understand the evolution of novel functional morphologies},
      author = {Flammang, Brooke and Gamel, Kaelyn and Garner, Austin},
      year = {2020},
      journal = {Bulletin of the American Physical Society},
      publisher = {American Physical Society},
      volume = {65}
    }
    

84. Flammang, B. E. (2024). Hitching a ride (Remoras). In Encyclopedia of Fish Physiology (pp. 512–518). Elsevier.

    @incollection{flammang2024hitching,
      title = {Hitching a ride (Remoras)},
      author = {Flammang, Brooke E},
      year = {2024},
      booktitle = {Encyclopedia of Fish Physiology},
      publisher = {Elsevier},
      pages = {512--518}
    }
    

85. Flammang, B. E. (2022). Bioinspired design in research: Evolution as beta-testing. Integrative and Comparative Biology, 62(5), 1164–1173.

    @article{flammang2022bioinspired,
      title = {Bioinspired design in research: Evolution as beta-testing},
      author = {Flammang, Brooke E},
      year = {2022},
      journal = {Integrative and comparative biology},
      publisher = {Oxford University Press},
      volume = {62},
      number = {5},
      pages = {1164--1173}
    }
    

86. Flammang, B. E., Marras, S., Anderson, E. J., Lehmkuhl, O., Mukherjee, A., Cade, D. E., Beckert, M., Nadler, J. H., Houzeaux, G., Vázquez, M., & others. (2020). Remoras pick where they stick on blue whales. Journal of Experimental Biology, 223(20), jeb226654.

    @article{flammang2020remoras,
      title = {Remoras pick where they stick on blue whales},
      author = {Flammang, Brooke E and Marras, Simone and Anderson, Erik J and Lehmkuhl, Oriol and Mukherjee, Abhishek and Cade, David E and Beckert, Michael and Nadler, Jason H and Houzeaux, Guillaume and V{\'a}zquez, Mariano and others},
      year = {2020},
      journal = {Journal of Experimental Biology},
      publisher = {The Company of Biologists Ltd},
      volume = {223},
      number = {20},
      pages = {jeb226654}
    }
    

87. Fortune, E. S., Andanar, N., Madhav, M., Jayakumar, R. P., Cowan, N. J., Bichuette, M. E., & Soares, D. (2020). Spooky interaction at a distance in cave and surface dwelling electric fishes. Frontiers in Integrative Neuroscience, 14, 561524.

    @article{fortune2020spooky,
      title = {Spooky interaction at a distance in cave and surface dwelling electric fishes},
      author = {Fortune, Eric S and Andanar, Nicole and Madhav, Manu and Jayakumar, Ravikrishnan P and Cowan, Noah J and Bichuette, Maria Elina and Soares, Daphne},
      year = {2020},
      journal = {Frontiers in Integrative Neuroscience},
      publisher = {Frontiers Media SA},
      volume = {14},
      pages = {561524}
    }
    

88. Fox, D. M., Rotstein, H. G., & Nadim, F. (2022). Bursting in neurons and small networks. In Encyclopedia of computational neuroscience (pp. 582–596). Springer New York New York, NY.

    @incollection{fox2022bursting,
      title = {Bursting in neurons and small networks},
      author = {Fox, David M and Rotstein, Horacio G and Nadim, Farzan},
      year = {2022},
      booktitle = {Encyclopedia of computational neuroscience},
      publisher = {Springer New York New York, NY},
      pages = {582--596}
    }
    

89. Fu, P., Hu, L., Ainsworth, E. A., Tai, X., Myint, S. W., Zhan, W., Blakely, B. J., & Bernacchi, C. J. (2021). Enhanced drought resistance of vegetation growth in cities due to urban heat, CO2 domes and O3 troughs [Journal Article]. Environmental Research Letters, 16(12), 124052.

    @article{RN769,
      title = {Enhanced drought resistance of vegetation growth in cities due to urban heat, CO2 domes and O3 troughs},
      author = {Fu, Peng and Hu, Leiqiu and Ainsworth, Elizabeth A and Tai, Xiaonan and Myint, Soe W and Zhan, Wenfeng and Blakely, Bethany J and Bernacchi, Carl J},
      year = {2021},
      journal = {Environmental Research Letters},
      volume = {16},
      number = {12},
      pages = {124052},
      issn = {1748-9326},
      type = {Journal Article}
    }
    

90. Gallman, K., Fortune, E., Rivera, D., & Soares, D. (2020). Differences in behavior between surface and cave Astyanax mexicanus may be mediated by changes in catecholamine signaling. Journal of Comparative Neurology, 528(16), 2639–2653.

    @article{gallman2020differences,
      title = {Differences in behavior between surface and cave Astyanax mexicanus may be mediated by changes in catecholamine signaling},
      author = {Gallman, Kathryn and Fortune, Eric and Rivera, Daihana and Soares, Daphne},
      year = {2020},
      journal = {Journal of Comparative Neurology},
      publisher = {John Wiley \& Sons, Inc. Hoboken, USA},
      volume = {528},
      number = {16},
      pages = {2639--2653}
    }
    

91. Gamel, K., Astley, H., & Flammang, B. (2024). Fish out of Water: Kinetics of Amphibious Transition. INTEGRATIVE AND COMPARATIVE BIOLOGY, 64, S176–S176.

    @inproceedings{gamel2024fish,
      title = {Fish out of Water: Kinetics of Amphibious Transition},
      author = {Gamel, Kaelyn and Astley, Henry and Flammang, Brooke},
      year = {2024},
      booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
      volume = {64},
      pages = {S176--S176},
      organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
    }
    

92. Garnier, S., & Moussaı̈d Mehdi. (2022). We the swarm–Methodological, theoretical, and societal (r)evolutions in collective decision-making research. Collective Intelligence, 1(2), 26339137221133400. https://doi.org/10.1177/26339137221133400
    DOI ABSTRACT

    @article{Garnier2022zl,
      title = {We the swarm--Methodological, theoretical, and societal (r)evolutions in collective decision-making research},
      author = {Garnier, Simon and Moussa\"{\i}d, Mehdi},
      year = {2022},
      month = {1~oct},
      journal = {Collective Intelligence},
      publisher = {SAGE Publications},
      volume = {1},
      number = {2},
      pages = {26339137221133400},
      doi = {10.1177/26339137221133400},
      issn = {2633-9137},
      url = {https://doi.org/10.1177/26339137221133400},
      file = {All Papers/2022/Garnier and Moussaïd 2022 - We the swarm—Methodological, theoretical, and societal (r)evolutions in collective decision-making research.pdf}
    }
    

    Collective decision-making constitutes a core function of social systems and is, therefore, a central tenet of collective intelligence research. From fish schools to human crowds, we start by interrogating ourselves about the very definition of collective decision-making and the scope of the scientific research that falls under it. We then summarize its history through the lenses of social choice theory and swarm intelligence and their accelerating collaboration over the past 20 or so years. Finally, we offer our perspective on the future of collective decision-making research in 3 mutually inclusive directions. We argue (1) that the possibility to collect data of a new nature, including fine-grain tracking information, virtual reality, and brain imaging inputs, will enable a direct link between plastic individual cognitive processes and the ontogeny of collective behaviors; (2) that current theoretical frameworks are not well suited to describe the long-term consequences of individual plasticity on collective decision-making processes and that, therefore, new formalisms are necessary; and finally (3) that applying the results of collective decision-making research to real-world situations will require the development of practical tools, the implementation of monitoring processes that respect civil liberties, and, possibly, government regulations of social interventions by public and private actors.

93. Gassler, T. R., & Flammang, B. E. (2020). Animated" Foot" Control During Walking in Skates. INTEGRATIVE AND COMPARATIVE BIOLOGY, 60, E80–E80.

    @inproceedings{gassler2020animated,
      title = {Animated" Foot" Control During Walking in Skates},
      author = {Gassler, TR and Flammang, BE},
      year = {2020},
      booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
      volume = {60},
      pages = {E80--E80},
      organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
    }
    

94. Gerkema, J., Bunker, D. E., Cunliffe, A. M., Bazzato, E., Marignani, M., Sitzia, T., Aubin, I., Chelli, S., Rosell, J. A., Poschlod, P., & others. (2025). Robustness and limitations of maximum entropy in plant community assembly. Ecological Informatics, 86, 103031.

    @article{gerkema2025robustness,
      title = {Robustness and limitations of maximum entropy in plant community assembly},
      author = {Gerkema, Jelyn and Bunker, Daniel E and Cunliffe, Andrew M and Bazzato, Erika and Marignani, Michela and Sitzia, Tommaso and Aubin, Isabelle and Chelli, Stefano and Rosell, Julieta A and Poschlod, Peter and others},
      year = {2025},
      journal = {Ecological Informatics},
      publisher = {Elsevier},
      volume = {86},
      pages = {103031}
    }
    

95. Gershman, S., Harreguy, M. B., Yatom, S., Raitses, Y., Efthimion, P., & Haspel, G. (2021). A low power flexible dielectric barrier discharge disinfects surfaces and improves the action of hydrogen peroxide. Scientific Reports, 11(1), 4626.

    @article{gershman2021low,
      title = {A low power flexible dielectric barrier discharge disinfects surfaces and improves the action of hydrogen peroxide},
      author = {Gershman, Sophia and Harreguy, Maria B and Yatom, Shurik and Raitses, Yevgeny and Efthimion, Phillip and Haspel, Gal},
      year = {2021},
      journal = {Scientific reports},
      publisher = {Nature Publishing Group UK London},
      volume = {11},
      number = {1},
      pages = {4626}
    }
    

96. Ghobreal, B., Nadim, F., & Sahin, M. (2022). Selective neural stimulation by leveraging electrophysiological differentiation and using pre-pulsing and non-rectangular waveforms. Journal of Computational Neuroscience, 50(3), 313–330.

    @article{ghobreal2022selective,
      title = {Selective neural stimulation by leveraging electrophysiological differentiation and using pre-pulsing and non-rectangular waveforms},
      author = {Ghobreal, Bemin and Nadim, Farzan and Sahin, Mesut},
      year = {2022},
      journal = {Journal of Computational Neuroscience},
      publisher = {Springer US New York},
      volume = {50},
      number = {3},
      pages = {313--330}
    }
    

97. Golowasch, J., & Nadim, F. (2022). Capacitance, membrane. In Encyclopedia of computational neuroscience (pp. 673–677). Springer New York New York, NY.

    @incollection{golowasch2022capacitance,
      title = {Capacitance, membrane},
      author = {Golowasch, Jorge and Nadim, Farzan},
      year = {2022},
      booktitle = {Encyclopedia of computational neuroscience},
      publisher = {Springer New York New York, NY},
      pages = {673--677}
    }
    

98. Gordon, R. L., Ravignani, A., Hyland Bruno, J., Robinson, C. M., Scartozzi, A., Embalabala, R., Niarchou, M., Cox, N. J., & Creanza, N. (2021). Linking the genomic signatures of human beat synchronization and learned song in birds. Philosophical Transactions of the Royal Society B: Biological Sciences, 376(1835), 20200329. https://doi.org/10.1098/rstb.2020.0329
    DOI

    @article{Gordon_2021,
      title = {Linking the genomic signatures of human beat synchronization and learned song in birds},
      author = {Gordon, Reyna L. and Ravignani, Andrea and Hyland Bruno, Julia and Robinson, Cristina M. and Scartozzi, Alyssa and Embalabala, Rebecca and Niarchou, Maria and Cox, Nancy J. and Creanza, Nicole},
      year = {2021},
      journal = {Philosophical Transactions of the Royal Society B: Biological Sciences},
      publisher = {The Royal Society},
      volume = {376},
      number = {1835},
      pages = {20200329},
      doi = {10.1098/rstb.2020.0329}
    }
    

99. Gorur–Shandilya, S., Cronin, E. M., Schneider, A. C., Haddad, S. A., Rosenbaum, P., Bucher, D., Nadim, F., & Marder, E. (2022). Mapping circuit dynamics during function and dysfunction [Journal Article]. ELIFE, 11, e76579. https://doi.org/10.7554/eLife.76579
    DOI ABSTRACT

    @article{gorur2022mapping,
      title = {Mapping circuit dynamics during function and dysfunction},
      author = {Gorur--Shandilya, Srinivas and Cronin, Elizabeth M and Schneider, Anna C and Haddad, Sara Ann and Rosenbaum, Philipp and Bucher, Dirk and Nadim, Farzan and Marder, Eve},
      year = {2022},
      journal = {ELIFE},
      publisher = {eLIFE SCIENCES PUBL LTD SHERATON HOUSE, CASTLE PARK, CAMBRIDGE, CB3 0AX, ENGLAND},
      volume = {11},
      pages = {e76579},
      doi = {10.7554/eLife.76579},
      issn = {2050-084X (Electronic) 2050-084X (Linking)},
      url = {https://www.ncbi.nlm.nih.gov/pubmed/35302489 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9000962/pdf/elife-76579.pdf},
      note = {Gorur-Shandilya, Srinivas Cronin, Elizabeth M Schneider, Anna C Haddad, Sara A Rosenbaum, Philipp Bucher, Dirk M Nadim, Farzan Marder, Eve eng T32 NS007292/NH/NIH HHS/ R35 NS097343/NH/NIH HHS/ MH060605/NH/NIH HHS/ DFG SCHN 1594/1-1/Deutsche Forschungsgemeinschaft England Elife. 2022 Mar 18;11. pii: 76579. doi: 10.7554/eLife.76579.},
      keywords = {computational biology neuroscience systems biology exist.},
      type = {Journal Article}
    }
    

    Neural circuits can generate many spike patterns, but only some are functional. The study of how circuits generate and maintain functional dynamics is hindered by a poverty of description of circuit dynamics across functional and dysfunctional states. For example, although the regular oscillation of a central pattern generator is well characterized by its frequency and the phase relationships between its neurons, these metrics are ineffective descriptors of the irregular and aperiodic dynamics that circuits can generate under perturbation or in disease states. By recording the circuit dynamics of the well-studied pyloric circuit in Cancer borealis, we used statistical features of spike times from neurons in the circuit to visualize the spike patterns generated by this circuit under a variety of conditions. This approach captures both the variability of functional rhythms and the diversity of atypical dynamics in a single map. Clusters in the map identify qualitatively different spike patterns hinting at different dynamical states in the circuit. State probability and the statistics of the transitions between states varied with environmental perturbations, removal of descending neuromodulatory inputs, and the addition of exogenous neuromodulators. This analysis reveals strong mechanistically interpretable links between complex changes in the collective behavior of a neural circuit and specific experimental manipulations, and can constrain hypotheses of how circuits generate functional dynamics despite variability in circuit architecture and environmental perturbations.

100. Gumuskaya, G., Srivastava, P., Cooper, B. G., Lesser, H., Semegran, B., Garnier, S., & Levin, M. (2023). Motile Living Biobots Self-Construct from Adult Human Somatic Progenitor Seed Cells. Advancement of Science, 11(4), e2303575. https://doi.org/10.1002/advs.202303575
     DOI ABSTRACT

     @article{Gumuskaya2023dk,
       title = {Motile Living Biobots Self-Construct from Adult Human Somatic Progenitor Seed Cells},
       author = {Gumuskaya, Gizem and Srivastava, Pranjal and Cooper, Ben G and Lesser, Hannah and Semegran, Ben and Garnier, Simon and Levin, Michael},
       year = {2023},
       month = {22~feb},
       journal = {Advancement of science},
       publisher = {John Wiley \& Sons, Ltd},
       volume = {11},
       number = {4},
       pages = {e2303575},
       doi = {10.1002/advs.202303575},
       issn = {0001-866X},
       url = {http://dx.doi.org/10.1002/advs.202303575},
       affiliation = {Allen Discovery Center at Tufts University, and Department of Biology, Tufts University, Medford, MA, 02155, USA. Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA, 02115, USA. Federated Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ, 07102, USA.},
       file = {All Papers/2023/Gumuskaya et al. 2023 - Motile Living Biobots Self-Construct from Adult Human Somatic Progenitor Seed Cells.pdf;All Papers/2023/Gumuskaya et al. 2023 - Motile Living Biobots Self-Construct from Adult Human Somatic Progenitor Seed Cells.pdf},
       keywords = {biobot; bioengineering; emergence; morphogenesis; repair; self-assembly},
       pmc = {PMC10811512},
       pmid = {38032125},
       language = {en}
     }
     

     Fundamental knowledge gaps exist about the plasticity of cells from adult soma and the potential diversity of body shape and behavior in living constructs derived from genetically wild-type cells. Here anthrobots are introduced, a spheroid-shaped multicellular biological robot (biobot) platform with diameters ranging from 30 to 500 microns and cilia-powered locomotive abilities. Each Anthrobot begins as a single cell, derived from the adult human lung, and self-constructs into a multicellular motile biobot after being cultured in extra cellular matrix for 2 weeks and transferred into a minimally viscous habitat. Anthrobots exhibit diverse behaviors with motility patterns ranging from tight loops to straight lines and speeds ranging from 5-50 microns s-1 . The anatomical investigations reveal that this behavioral diversity is significantly correlated with their morphological diversity. Anthrobots can assume morphologies with fully polarized or wholly ciliated bodies and spherical or ellipsoidal shapes, each related to a distinct movement type. Anthrobots are found to be capable of traversing, and inducing rapid repair of scratches in, cultured human neural cell sheets in vitro. By controlling microenvironmental cues in bulk, novel structures, with new and unexpected behavior and biomedically-relevant capabilities, can be discovered in morphogenetic processes without direct genetic editing or manual sculpting.

101. Harb, S., Sawicki, G., Amplo, H. E., & Flammang, B. E. (2021). Comparing the pectoral girdle and fin morphology in frogfishes. INTEGRATIVE AND COMPARATIVE BIOLOGY, 61, E1139–E1139.

     @inproceedings{harb2021comparing,
       title = {Comparing the pectoral girdle and fin morphology in frogfishes},
       author = {Harb, S and Sawicki, G and Amplo, HE and Flammang, BE},
       year = {2021},
       booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
       volume = {61},
       pages = {E1139--E1139},
       organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
     }
     

102. Harreguy, M. B., Marfil, V., Grooms, N. W. F., Gabel, C. V., Chung, S. H., & Haspel, G. (2020). Ytterbium-doped fibre femtosecond laser offers robust operation with deep and precise microsurgery of C. elegans neurons. Scientific Reports, 10(1), 4545.

     @article{harreguy2020ytterbium,
       title = {Ytterbium-doped fibre femtosecond laser offers robust operation with deep and precise microsurgery of C. elegans neurons},
       author = {Harreguy, MB and Marfil, V and Grooms, NWF and Gabel, CV and Chung, SH and Haspel, G},
       year = {2020},
       journal = {Scientific reports},
       publisher = {Nature Publishing Group UK London},
       volume = {10},
       number = {1},
       pages = {4545}
     }
     

103. Harreguy, M. B., Tanvir, Z., Shah, E., Simprevil, B., Tran, T. S., & Haspel, G. (2022). Semaphorin signaling restricts neuronal regeneration in C. elegans. Frontiers in Cell and Developmental Biology, 10, 814160.

     @article{harreguy2022semaphorin,
       title = {Semaphorin signaling restricts neuronal regeneration in C. elegans},
       author = {Harreguy, Maria B and Tanvir, Zainab and Shah, Esha and Simprevil, Blandine and Tran, Tracy S and Haspel, Gal},
       year = {2022},
       journal = {Frontiers in Cell and Developmental Biology},
       publisher = {Frontiers Media SA},
       volume = {10},
       pages = {814160}
     }
     

104. Harreguy, M. B., Tran, T. S., & Haspel, G. (2022). Neuronal microsurgery with an Yb-doped fiber femtosecond laser. In C. elegans: Methods and Applications (pp. 319–328). Springer US New York, NY.

     @incollection{harreguy2022neuronal,
       title = {Neuronal microsurgery with an Yb-doped fiber femtosecond laser},
       author = {Harreguy, Maria B and Tran, Tracy S and Haspel, Gal},
       year = {2022},
       booktitle = {C. elegans: Methods and Applications},
       publisher = {Springer US New York, NY},
       pages = {319--328}
     }
     

105. Haspel, G., Baker, B., Beets, I., Boyden, E. S., Brown, J., Church, G., Cohen, N., Colon-Ramos, D., Dyer, E., Fang-Yen, C., & others. (2023). The time is ripe to reverse engineer an entire nervous system: simulating behavior from neural interactions. ArXiv Preprint ArXiv:2308.06578.

     @article{haspel2023time,
       title = {The time is ripe to reverse engineer an entire nervous system: simulating behavior from neural interactions},
       author = {Haspel, Gal and Baker, Ben and Beets, Isabel and Boyden, Edward S and Brown, Jeffrey and Church, George and Cohen, Netta and Colon-Ramos, Daniel and Dyer, Eva and Fang-Yen, Christopher and others},
       year = {2023},
       journal = {arXiv preprint arXiv:2308.06578}
     }
     

106. Haspel, G., Boyden, E. S., Brown, J., Church, G., Cohen, N., Fang-Yen, C., Flavell, S., Goodman, M. B., Hart, A. C., Hobert, O., & others. (2023). To reverse engineer an entire nervous system. ArXiv Preprint ArXiv:2308.06578.

     @article{haspel2023reverse,
       title = {To reverse engineer an entire nervous system},
       author = {Haspel, Gal and Boyden, Edward S and Brown, Jeffrey and Church, George and Cohen, Netta and Fang-Yen, Christopher and Flavell, Steven and Goodman, Miriam B and Hart, Anne C and Hobert, Oliver and others},
       year = {2023},
       journal = {arXiv preprint arXiv:2308.06578}
     }
     

107. Haspel, G., & Cohen, N. (2022). Neurodevelopment: Maintaining function during circuit reconfiguration. Current Biology, 32(21), R1226–R1228.

     @article{haspel2022neurodevelopment,
       title = {Neurodevelopment: Maintaining function during circuit reconfiguration},
       author = {Haspel, Gal and Cohen, Netta},
       year = {2022},
       journal = {Current Biology},
       publisher = {Elsevier},
       volume = {32},
       number = {21},
       pages = {R1226--R1228}
     }
     

108. Haspel, G., Deng, L., Harreguy, M. B., & Tanvir, Z. (2020). Elegantly. In The neural control of movement (pp. 3–29). Academic Press.

     @incollection{haspel2020elegantly,
       title = {Elegantly},
       author = {Haspel, Gal and Deng, Lan and Harreguy, Maria Belen and Tanvir, Zainab},
       year = {2020},
       booktitle = {The neural control of movement},
       publisher = {Academic Press},
       pages = {3--29}
     }
     

109. Haspel, G., Harreguy, M. B., & Gershman, S. (2022). Cold atmospheric plasma for neural regeneration. APS Division of Plasma Physics Meeting Abstracts, 2022, GP11–077.

     @inproceedings{haspel2022cold,
       title = {Cold atmospheric plasma for neural regeneration},
       author = {Haspel, Gal and Harreguy, Maria Belen and Gershman, Sophia},
       year = {2022},
       booktitle = {APS Division of Plasma Physics Meeting Abstracts},
       volume = {2022},
       pages = {GP11--077}
     }
     

110. Haspel, G., Severi, K. E., Fauci, L. J., Cohen, N., Tytell, E. D., & Morgan, J. R. (2021). Resilience of neural networks for locomotion. The Journal of Physiology, 599(16), 3825–3840.

     @article{haspel2021resilience,
       title = {Resilience of neural networks for locomotion},
       author = {Haspel, Gal and Severi, Kristen E and Fauci, Lisa J and Cohen, Netta and Tytell, Eric D and Morgan, Jennifer R},
       year = {2021},
       journal = {The Journal of Physiology},
       volume = {599},
       number = {16},
       pages = {3825--3840}
     }
     

111. Hirata Miyasaki, E., Bajor, A. A., Pettersson, G. M., Senftleben, M. L., Fouke, K. E., Graham, T. G. W., John, D. D., Morgan, J. R., Haspel, G., & Abrahamsson, S. (2024). High-speed 3D Imaging with 25-Camera Multifocus Microscope. BioRxiv, 2024–2009.

     @article{hirata2024high,
       title = {High-speed 3D Imaging with 25-Camera Multifocus Microscope},
       author = {Hirata Miyasaki, Eduardo and Bajor, Antone A and Pettersson, Gustav M and Senftleben, Maximilian L and Fouke, Kaitlyn E and Graham, Thomas GW and John, Demis D and Morgan, Jennifer R and Haspel, Gal and Abrahamsson, Sara},
       year = {2024},
       journal = {bioRxiv},
       publisher = {Cold Spring Harbor Laboratory},
       pages = {2024--09}
     }
     

112. Hirata-Miyasaki, E., Pettersson, G. M., Bajor, A., Fouke, K., John, D. D., Thibeault, B., Haspel, G., Morgan, J., & Abrahamsson, S. (2022). Ultrafast live 3D imaging with 25-plane camera array multifocus microscopy. Imaging Systems and Applications, IW1C–2.

     @inproceedings{hirata2022ultrafast,
       title = {Ultrafast live 3D imaging with 25-plane camera array multifocus microscopy},
       author = {Hirata-Miyasaki, Eduardo and Pettersson, Gustav M and Bajor, Antone and Fouke, Kaitlyn and John, Demis D and Thibeault, Brian and Haspel, Gal and Morgan, Jennifer and Abrahamsson, Sara},
       year = {2022},
       booktitle = {Imaging Systems and Applications},
       pages = {IW1C--2},
       organization = {Optica Publishing Group}
     }
     

113. Hunyadi, J., Currier, T., Modarres-Sadeghi, Y., Flammang, B. E., & Clotfelter, E. D. (2020). Morphology, performance and fluid dynamics of the crayfish escape response. Journal of Experimental Biology, 223(15), jeb219873.

     @article{hunyadi2020morphology,
       title = {Morphology, performance and fluid dynamics of the crayfish escape response},
       author = {Hunyadi, Jocelyn and Currier, Todd and Modarres-Sadeghi, Yahya and Flammang, Brooke E and Clotfelter, Ethan D},
       year = {2020},
       journal = {Journal of Experimental Biology},
       publisher = {The Company of Biologists Ltd},
       volume = {223},
       number = {15},
       pages = {jeb219873}
     }
     

114. Hyland Bruno, J., Boyd, B., & Rothenberg, D. (2022). Editorial: Songs and Signs: Interdisciplinary Perspectives on Cultural Transmission and Inheritance in Human and Nonhuman Animals. Frontiers in Psychology, 13. https://doi.org/10.3389/fpsyg.2022.953813
     DOI

     @article{Hyland_Bruno_2022,
       title = {Editorial: Songs and Signs: Interdisciplinary Perspectives on Cultural Transmission and Inheritance in Human and Nonhuman Animals},
       author = {Hyland Bruno, Julia and Boyd, Brian and Rothenberg, David},
       year = {2022},
       journal = {Frontiers in Psychology},
       publisher = {Frontiers Media SA},
       volume = {13},
       doi = {10.3389/fpsyg.2022.953813}
     }
     

115. Hyland Bruno, J., Jarvis, E. D., Liberman, M., & Tchernichovski, O. (2021). Birdsong Learning and Culture: Analogies with Human Spoken Language. Annual Review of Linguistics, 7(1), 449–472. https://doi.org/10.1146/annurev-linguistics-090420-121034
     DOI

     @article{Hyland_Bruno_2021,
       title = {Birdsong Learning and Culture: Analogies with Human Spoken Language},
       author = {Hyland Bruno, Julia and Jarvis, Erich D. and Liberman, Mark and Tchernichovski, Ofer},
       year = {2021},
       journal = {Annual Review of Linguistics},
       publisher = {Annual Reviews},
       volume = {7},
       number = {1},
       pages = {449–472},
       doi = {10.1146/annurev-linguistics-090420-121034}
     }
     

116. Hyland Bruno, J., & Mercado, E. (2026). Assessing the Role of Vocal Plasticity in Sociospatial Coordination. Animals, 16(6), 890. https://doi.org/https://doi.org/10.3390/ani16060890
     DOI ABSTRACT

     @article{HYLANDBRUNO2026111111,
       title = {Assessing the Role of Vocal Plasticity in Sociospatial Coordination},
       author = {Hyland Bruno, Julia and Mercado, Eduardo},
       year = {2026},
       journal = {Animals},
       volume = {16},
       number = {6},
       pages = {890},
       doi = {https://doi.org/10.3390/ani16060890},
       url = {https://www.mdpi.com/2076-2615/16/6/890},
       keywords = {active sensing, auditory plasticity, cetacean, communication, spatial hearing, sound localization, vocal learning, vocal interaction}
     }
     

     Studies of vocal communication often focus on the messages that calls and songs convey related to reproductive activities, foraging, predator avoidance, social bonding, individual recognition, and conflict resolution. We consider ways in which vocalizations may dynamically mediate social interactions at a more basic level, through collective coordination of movements and the enhancement of spatial perception. From this perspective, animals may vocalize to probe the locations, movements, and intentions of others, to manipulate position changes by listeners, or to increase their own capacity to localize sounds. An animal’s capacity to flexibly adjust vocalizations, both in real-time and over longer periods, can increase their ability to monitor and influence conspecifics independently of any information that may be encoded within those vocalizations. Beyond simply conveying messages, reproductive fitness, or emotional states, an animal’s ability to modulate vocalizations may dynamically affect its future action plans and social roles within a group. Identifying situational, life-history, and sociospatial factors that determine how animals vocally interact in real-time is key to understanding how an animal’s vocalizations relate to its own actions and the actions of others.

117. Hyland Bruno, J., Mercado, E., Tietjen, N., Levin, I., & Ryan, M. (2026). Vocal interactions between singing humpback whales, Megaptera novaeangliae. Animal Behaviour, 234, 123458. https://doi.org/https://doi.org/10.1016/j.anbehav.2025.123458
     DOI ABSTRACT

     @article{HYLANDBRUNO2026123458,
       title = {Vocal interactions between singing humpback whales, Megaptera novaeangliae},
       author = {Hyland Bruno, Julia and Mercado, Eduardo and Tietjen, Niko and Levin, Isabel and Ryan, Mary},
       year = {2026},
       journal = {Animal Behaviour},
       volume = {234},
       pages = {123458},
       doi = {https://doi.org/10.1016/j.anbehav.2025.123458},
       issn = {0003-3472},
       url = {https://www.sciencedirect.com/science/article/pii/S0003347225003859},
       keywords = {acoustic monitoring, bioacoustics, cetacean, communication, masking interference, song, vocal production, whale song}
     }
     

     Humpback whales construct predictably patterned sequences within multihour sessions of sound production. These sequences (called ’songs’) are some of the most structurally and acoustically complex vocal patterns produced by any mammal. Humpback whale song production is highly dynamic in that individuals constantly modify the properties of songs across multiple timescales throughout their adult lives. Past analyses of co-vocalizing humpback whales suggest that singers within earshot of one another may dynamically and interactively adjust their vocalizations in reaction to what they hear. The current study investigated whether singing humpback whales coordinate their production of concurrent songs either by overlapping similar sound patterns more than expected by chance or by modulating the spectral properties of sound sequences, thereby decreasing acoustic interference. Our results show that the vocal adjustments co-singing humpback whales make are diverse and appear to depend on the acoustic context. No evidence was found of singers adjusting the number or timing of sound pattern repetitions to alter pattern overlap. In contrast, most singers modified the spectral features of sound patterns after a second singer began singing. Co-singers appeared to intermittently alter produced pitches in reaction to each other’s vocal actions, suggesting that singing humpbacks attend to other audible singers and may sometimes alter song content to initiate social interactions from long distances. Understanding how and when singing whales vocally interact can provide new insights into the various roles singing plays in coordinating vertebrate behaviour.

118. Hyland Bruno, J., Mercado, E., Tietjen, N., Levin, I., & Ryan, M. (2025). Vocal Interactions Between Singing Humpback Whales (Megaptera novaeangliae). BioRxiv, 2025–2006. https://doi.org/10.1101/2025.06.12.658025
     DOI

     @article{Bruno_2025,
       title = {Vocal Interactions Between Singing Humpback Whales (Megaptera novaeangliae)},
       author = {Hyland Bruno, Julia and Mercado, Eduardo and Tietjen, Niko and Levin, Isabel and Ryan, Mary},
       year = {2025},
       journal = {bioRxiv},
       publisher = {Cold Spring Harbor Laboratory},
       pages = {2025--06},
       doi = {10.1101/2025.06.12.658025},
       url = {http://dx.doi.org/10.1101/2025.06.12.658025}
     }
     

119. Jelley, C., & Barden, P. (2021). Vision-linked traits associated with antenna size and foraging ecology across ants. Insect Systematics and Diversity, 5(5), 9.

     @article{jelley2021vision,
       title = {Vision-linked traits associated with antenna size and foraging ecology across ants},
       author = {Jelley, Chloe and Barden, Phillip},
       year = {2021},
       journal = {Insect Systematics and Diversity},
       publisher = {Oxford University Press US},
       volume = {5},
       number = {5},
       pages = {9}
     }
     

120. Kattge, J., Bönisch, G., Dı́az Sandra, Lavorel, S., Prentice, I. C., Leadley, P., Tautenhahn, S., Werner, G. D. A., Aakala, T., Abedi, M., & others. (2020). TRY plant trait database–enhanced coverage and open access. Global Change Biology, 26(1), 119–188.

     @article{kattge2020try,
       title = {TRY plant trait database--enhanced coverage and open access},
       author = {Kattge, Jens and B{\"o}nisch, Gerhard and D{\'\i}az, Sandra and Lavorel, Sandra and Prentice, Iain Colin and Leadley, Paul and Tautenhahn, Susanne and Werner, Gijsbert DA and Aakala, Tuomas and Abedi, Mehdi and others},
       year = {2020},
       journal = {Global change biology},
       volume = {26},
       number = {1},
       pages = {119--188}
     }
     

121. Kellogg, A. B., Legris, J. D., Beal, D. N., Murphy, C. T., & Flammang, B. E. (2023). Bio-inspired flappingMola mola fin. INTEGRATIVE AND COMPARATIVE BIOLOGY, 62, S166–S166.

     @inproceedings{kellogg2023bio,
       title = {Bio-inspired flappingMola mola fin},
       author = {Kellogg, AB and Legris, JD and Beal, DN and Murphy, CT and Flammang, BE},
       year = {2023},
       booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
       volume = {62},
       pages = {S166--S166},
       organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
     }
     

122. Kellogg, A., Legris, J., Beal, D., Murphy, C., & Flammang, B. (2023). 2D PIV of Bioinspired Oscillating Mola mola Fin Derived from Morphology and Kinematics. INTEGRATIVE AND COMPARATIVE BIOLOGY, 63, S235–S236.

     @inproceedings{kellogg20232d,
       title = {2D PIV of Bioinspired Oscillating Mola mola Fin Derived from Morphology and Kinematics},
       author = {Kellogg, Audrey and Legris, Joseph and Beal, David and Murphy, Christin and Flammang, Brooke},
       year = {2023},
       booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
       volume = {63},
       pages = {S235--S236},
       organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
     }
     

123. Kennedy, L. W., Caplan, J. M., Garnier, S., Lersch, K., Miró-Llinares, F., Gibbs Van Brunschot, E. E., & Lopez, D. (2021). Editorial: Using Evidence Based Analytics to Create Narratives for Police Decision Making. Frontiers in Psychology, 12, 791605. https://doi.org/10.3389/fpsyg.2021.791605
     DOI

     @article{Kennedy2021nx,
       title = {Editorial: Using Evidence Based Analytics to Create Narratives for Police Decision Making},
       author = {Kennedy, Leslie W and Caplan, Joel M and Garnier, Simon and Lersch, Kim and Mir\'{o}-Llinares, Fernando and Gibbs Van Brunschot, Erin E and Lopez, David},
       year = {2021},
       month = {22~dec},
       journal = {Frontiers in psychology},
       volume = {12},
       pages = {791605},
       doi = {10.3389/fpsyg.2021.791605},
       issn = {1664-1078},
       url = {http://dx.doi.org/10.3389/fpsyg.2021.791605},
       affiliation = {School of Criminal Justice, Rutgers University, Newark, NJ, United States. Department of Biology, NJIT, Newark, NJ, United States. School of Information, University of South Florida, Tapa, FL, United States. Faculty of Social and Legal Sciences, Universidad Miquel Hernandez de Elche, Elche, Spain. Centre for Military, Security and Strategic Studies, University of Calgary, Calgary, AB, Canada. Rutgers Law School, Rutgers, The State University of New Jersey, Newark, NJ, United States.},
       file = {All Papers/2021/Kennedy et al. 2021 - Editorial - Using Evidence Based Analytics to Create Narratives for Police Decision Making.pdf},
       keywords = {analytics; evidence based; hot spots; narratives; police decision making},
       pmc = {PMC8728895},
       pmid = {35002885},
       language = {en}
     }
     

124. King, A. J., Henry, E. G., Garnier, S., Allen, W. L., Heathcote, R. J. P., Fele, M., Papadopoulou, M., Sankey, D. W. E., & Fürtbauer, I. (2026). Evolutionary spandrels in collective animal behaviour. Trends in Ecology & Evolution. https://doi.org/10.1016/j.tree.2026.07.011
     DOI ABSTRACT

     @article{spandrels1,
       title = {Evolutionary spandrels in collective animal behaviour},
       author = {King, Andrew J. and Henry, Ella G. and Garnier, Simon and Allen, William L. and Heathcote, Robert J.P. and Fele, Marco and Papadopoulou, Marina and Sankey, Daniel W.E. and F{\"u}rtbauer, Ines},
       year = {2026},
       month = aug,
       journal = {Trends in Ecology {\&} Evolution},
       publisher = {Elsevier},
       doi = {10.1016/j.tree.2026.07.011},
       issn = {0169-5347},
       url = {https://doi.org/10.1016/j.tree.2026.07.011}
     }
     

     Collective behaviour is widespread in the animal kingdom and can enhance individual fitness. Yet not all collective behaviours are adaptations. Instead, some may be nonadaptive or ’evolutionary spandrels’—traits that originated as by-products in the sense proposed by Stephen Jay Gould and Richard Lewontin. Here, we argue that self-organising processes provide a route through which evolutionary spandrels in collective animal behaviour can occur, and we provide three examples: spatial organisation in primate groups, division of labour in ants, and insect chorusing. We then consider how such outcomes may be co-opted into adaptive roles through exaptation and conclude by outlining the challenges associated with testing adaptive and nonadaptive hypotheses in collective behaviour research using individual-based studies, phylogenetic comparative analyses, and agent-based models.

125. Levenstein, D., Alvarez, V. A., Amarasingham, A., Azab, H., Chen, Z. S., Gerkin, R. C., Hasenstaub, A., Iyer, R., Jolivet, R. B., Marzen, S., & others. (2023). On the role of theory and modeling in neuroscience. Journal of Neuroscience, 43(7), 1074–1088.

     @article{levenstein2023role,
       title = {On the role of theory and modeling in neuroscience},
       author = {Levenstein, Daniel and Alvarez, Veronica A and Amarasingham, Asohan and Azab, Habiba and Chen, Zhe S and Gerkin, Richard C and Hasenstaub, Andrea and Iyer, Ramakrishnan and Jolivet, Renaud B and Marzen, Sarah and others},
       year = {2023},
       journal = {Journal of Neuroscience},
       publisher = {Society for Neuroscience},
       volume = {43},
       number = {7},
       pages = {1074--1088}
     }
     

126. Li, X., Itani, O., Bucher, D. M., Rotstein, H. G., & Nadim, F. (2023). Distinct mechanisms underlie electrical coupling resonance and its interaction with membrane potential resonance [Journal Article]. Frontiers in Systems Biology, 3, 1122433. https://doi.org/10.3389/fsysb.2023.1122433
     DOI ABSTRACT

     @article{li2023distinct,
       title = {Distinct mechanisms underlie electrical coupling resonance and its interaction with membrane potential resonance},
       author = {Li, Xinping and Itani, Omar and Bucher, Dirk M and Rotstein, Horacio G and Nadim, Farzan},
       year = {2023},
       journal = {Frontiers in Systems Biology},
       publisher = {Frontiers Media SA},
       volume = {3},
       pages = {1122433},
       doi = {10.3389/fsysb.2023.1122433},
       issn = {2674-0702},
       url = {https://www.frontiersin.org/articles/10.3389/fsysb.2023.1122433},
       keywords = {oscillation,central pattern generator,Stomatogastric,Gap Junctions,resonance},
       type = {Journal Article}
     }
     

     Neurons in oscillatory networks often exhibit membrane potential resonance, a peak impedance at a non-zero input frequency. In electrically coupled oscillatory networks, the coupling coefficient (the ratio of post- and prejunctional voltage responses) could also show resonance. Such coupling resonance may emerge from the interaction between the coupling current and resonance properties of the coupled neurons, but this relationship has not been clearly described. Additionally, it is unknown if the gap-junction mediated electrical coupling conductance may have frequency dependence. We examined these questions by recording a pair of electrically coupled neurons in the oscillatory pyloric network of the crab Cancer borealis. We performed dual current- and voltage-clamp recordings and quantified the frequency preference of the coupled neurons, the coupling coefficient, the electrical conductance, and the postjunctional neuronal response. We found that all components exhibit frequency selectivity, but with distinct preferred frequencies. Mathematical and computational analysis showed that membrane potential resonance of the postjunctional neuron was sufficient to give rise to resonance properties of the coupling coefficient, but not the coupling conductance. A distinct coupling conductance resonance frequency therefore emerges either from other circuit components or from the gating properties of the gap junctions. Finally, to explore the functional effect of the resonance of the coupling conductance, we examined its role in synchronizing neuronal the activities of electrically coupled bursting model neurons. Together, our findings elucidate factors that produce electrical coupling resonance and the function of this resonance in oscillatory networks.

127. Liu, S., Shih, F. Y., Russell, G., Russell, K., & Phan, H. (2020). Classification of ecological data by deep learning. International Journal of Pattern Recognition and Artificial Intelligence, 34(13), 2052010. https://doi.org/10.1142/S0218001420520102
     DOI ABSTRACT

     @article{liu2020classification,
       title = {Classification of ecological data by deep learning},
       author = {Liu, Shaobo and Shih, Frank Y and Russell, Gareth and Russell, Kimberly and Phan, Hai},
       year = {2020},
       journal = {International Journal of Pattern Recognition and Artificial Intelligence},
       publisher = {World Scientific},
       volume = {34},
       number = {13},
       pages = {2052010},
       doi = {10.1142/S0218001420520102}
     }
     

     Ecologists have been studying different computational models in the classification of ecological species. In this paper, we intend to take advantages of variant deep-learning models, including LeNet, AlexNet, VGG models, residual neural network, and inception models, to classify ecological datasets, such as bee wing and butterfly. Since the datasets contain relatively small data samples and unbalanced samples in each class, we apply data augmentation and transfer learning techniques. Furthermore, newly designed inception residual and inception modules are developed to enhance feature extraction and increase classification rates. As comparing against currently available deep-learning models, experimental results show that the proposed inception residual block can avoid the vanishing gradient problem and achieve a high accuracy rate of 92%.

128. Loewen, E. J. T., Libke, C., Sosiak, C., Barden, P., Somers, C., & McKellar, R. C. (2026). Ants (Hymenoptera: Formicidae) preserved in amber shed light on faunal turnover and ecological roles before the end-Cretaceous extinction. Insect Systematics and Diversity, 10(4). https://doi.org/10.1093/isd/ixag027
     DOI ABSTRACT

     @article{ixag027,
       title = {Ants (Hymenoptera: Formicidae) preserved in amber shed light on faunal turnover and ecological roles before the end-Cretaceous extinction},
       author = {Loewen, Elyssa J T and Libke, Caelan and Sosiak, Christine and Barden, Phillip and Somers, Christopher and McKellar, Ryan C},
       year = {2026},
       month = jul,
       journal = {Insect Systematics and Diversity},
       volume = {10},
       number = {4},
       doi = {10.1093/isd/ixag027},
       issn = {2399-3421},
       url = {https://doi.org/10.1093/isd/ixag027},
       eprint = {https://academic.oup.com/isd/article-pdf/10/4/ixag027/68759171/ixag027.pdf}
     }
     

     Substantial gaps in the ant fossil record surrounding the end-Cretaceous mass extinction have obscured the timing of early crown ant radiations and their palaeoecological diversity. Here, we describe two partial fossil ants (Formicidae: Pseudomyrmecinae; Formicidae: Aneuretinae) from Late Cretaceous Big Muddy amber (∼67.04 Ma). These are the oldest definitive representatives of Aneuretinae and Pseudomyrmecinae, extending their fossil records back into the Late Cretaceous and expanding their known spatiotemporal ranges. We used a broad extant ecomorphological dataset to evaluate the accuracy of Random Forest machine-learning classification for predicting the palaeoecology of partial ant fossils and to compare the inferred ecological niches of the Big Muddy ants and their respective extinct Cenozoic consubfamilials with those of their extant close relatives. We show that even with a limited subset of morphological traits, Random Forest models can generate accurate ecological predictions; however, model reliability is significantly impacted by the exclusion of sensory traits and the presence of flexible ecology. The Big Muddy pseudomyrmecine was recovered as terricolous, in contrast to the arboreal ecology of its Cenozoic and extant relatives, suggesting the transition to arboreal habitats may have occurred after the end-Cretaceous mass extinction. While the Big Muddy aneruetine results were not robust, its Cenozoic relatives were also reconstructed as terricolous and were more ecologically diverse than their sole living relative, the relictual Aneuretus simoni Emery, 1893. The presence of these subfamilies in Big Muddy amber supports the hypothesized timing of a major radiation of ecologically and taxonomically diverse crown ant subfamilies in the Late Cretaceous alongside flowering plants.

129. Lutz, M. J., Reid, C. R., Lustri, C. J., Kao, A. B., Garnier, S., & Couzin, I. D. (2021). Individual error correction drives responsive self-assembly of army ant scaffolds. Proceedings of the National Academy of Sciences of the United States of America, 118(17). https://doi.org/10.1073/pnas.2013741118
     DOI ABSTRACT

     @article{Lutz2021vu,
       title = {Individual error correction drives responsive self-assembly of army ant scaffolds},
       author = {Lutz, Matthew J and Reid, Chris R and Lustri, Christopher J and Kao, Albert B and Garnier, Simon and Couzin, Iain D},
       year = {2021},
       month = {27~apr},
       journal = {Proceedings of the National Academy of Sciences of the United States of America},
       publisher = {National Academy of Sciences},
       volume = {118},
       number = {17},
       doi = {10.1073/pnas.2013741118},
       issn = {0027-8424,1091-6490},
       url = {http://dx.doi.org/10.1073/pnas.2013741118},
       affiliation = {Department of Collective Behaviour, Max Planck Institute of Animal Behavior, Konstanz D-78457, Germany; matthew.lutz\@gmail.com chrisreidresearch\@gmail.com. Centre for the Advanced Study of Collective Behaviour, University of Konstanz, Konstanz D-78457, Germany. Department of Biology, University of Konstanz, Konstanz D-78457, Germany. Department of Biological Sciences, Macquarie University, Sydney, NSW 2109, Australia; matthew.lutz\@gmail.com chrisreidresearch\@gmail.com. Department of Mathematics and Statistics, Macquarie University, Sydney, NSW 2109, Australia. Santa Fe Institute, Santa Fe, NM 87501. Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ 07102. Department of Collective Behaviour, Max Planck Institute of Animal Behavior, Konstanz D-78457, Germany.},
       file = {All Papers/2021/Lutz et al. 2021 - Individual error correction drives responsive self-assembly of army ant scaffolds.pdf},
       keywords = {collective behavior; distributed control; infrastructure; resilience; self-assembly},
       pmc = {PMC8092576},
       pmid = {33893232},
       language = {en}
     }
     

     An inherent strength of evolved collective systems is their ability to rapidly adapt to dynamic environmental conditions, offering resilience in the face of disruption. This is thought to arise when individual sensory inputs are filtered through local interactions, producing an adaptive response at the group level. To understand how simple rules encoded at the individual level can lead to the emergence of robust group-level (or distributed) control, we examined structures we call “scaffolds,” self-assembled by Eciton burchellii army ants on inclined surfaces that aid travel during foraging and migration. We conducted field experiments with wild E. burchellii colonies, manipulating the slope over which ants traversed, to examine the formation of scaffolds and their effects on foraging traffic. Our results show that scaffolds regularly form on inclined surfaces and that they reduce losses of foragers and prey, by reducing slipping and/or falling of ants, thus facilitating traffic flow. We describe the relative effects of environmental geometry and traffic on their growth and present a theoretical model to examine how the individual behaviors underlying scaffold formation drive group-level effects. Our model describes scaffold growth as a control response at the collective level that can emerge from individual error correction, requiring no complex communication among ants. We show that this model captures the dynamics observed in our experiments and is able to predict the growth-and final size-of scaffolds, and we show how the analytical solution allows for estimation of these dynamics.

130. Ma, Q., Su, Y., Niu, C., Ma, Q., Hu, T., Luo, X., Tai, X., Qiu, T., Zhang, Y., & Bales, R. C. (2023). Tree mortality during long-term droughts is lower in structurally complex forest stands [Journal Article]. Nature Communications, 14(1), 7467.

     @article{RN1019,
       title = {Tree mortality during long-term droughts is lower in structurally complex forest stands},
       author = {Ma, Qin and Su, Yanjun and Niu, Chunyue and Ma, Qin and Hu, Tianyu and Luo, Xiangzhong and Tai, Xiaonan and Qiu, Tong and Zhang, Yao and Bales, Roger C},
       year = {2023},
       journal = {Nature communications},
       volume = {14},
       number = {1},
       pages = {7467},
       issn = {2041-1723},
       type = {Journal Article}
     }
     

131. Mackay, D. S., Savoy, P. R., Grossiord, C., Tai, X., Pleban, J. R., Wang, D. R., McDowell, N. G., Adams, H. D., & Sperry, J. S. (2020). Conifers depend on established roots during drought: results from a coupled model of carbon allocation and hydraulics [Journal Article]. New Phytologist, 225(2), 679–692.

     @article{RN567,
       title = {Conifers depend on established roots during drought: results from a coupled model of carbon allocation and hydraulics},
       author = {Mackay, D Scott and Savoy, Philip R and Grossiord, Charlotte and Tai, Xiaonan and Pleban, Jonathan R and Wang, Diane R and McDowell, Nathan G and Adams, Henry D and Sperry, John S},
       year = {2020},
       journal = {New Phytologist},
       volume = {225},
       number = {2},
       pages = {679--692},
       issn = {0028-646X},
       type = {Journal Article}
     }
     

132. Mapalo, M. A., Robin, N., Boudinot, B. E., Ortega-Hernández, J., & Barden, P. (2021). A tardigrade in Dominican amber. Proceedings of the Royal Society B, 288(1960), 20211760.

     @article{mapalo2021tardigrade,
       title = {A tardigrade in Dominican amber},
       author = {Mapalo, Marc A and Robin, Ninon and Boudinot, Brendon E and Ortega-Hern{\'a}ndez, Javier and Barden, Phillip},
       year = {2021},
       journal = {Proceedings of the Royal Society B},
       publisher = {The Royal Society},
       volume = {288},
       number = {1960},
       pages = {20211760}
     }
     

133. Martinez, D., Matveev, V., & Nadim, F. (2022). Short-term synaptic plasticity in central pattern generators. In Encyclopedia of Computational Neuroscience (pp. 3107–3118). Springer New York New York, NY.

     @incollection{martinez2022short,
       title = {Short-term synaptic plasticity in central pattern generators},
       author = {Martinez, Diana and Matveev, Victor and Nadim, Farzan},
       year = {2022},
       booktitle = {Encyclopedia of Computational Neuroscience},
       publisher = {Springer New York New York, NY},
       pages = {3107--3118}
     }
     

134. Mashintonio, A. F., Harris, G. M., Stewart, D. R., Butler, M. J., Sanderson, J., & Russell, G. (2022). Estimating species richness with camera traps: modeling the effects of delay period, deployment length, number of sites, and interference imagery. Wildlife Society Bulletin, 46(4), e1357. https://doi.org/10.1002/wsb.1357
     DOI ABSTRACT

     @article{mashintonio2022estimating,
       title = {Estimating species richness with camera traps: modeling the effects of delay period, deployment length, number of sites, and interference imagery},
       author = {Mashintonio, Andrew F and Harris, Grant M and Stewart, David R and Butler, Matthew J and Sanderson, Jim and Russell, Gareth},
       year = {2022},
       journal = {Wildlife Society Bulletin},
       volume = {46},
       number = {4},
       pages = {e1357},
       doi = {10.1002/wsb.1357}
     }
     

     Biologists commonly use camera traps for estimating species richness to inform conservation actions, steer land protection, and reveal effects of climate change. Long-term studies using short delay periods (≤1\hspace0.167emmin) and numerous cameras produce voluminous amounts of redundant imagery. Thus, camera-trapping procedures maximizing richness estimates while minimizing data collection need development. We used imagery of mammals spanning 4 deserts in the United States to model the effects of delay, deployment length (i.e., study duration), number of sampling sites, and interference events on the proportion of known species richness detected (Rp). We also determined the proportion of subsamples containing each species (SR) under different sampling conditions to inform subsequent occupancy estimation. We generated contour plots describing the optimal configuration of sites and deployment length that minimized the image acquisition required to estimate Rp\hspace0.167em=\hspace0.167em0.9. The optimal configuration was independent of delay (requiring ∼50 sites and 13 months). The shortest delay (10\hspace0.167emsec) generated  8 times more images than the longest (3600\hspace0.167emsec) without substantially improving Rp and rare species detection. The shortest duration to acquire Rp\hspace0.167em=\hspace0.167em0.9 was 10 months but required ∼70 sites. The fewest sites needed were 22 and 29, depending on camera placement, requiring approximately 50 months of deployment. Simulated short, one-month studies were only able to obtain Rp  0.6 with 40–70 sites. Obtaining SR\hspace0.167em=\hspace0.167em0.8 with a 3600\hspace0.167emsec delay required between 1–12\hspace0.167emmonths and 10 sites or 1–17 sites and 6 months for uncommon species. Adding interference imagery, even with long delays, produced SR\hspace0.167em≥\hspace0.167em0.5 for rare species, generating data suitable for occupancy estimation. Overall, interference imagery had minimal effects on reducing SR estimates, unless the interference occurred continuously. Our guidance optimizes the number of sites, deployment length, and delay period while minimizing imagery acquisition to meet Rp and occupancy objectives with confidence.

135. McCreery, H. F., Gemayel, G., Pais, A. I., Garnier, S., & Nagpal, R. (2022). Hysteresis stabilizes dynamic control of self-assembled army ant constructions. Nature Communications, 13(1), 1160. https://doi.org/10.1038/s41467-022-28773-z
     DOI ABSTRACT

     @article{McCreery2022ta,
       title = {Hysteresis stabilizes dynamic control of self-assembled army ant constructions},
       author = {McCreery, Helen F and Gemayel, Georgina and Pais, Ana Isabel and Garnier, Simon and Nagpal, Radhika},
       year = {2022},
       month = {4~mar},
       journal = {Nature communications},
       publisher = {Nature Publishing Group},
       volume = {13},
       number = {1},
       pages = {1160},
       doi = {10.1038/s41467-022-28773-z},
       issn = {2041-1723,2041-1723},
       url = {http://dx.doi.org/10.1038/s41467-022-28773-z},
       affiliation = {School of Engineering and Applied Sciences, Harvard University, Boston, MA, 02134, USA. hmccreery\@gmail.com. University of Southern California, Los Angeles, CA, 90007, USA. Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ, 07102, USA. Rutgers University, Newark, Newark, NJ, 07102, USA. School of Engineering and Applied Sciences, Harvard University, Boston, MA, 02134, USA. Wyss Institute for Biologically Inspired Engineering, Boston, MA, 02115, USA. School of Engineering and Applied Sciences, Princeton University, Princeton, NJ, 08544, USA.},
       file = {All Papers/2022/McCreery et al. 2022 - Hysteresis stabilizes dynamic control of self-assembled army ant constructions.pdf},
       pmc = {PMC8897433},
       pmid = {35246567},
       language = {en}
     }
     

     Biological systems must adjust to changing external conditions, and their resilience depends on their control mechanisms. How is dynamic control implemented in noisy, decentralized systems? Army ants’ self-assembled bridges are built on unstable features, like leaves, which frequently move. Using field experiments and simulations, we characterize the bridges’ response as the gaps they span change in size, identify the control mechanism, and explore how this emerges from individuals’ decisions. For a given gap size, bridges were larger after the gap increased rather than decreased. This hysteresis was best explained by an accumulator model, in which individual decisions to join or leave a bridge depend on the difference between its current and equilibrium state. This produces robust collective structures that adjust to lasting perturbations while ignoring small, momentary shifts. Our field data support separate joining and leaving cues; joining is prompted by high bridge performance and leaving by an excess of ants. This leads to stabilizing hysteresis, an important feature of many biological and engineered systems.

136. Mercado, E., Ashour, M., Krsmanovic, G., & Hyland Bruno, J. (2023). Regularities in spectral entropy variations within humpback whale song sessions. The Journal of the Acoustical Society of America, 153(3_supplement), A186–A186. https://doi.org/10.1121/10.0018606
     DOI

     @inproceedings{Mercado_2023,
       title = {Regularities in spectral entropy variations within humpback whale song sessions},
       author = {Mercado, Eduardo and Ashour, Mariam and Krsmanovic, Gala and Hyland Bruno, Julia},
       year = {2023},
       journal = {The Journal of the Acoustical Society of America},
       publisher = {Acoustical Society of America (ASA)},
       volume = {153},
       number = {3\_supplement},
       pages = {A186–A186},
       doi = {10.1121/10.0018606}
     }
     

137. Mercado, E., Ryan, M., Ashour, M., Krsmanovic, G., McAllister, S., Perazio, C. E., & Hyland Bruno, J. (2025). Cyclical variations in acoustic features within the song sessions of humpback whales (Megaptera novaeangliae). Journal of Comparative Psychology, 139(3), 192–208. https://doi.org/10.1037/com0000401
     DOI

     @article{Mercado_2025,
       title = {Cyclical variations in acoustic features within the song sessions of humpback whales (Megaptera novaeangliae).},
       author = {Mercado, Eduardo and Ryan, Mary and Ashour, Mariam and Krsmanovic, Gala and McAllister, Samantha and Perazio, Christina E. and Hyland Bruno, Julia},
       year = {2025},
       journal = {Journal of Comparative Psychology},
       publisher = {American Psychological Association (APA)},
       volume = {139},
       number = {3},
       pages = {192–208},
       doi = {10.1037/com0000401}
     }
     

138. Mitchell, D. G., Edgar, A., & Martindale, M. Q. (2021). Improved histological fixation of gelatinous marine invertebrates. Frontiers in Zoology, 18(1). https://doi.org/10.1186/s12983-021-00414-z
     DOI

     @article{Mitchell_2021,
       title = {Improved histological fixation of gelatinous marine invertebrates},
       author = {Mitchell, Dorothy G. and Edgar, Allison and Martindale, Mark Q.},
       year = {2021},
       month = jun,
       journal = {Frontiers in Zoology},
       publisher = {Springer Science and Business Media LLC},
       volume = {18},
       number = {1},
       doi = {10.1186/s12983-021-00414-z},
       issn = {1742-9994},
       url = {http://dx.doi.org/10.1186/s12983-021-00414-z}
     }
     

139. Mitchell, D. G., Edgar, A., Mateu, J. R., Ryan, J. F., & Martindale, M. Q. (2024). The ctenophore Mnemiopsis leidyi deploys a rapid injury response dating back to the last common animal ancestor. Communications Biology, 7(1). https://doi.org/10.1038/s42003-024-05901-7
     DOI

     @article{Mitchell_2024,
       title = {The ctenophore Mnemiopsis leidyi deploys a rapid injury response dating back to the last common animal ancestor},
       author = {Mitchell, Dorothy G. and Edgar, Allison and Mateu, J\'{u}lia Ramon and Ryan, Joseph F. and Martindale, Mark Q.},
       year = {2024},
       month = feb,
       journal = {Communications Biology},
       publisher = {Springer Science and Business Media LLC},
       volume = {7},
       number = {1},
       doi = {10.1038/s42003-024-05901-7},
       issn = {2399-3642},
       url = {http://dx.doi.org/10.1038/s42003-024-05901-7}
     }
     

140. Miyasaki, E. H., Bajor, A. A., Pettersson, G. M., Senftleben, M. L., Fouke, K. E., Graham, T. G. W., John, D. D., Morgan, J. R., Haspel, G., & Abrahamsson, S. (2025). High-speed 3D imaging with a 25-camera multifocus microscope. Optica, 12(8), 1230–1241. https://doi.org/10.1364/OPTICA.563617
     DOI ABSTRACT

     @article{HirataMiyasaki,
       title = {High-speed 3D imaging with a 25-camera multifocus microscope},
       author = {Miyasaki, Eduardo Hirata and Bajor, Antone A. and Pettersson, Gustav M. and Senftleben, Maximilian L. and Fouke, Kaitlyn E. and Graham, Thomas G. W. and John, Demis D. and Morgan, Jennifer R. and Haspel, Gal and Abrahamsson, Sara},
       year = {2025},
       month = aug,
       journal = {Optica},
       publisher = {Optica Publishing Group},
       volume = {12},
       number = {8},
       pages = {1230--1241},
       doi = {10.1364/OPTICA.563617},
       url = {https://opg.optica.org/optica/abstract.cfm?URI=optica-12-8-1230},
       keywords = {Biomedical imaging; Confocal laser scanning microscopy; Diffractive optical elements; Imaging systems; Optical transfer functions; Spatial resolution}
     }
     

     High-speed volumetric imaging of whole-organism dynamics is often constrained by trade-offs between speed, resolution, and imaging depth. We present the M25 microscope, a 25-camera-array, aberration-corrected refocusing multifocus imaging system that captures 3D volumes simultaneously across 25 focal planes using a synchronized array of machine-vision cameras. Each camera incorporates a custom-blazed grating to correct chromatic dispersion, enabling a simplified, sensitive, and scalable multifocus setup for large fields of view while maintaining high spatial resolution across the imaging volume. M25 achieves imaging speeds of >100 volumes per second over imaging volumes of 180 x 180 x 50 μm. This method enables both noninvasive, label-free brightfield and highly sensitive fluorescence imaging. We demonstrate its capabilities in 3D particle tracking, fluorescent and brightfield imaging of D. melanogaster larval dynamics, and C. elegans locomotion and neural activity. This method enables fast and sensitive 3D imaging for biological studies and has potential applications across a broad range of diffractive imaging modalities.

141. Moffett, M. W., Garnier, S., Eisenhardt, K. M., Furr, N. R., Warglien, M., Sartoris, C., Ocasio, W., Knudsen, T., Bach, L. A., & Offenberg, J. (2021). Ant colonies: building complex organizations with minuscule brains and no leaders. Journal of Organization Design, 10(1), 55–74. https://doi.org/10.1007/s41469-021-00093-4
     DOI ABSTRACT

     @article{Moffett2021io,
       title = {Ant colonies: building complex organizations with minuscule brains and no leaders},
       author = {Moffett, Mark W and Garnier, Simon and Eisenhardt, Kathleen M and Furr, Nathan R and Warglien, Massimo and Sartoris, Costanza and Ocasio, William and Knudsen, Thorbj\o{}rn and Bach, Lars A and Offenberg, Joachim},
       year = {2021},
       month = {1~mar},
       journal = {Journal of organization design},
       publisher = {Springer Science and Business Media LLC},
       volume = {10},
       number = {1},
       pages = {55--74},
       doi = {10.1007/s41469-021-00093-4},
       issn = {2245-408X},
       url = {https://doi.org/10.1007/s41469-021-00093-4},
       file = {All Papers/2021/Moffett et al. 2021 - Ant colonies - building complex organizations with minuscule brains and no leaders.pdf;All Papers/2021/Moffett et al. 2021 - Ant colonies - building complex organizations with minuscule brains and no leaders.pdf},
       language = {en}
     }
     

     Thus far the articles in the series JOD calls the “Organization Zoo” have employed the notion of a “zoo” metaphorically to describe an array of human institutions. Here we take the term literally to consider the design of the most complex organizations in the living world beside those of humans, a favorite of insect zoos around the world: ant colonies. We consider individuality and group identity in the functioning of ant organizations; advantages of a flat organization without hierarchies or leaders; self-organization; direct and indirect communication; job specialization; labor coordination; and the role of errors in innovation. The likely value and limitations of comparing ant and human organizations are briefly examined.

142. Muratore, I. B., & Garnier, S. (2023). Ontogeny of collective behaviour. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences, 378(1874), 20220065. https://doi.org/10.1098/rstb.2022.0065
     DOI ABSTRACT

     @article{Muratore2023fo,
       title = {Ontogeny of collective behaviour},
       author = {Muratore, Isabella Benter and Garnier, Simon},
       year = {2023},
       month = {10~apr},
       journal = {Philosophical transactions of the Royal Society of London. Series B, Biological sciences},
       publisher = {Royal Society},
       volume = {378},
       number = {1874},
       pages = {20220065},
       doi = {10.1098/rstb.2022.0065},
       issn = {0962-8436,1471-2970},
       url = {http://dx.doi.org/10.1098/rstb.2022.0065},
       affiliation = {Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ 07102, USA.},
       file = {All Papers/2023/Muratore and Garnier 2023 - Ontogeny of collective behaviour.pdf},
       keywords = {collective architecture; collective behaviour; development; ontogeny; self-assemblage; social insects},
       pmc = {PMC9939274},
       pmid = {36802780},
       language = {en}
     }
     

     During their lifetime, superorganisms, like unitary organisms, undergo transformations that change the machinery of their collective behaviour. Here, we suggest that these transformations are largely understudied and propose that more systematic research into the ontogeny of collective behaviours is needed if we hope to better understand the link between proximate behavioural mechanisms and the development of collective adaptive functions. In particular, certain social insects engage in self-assemblage, forming dynamic and physically connected architectures with striking similarities to developing multicellular organisms, making them good model systems for ontogenetic studies of collective behaviour. However, exhaustive time series and three-dimensional data are required to thoroughly characterize the different life stages of the collective structures and the transitions between these stages. The well-established fields of embryology and developmental biology offer practical tools and theoretical frameworks that could speed up the acquisition of new knowledge about the formation, development, maturity and dissolution of social insect self-assemblages and, by extension, other superorganismal behaviours. We hope that this review will encourage an expansion of the ontogenetic perspective in the field of collective behaviour and, in particular, in self-assemblage research, which has far-reaching applications in robotics, computer science and regenerative medicine. This article is part of a discussion meeting issue ’Collective behaviour through time’.

143. Nadim, F. (2022). Invertebrate Pattern Generation: Overview. Encyclopedia of Computational Neuroscience, 60–62.

     @article{nadim2022invertebrate,
       title = {Invertebrate Pattern Generation: Overview},
       author = {Nadim, Farzan},
       year = {2022},
       journal = {Encyclopedia of Computational Neuroscience},
       publisher = {Springer New York New York, NY},
       pages = {60--62}
     }
     

144. Napoli, M., Garnier, S., & Porfiri, M. (2026). Nest-Level Phase Transition Drives Synchronized Activity Bursts in Ant Colonies. PRX Life, 4(3), 033010. https://doi.org/10.1103/ghnl-p5c1
     DOI ABSTRACT

     @article{ghnlp5c1,
       title = {Nest-Level Phase Transition Drives Synchronized Activity Bursts in Ant Colonies},
       author = {Napoli, Michael and Garnier, Simon and Porfiri, Maurizio},
       year = {2026},
       month = aug,
       journal = {PRX Life},
       publisher = {American Physical Society},
       volume = {4},
       pages = {033010},
       doi = {10.1103/ghnl-p5c1},
       url = {https://link.aps.org/doi/10.1103/ghnl-p5c1},
       issue = {3},
       numpages = {15}
     }
     

     Many natural complex systems exhibit synchronization, characterized by temporal coherence among the dynamics of their units. In ant colonies, synchronization manifests through activity bursts: sudden, sharp spikes of motion by a significant portion of workers throughout the nest, followed by durations of quiescence. These activity bursts were discovered three decades ago and studied since then; yet, the mechanisms that lead to their emergence remain elusive. Here, we present a model of ant activity that integrates both the motion of individuals within the nest and the transitions between behavioral states. By balancing microscopic behaviors in the model, we identify a nest-level phase transition from unsynchronized to synchronized activity and draw several connections between model predictions and empirical observations in the literature. Our analysis begets two key insights: (i) activity bursts emerge as a balance between the responsiveness of the colony to the first ant that activates and the ability of the colony to completely deactivate before the onset of the next burst, and (ii) the timescale of the motion of individuals through the nest is faster than that of the burst, suggesting that ants operate in a high-speed interaction regime where new behaviors are near-instantaneously transferred through the nest. We relate these findings to the broader literature on synchronization in complex systems, highlighting the need for periods of quiescence followed by the rapid communication of a new behavior through a population of connected units.

145. Newton, L. G., Abbott, J. C., Bybee, S. M., Carter, P., Frandsen, P. B., Goodman, A., Guralnick, R., Hahn, B., Idec, J., Kalkman, V. J., Kolhi, M., Fomekong-Lontchi, J., Lupiyanigdyah, P., Onsongo, V., Rowe, E., Sanchez-Herrera, M., Pinkert, S., Sutherland, L., Tolman, E., … Ware, J. L. (2026). Soaring Systematics: an evaluation of biogeography and flight behavior in dragonflies and damselflies (Insecta: Odonata) using phylogenomics. Systematic Biology, syag005. https://doi.org/10.1093/sysbio/syag005
     DOI ABSTRACT

     @article{syag005,
       title = {Soaring Systematics: an evaluation of biogeography and flight behavior in dragonflies and damselflies (Insecta: Odonata) using phylogenomics},
       author = {Newton, Lacie G and Abbott, John C and Bybee, Seth M and Carter, Payton and Frandsen, Paul B and Goodman, Aaron and Guralnick, Robert and Hahn, Brittney and Idec, Jacob and Kalkman, Vincent J and Kolhi, Manpreet and Fomekong-Lontchi, Judica\"{e}l and Lupiyanigdyah, Pungki and Onsongo, Violet and Rowe, Emma and Sanchez-Herrera, Melissa and Pinkert, Stefan and Sutherland, Laura and Tolman, Ethan and Uche-Dike, Rhema and Barden, Phil and Belitz, Michael and Bota-Sierra, Cornelio A and Cordero-Rivera, Adolfo and C\'{o}rdoba-Aguilar, Alex and Dijkstra, Klaas-Douwe B and Dow, Rory A and Ehlert, Juliana and Ferreira, Rhainer G and H\"{a}m\"{a}l\"{a}inen, Matti and Juen, Leandro and Lorenzo-Carballa, M Olalla and Mauffray, Bill and Nielsen, Anne L and Pessacq, Pablo and Pham, Thai Hong and Pinto, \^{A}ngelo Parise and Richards, Stephen J and Salas, Ruth and Skevington, Jeffrey H and Theischinger, Gunther and Zhang, Haomiao and Ware, Jessica L},
       year = {2026},
       month = jan,
       journal = {Systematic Biology},
       pages = {syag005},
       doi = {10.1093/sysbio/syag005},
       issn = {1063-5157},
       url = {https://doi.org/10.1093/sysbio/syag005},
       eprint = {https://academic.oup.com/sysbio/advance-article-pdf/doi/10.1093/sysbio/syag005/66537766/syag005.pdf}
     }
     

     Dragonflies and damselflies (Insecta: Odonata) are descended from what were most likely the first winged animals, which flew ∼320 million years ago (Ma). They comprise ∼6400 extant species distributed across all continents except Antarctica. Examination of long-standing hypotheses regarding the role of flight behavior and wing morphology in shaping the global distribution of odonates has been limited by spatial and taxonomic scope. Here we leverage mobilized trait and distribution data derived from specimens and literature combined with a uniquely comprehensive target-enriched phylogeny (∼940 loci) covering all families and 67% of recognized genera. Ancestral state reconstruction of flight behavior strategies ("flyer" vs. "percher") suggests the odonate ancestor was a flyer, spending a majority of its time when active on the wing, with multiple independent transitions to percher. Several transitions back to the flyer behavior have also occurred. Aspect ratios for forewings and hindwings showed a strong relationship between these traits and perching and flying behavioral strategies. Divergence time estimation suggests the crown age of Odonata to be 290–325 Ma. Bayesian biogeographical evolutionary analysis of nine biogeographical realms provides a preliminary biogeographical history for odonates spanning 325 Ma. Key family-level splits occurred during the Jurassic and Cretaceous, paralleling the increasing isolation of landmasses and the poleward drift of the contemporary Australasian and Holarctic regions. Both behavioral and morphological adaptations likely facilitated the distributional success of select odonate lineages. This study lays the foundation for a revised classification of odonates and a more complete understanding of the influence of flight behavior and wing morphology in relation to evolutionary processes shaping past and current odonate diversity.

146. Nogueira, B. R., LeBoeuf, A. C., Barden, P., Nguyen, D. Q. V., & Khadempour, L. (2026). Honeypots: a review of repletism across the ants. Myrmecological News, 36, 39–57. https://doi.org/10.25849/MYRMECOL.NEWS_036:039
     DOI ABSTRACT

     @article{Nogueira2026,
       title = {Honeypots: a review of repletism across the ants},
       author = {Nogueira, Bianca R and LeBoeuf, Adria C and Barden, Phillip and Nguyen, Diem Quynh V and Khadempour, Lily},
       year = {2026},
       journal = {Myrmecological News},
       publisher = {The Austrian Society of Entomofaunistics},
       volume = {36},
       pages = {39--57},
       doi = {10.25849/MYRMECOL.NEWS_036:039},
       url = {https://myrmecologicalnews.org/cms/index.php?option=com_content&view=category&id=1667&Itemid=444}
     }
     

     Honeypot ants are a fascinating case of the convergent evolution of an internal food storage strategy. They are characterized by a subset of physogastric workers, called repletes, that store food long-term in their crops to support the colony in times of low resource availability. Despite their biological and evolutionary significance, information on honeypot ants remains scattered, and the trait itself has lacked a clear and unified definition. This review synthesizes current knowledge on replete morphology, physiology, and function, establishing a foundation for defining the repletism syndrome. Through our literature review, we confirm the occurrence of repletes in at least eight genera across three subfamilies (Formicinae, Dolichoderinae, and Myrmicinae). We also identify four genera with putative honeypot species that remain poorly studied, and clarify cases of misidentification, where repletism has been confused with other internal storage strategies such as worker corpulence, trophic eggs, or thoracic crop expansion. We propose that repletism occurs along a spectrum across species, reflecting both morphological specialization and behavioral flexibility. In this review, we also demonstrate the global distribution of this extreme adaptation. Finally, we highlight future research directions into factors driving convergence of repletism, and mechanisms and potential microbial interactions underlying this adaptation.

147. O'Bryan, L. R., Oxendahl, T., Garnier, S., Segarra, S., Wettergreen, M., Sabharwal, A., & Beier, M. E. (2025). A novel approach to studying the role influence plays in team collective intelligence. Collective Intelligence, 4(2), 26339137251343584. https://doi.org/10.1177/26339137251343584
     DOI ABSTRACT

     @article{OBryan2025fv,
       title = {A novel approach to studying the role influence plays in team collective intelligence},
       author = {O\'Bryan, Lisa R and Oxendahl, Timothy and Garnier, Simon and Segarra, Santiago and Wettergreen, Matthew and Sabharwal, Ashutosh and Beier, Margaret E},
       year = {2025},
       month = apr,
       journal = {Collective intelligence},
       publisher = {SAGE Publications},
       volume = {4},
       number = {2},
       pages = {26339137251343584},
       doi = {10.1177/26339137251343584},
       issn = {2633-9137},
       url = {http://dx.doi.org/10.1177/26339137251343584},
       file = {All Papers/2025/O'Bryan et al. 2025 - A novel approach to studying the role influence plays in team collective intelligence.pdf},
       language = {en}
     }
     

     Studying collective intelligence in teams poses key challenges because individual contributions to team outcomes–such as ideas–can be abstract and difficult to measure. Although many studies have examined how team members shape collective outputs, they often utilize measures of influence focused on perceptions, participation, or performance, which can differ from objective measures of how team member contributions shape team outcomes. In this study, we develop an objective influence measure within the context of an open-ended design task. We operationalized influence as the objective similarity between designs created in an independent Brainstorming Phase and subsequent collaborative (or independent) Design Phase. We demonstrate our measure’s validity by establishing its ability to reflect similarities between designs beyond those expected due to chance and by examining its correlation with predictors and proxies of influence. Key takeaways are that team members’ initial ideas influenced team-level designs greater than expected, especially for team members with greater expertise, more work contributions, and ideas that were more similar to the mean. Our approach demonstrates our measure’s utility in enabling a mechanistic understanding of idea integration within teams, and we discuss how it can foster new insights within the field of collective intelligence.

148. Oberski, J. T., Griebenow, Z. H., Adams, R. M. M., Andersen, A., Andrade-Silva, J., Barden, P., Borowiec, M., Brady, S., Casadei-Ferreira, A., Csősz, S., Dias, A. M., Dias, R. K. S., Feitosa, R. M., Fernandez, F., Fisher, B. L., General, D. E. M., Gomez, K., Hammel, J. U., Hawkes, P. G., … Boudinot, B. E. (2025). Ant systematics: past, present, and future. Insect Systematics and Diversity, 9(4), 11. https://doi.org/10.1093/isd/ixaf025
     DOI ABSTRACT

     @article{antsys2025,
       title = {Ant systematics: past, present, and future},
       author = {Oberski, Jill T and Griebenow, Zachary H and Adams, Rachelle M M and Andersen, Alan and Andrade-Silva, Joudellys and Barden, Phillip and Borowiec, Marek and Brady, Se\'{a}n and Casadei-Ferreira, Alexandre and Cs\H{o}sz, S\'{a}ndor and Dias, Amanda Martins and Dias, Ratnayake Kaluarachchige Sriyani and Feitosa, Rodrigo Machado and Fernandez, Fernando and Fisher, Brian L and General, David Emmanuel M and Gomez, Kik\'{o} and Hammel, J\"{o}rg U and Hawkes, Peter G and Janda, Milan and Khalife, Adam and Ladino, Natalia and Lieberman, Ziv E and Lucky, Andrea and Menchetti, Mattia and Prado, L\'{\i}via Pires do and Prebus, Matthew M and Probst, Rodolfo S and Punnath, Aswaj and Richter, Adrian and Salata, Sebastian and S\'{a}nchez-Restrepo, Andr\'{e}s F and Schifani, Enrico and Schultz, Ted R and Silva, Rog\'{e}rio R and Sosa-Calvo, Jeffrey and Tocora, Maria C and Ulyss\'{e}a, M\^{o}nica Antunes and van de Kamp, Thomas and Wang, Wendy Y and Williams, Jason L and Camacho, Gabriela Procopio and Boudinot, Brendon E},
       year = {2025},
       month = sep,
       journal = {Insect Systematics and Diversity},
       volume = {9},
       number = {4},
       pages = {11},
       doi = {10.1093/isd/ixaf025},
       issn = {2399-3421},
       url = {https://doi.org/10.1093/isd/ixaf025},
       eprint = {https://academic.oup.com/isd/article-pdf/9/4/11/64217267/ixaf025.pdf}
     }
     

     The classification of ants (Hymenoptera: Formicidae) has progressed in waves since the first 17 species were described by Linnaeus in the 1758 edition of Systema Naturae. Since then, over 18,000 species-rank names have accumulated for the global myrmecofauna, of which ∼14,260 living and ∼810 fossil species are valid. Here, we provide a synopsis of ant biodiversity and review the history and classification of the family, while highlighting the massive growth of the field in the new millennium. We observe that major transformation has occurred for ant classification due to advances in DNA sequencing technologies, model-based hypothesis testing, and imaging technologies. We therefore provide a revised and illustrated list of diagnostic character states for the higher clades of Formicidae, recognizing that vastly more work is to be done. To facilitate discussion and the systematic accumulation of evolutionary knowledge for the early evolution of the ants, we suggest an informal nomenclatural system for the higher clades of ants, based on names currently in use and a set of names that have been democratically selected by the authors. To guide future work on ant systematics, we summarize currently available databases and present perspectives on regions in need of biodiversity exploration, challenges facing the field, and the future of ant taxonomy.

149. Papadopoulou, M., Fürtbauer, I., O'Bryan, L. R., Garnier, S., Georgopoulou, D. G., Bracken, A. M., Christensen, C., & King, A. J. (2023). Dynamics of collective motion across time and species. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences, 378(1874), 20220068. https://doi.org/10.1098/rstb.2022.0068
     DOI ABSTRACT

     @article{Papadopoulou2023rr,
       title = {Dynamics of collective motion across time and species},
       author = {Papadopoulou, Marina and F\"{u}rtbauer, Ines and O\'Bryan, Lisa R and Garnier, Simon and Georgopoulou, Dimitra G and Bracken, Anna M and Christensen, Charlotte and King, Andrew J},
       year = {2023},
       month = {10~apr},
       journal = {Philosophical transactions of the Royal Society of London. Series B, Biological sciences},
       publisher = {Royal Society},
       volume = {378},
       number = {1874},
       pages = {20220068},
       doi = {10.1098/rstb.2022.0068},
       issn = {0962-8436,1471-2970},
       url = {http://dx.doi.org/10.1098/rstb.2022.0068},
       affiliation = {Biosciences, School of Biosciences, Geography and Physics, Faculty of Science and Engineering, Swansea University, SA2 8PP Swansea, UK. Department of Psychological Sciences, Rice University, Houston, TX 77005, USA. Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ 07102, USA. Institute of Marine Biology, Biotechnology \& Aquaculture, HCMR, 71500 Hersonissos, Crete, Greece. School of Biodiversity, One Health and Veterinary Medicine, Graham Kerr Building, Glasgow G12 8QQ, UK. Department of Evolutionary Biology and Environmental Studies, University of Zurich, 8057 Z\"{u}rich, Switzerland.},
       file = {All Papers/2023/Papadopoulou et al. 2023 - Dynamics of collective motion across time and species.pdf},
       keywords = {baboon troop; bird flock; collective animal behaviour; fish school; goat herd},
       pmc = {PMC9939269},
       pmid = {36802781},
       language = {en}
     }
     

     Most studies of collective animal behaviour rely on short-term observations, and comparisons of collective behaviour across different species and contexts are rare. We therefore have a limited understanding of intra- and interspecific variation in collective behaviour over time, which is crucial if we are to understand the ecological and evolutionary processes that shape collective behaviour. Here, we study the collective motion of four species: shoals of stickleback fish (Gasterosteus aculeatus), flocks of homing pigeons (Columba livia), a herd of goats (Capra aegagrus hircus) and a troop of chacma baboons (Papio ursinus). First, we describe how local patterns (inter-neighbour distances and positions), and group patterns (group shape, speed and polarization) during collective motion differ across each system. Based on these, we place data from each species within a ’swarm space’, affording comparisons and generating predictions about the collective motion across species and contexts. We encourage researchers to add their own data to update the ’swarm space’ for future comparative work. Second, we investigate intraspecific variation in collective motion over time and provide guidance for researchers on when observations made over different time scales can result in confident inferences regarding species collective motion. This article is part of a discussion meeting issue ’Collective behaviour through time’.

150. Papadopoulou, M., Garnier, S., & King, A. J. (2025). swaRmverse: An R package for the comparative analysis of collective motion. Methods in Ecology and Evolution, 16(1), 29–39. https://doi.org/10.1111/2041-210x.14460
     DOI ABSTRACT

     @article{Papadopoulou2025zn,
       title = {swaRmverse: An R package for the comparative analysis of collective motion},
       author = {Papadopoulou, Marina and Garnier, Simon and King, Andrew J},
       year = {2025},
       month = jan,
       journal = {Methods in ecology and evolution},
       publisher = {Wiley},
       volume = {16},
       number = {1},
       pages = {29--39},
       doi = {10.1111/2041-210x.14460},
       issn = {2041-210X},
       url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/2041-210X.14460},
       file = {All Papers/2025/Papadopoulou et al. 2025 - swaRmverse - An R package for the comparative analysis of collective motion.pdf},
       keywords = {animal behaviour; collective motion; comparative analysis; dimensionality reduction; model validation; R package; trajectory data},
       language = {en}
     }
     

     Abstract Collective motion, that is the coordinated spatial and temporal organisation of individuals, is a core element in the study of collective animal behaviour. The self-organised properties of how a group moves influence its various behavioural and ecological processes, such as predator–prey dynamics, social foraging and migration. However, little is known about the inter- and intra-specific variation in collective motion. Despite the significant advancement in high-resolution tracking of multiple individuals within groups, providing collective motion data for animals in the laboratory and the field, a framework to perform quantitative comparisons across species and contexts is lacking. Here, we present the swaRmverse package. Building on two existing R packages, trackdf and swaRm, swaRmverse enables the identification and analysis of collective motion ‘events’, as presented in Papadopoulou et al. (2023), creating a unit of comparison across datasets. We describe the package’s structure and showcase its functionality using existing datasets from several species and simulated trajectories from an agent-based model. From positional time-series data for multiple individuals (x-y-t-id), swaRmverse identifies events of collective motion based on the distribution of polarisation and group speed. For each event, a suite of validated biologically meaningful metrics are calculated, and events are placed into a ‘swarm space’ through dimensional reduction techniques. Our package provides the first automated pipeline enabling the analysis of data on collective behaviour. The package allows the calculation and use of complex metrics for users without a strong quantitative background and will promote communication and data-sharing across disciplines, standardising the quantification of collective motion across species and promoting comparative investigations.

151. Perrichot, V., Wang, B., & Barden, P. (2020). New remarkable hell ants (Formicidae: Haidomyrmecinae stat. nov.) from mid-Cretaceous amber of northern Myanmar. Cretaceous Research, 109, 104381.

     @article{perrichot2020new,
       title = {New remarkable hell ants (Formicidae: Haidomyrmecinae stat. nov.) from mid-Cretaceous amber of northern Myanmar},
       author = {Perrichot, Vincent and Wang, Bo and Barden, Phillip},
       year = {2020},
       journal = {Cretaceous Research},
       publisher = {Academic Press},
       volume = {109},
       pages = {104381}
     }
     

152. Pilkiewicz, K. R., Lemasson, B. H., Rowland, M. A., Hein, A., Sun, J., Berdahl, A., Mayo, M. L., Moehlis, J., Porfiri, M., Fernández-Juricic, E., Garnier, S., Bollt, E. M., Carlson, J. M., Tarampi, M. R., Macuga, K. L., Rossi, L., & Shen, C.-C. (2020). Decoding collective communications using information theory tools. Journal of the Royal Society, Interface / the Royal Society, 17(164), 20190563. https://doi.org/10.1098/rsif.2019.0563
     DOI ABSTRACT

     @article{Pilkiewicz2020el,
       title = {Decoding collective communications using information theory tools},
       author = {Pilkiewicz, K R and Lemasson, B H and Rowland, M A and Hein, A and Sun, J and Berdahl, A and Mayo, M L and Moehlis, J and Porfiri, M and Fern\'{a}ndez-Juricic, E and Garnier, S and Bollt, E M and Carlson, J M and Tarampi, M R and Macuga, K L and Rossi, L and Shen, C-C},
       year = {2020},
       month = mar,
       journal = {Journal of the Royal Society, Interface / the Royal Society},
       volume = {17},
       number = {164},
       pages = {20190563},
       doi = {10.1098/rsif.2019.0563},
       issn = {1742-5689},
       url = {http://dx.doi.org/10.1098/rsif.2019.0563},
       affiliation = {Environmental Laboratory, U.S. Army Engineer Research and Development Center (EL-ERDC), Vicksburg, MS, USA. EL-ERDC, Newport, OR, USA. National Oceanic and Atmospheric Administration, Santa Cruz, CA, USA. University of California, Santa Cruz, CA, USA. Department of Mathematics, Clarkson University, Potsdam, NY, USA. School of Aquatic and Fishery Sciences, University of Washington, Seattle, WA, USA. Department of Mechanical Engineering, University of California, Santa Barbara, CA, USA. Department of Mechanical and Aerospace Engineering and Department of Biomedical Engineering, New York University Tandon School of Engineering, Brooklyn, NY, USA. Department of Biological Sciences, Purdue University, West Lafayette, IN, USA. Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ, USA. Department of Physics, University of California, Santa Barbara, CA, USA. Department of Psychology, University of Hartford, West Hartford, CT, USA. School of Psychological Science, Oregon State University, Corvallis, OR, USA. Department of Mathematical Sciences, University of Delaware, Newark, DE, USA. Department of Computer and Information Sciences, University of Delaware, Newark, DE, USA.},
       file = {All Papers/2020/Pilkiewicz et al. 2020 - Decoding collective communications using information theory tools.pdf;All Papers/2020/Pilkiewicz et al. 2020 - Decoding collective communications using information theory tools.pdf},
       keywords = {causation entropy; collective behaviour; mutual information; transfer entropy},
       pmc = {PMC7115225},
       pmid = {32183638},
       language = {en}
     }
     

     Organisms have evolved sensory mechanisms to extract pertinent information from their environment, enabling them to assess their situation and act accordingly. For social organisms travelling in groups, like the fish in a school or the birds in a flock, sharing information can further improve their situational awareness and reaction times. Data on the benefits and costs of social coordination, however, have largely allowed our understanding of why collective behaviours have evolved to outpace our mechanistic knowledge of how they arise. Recent studies have begun to correct this imbalance through fine-scale analyses of group movement data. One approach that has received renewed attention is the use of information theoretic (IT) tools like mutual information, transfer entropy and causation entropy, which can help identify causal interactions in the type of complex, dynamical patterns often on display when organisms act collectively. Yet, there is a communications gap between studies focused on the ecological constraints and solutions of collective action with those demonstrating the promise of IT tools in this arena. We attempt to bridge this divide through a series of ecologically motivated examples designed to illustrate the benefits and challenges of using IT tools to extract deeper insights into the interaction patterns governing group-level dynamics. We summarize some of the approaches taken thus far to circumvent existing challenges in this area and we conclude with an optimistic, yet cautionary perspective.

153. Pluhacek, M., Garnier, S., & Reina, A. (2025). Decentralised construction of a global coordinate system in a large swarm of minimalistic robots. Swarm Intelligence, 1–28. https://doi.org/10.1007/s11721-025-00251-4
     DOI ABSTRACT

     @article{Pluhacek2025yq,
       title = {Decentralised construction of a global coordinate system in a large swarm of minimalistic robots},
       author = {Pluhacek, Michal and Garnier, Simon and Reina, Andreagiovanni},
       year = {2025},
       month = {18~jul},
       journal = {Swarm intelligence},
       publisher = {Springer Science and Business Media LLC},
       pages = {1--28},
       doi = {10.1007/s11721-025-00251-4},
       issn = {1935-3812,1935-3820},
       url = {http://dx.doi.org/10.1007/s11721-025-00251-4},
       file = {All Papers/2025/Pluhacek et al. 2025 - Decentralised construction of a global coordinate system in a large swarm of minimalistic robots.pdf},
       language = {en}
     }
     

     Abstract Collective intelligence and autonomy of robot swarms can be improved by enabling individual robots to become aware that they are the constituent parts of a larger whole and to identify their role within the swarm. In this study, we present an algorithm to enable positional self-awareness in a swarm of minimalistic, error-prone, stationary robots which can only locally broadcast messages and estimate the distance from their neighbours. Despite being unable to measure the bearing of incoming messages, the robots running our algorithm can calculate their position within a swarm deployed in a regular formation. We show through experiments with up to 200 Kilobot robots that such positional self-awareness can be employed by the robots to create a shared coordinate system and dynamically self-assign location-dependent tasks. Our solution has fewer requirements than state-of-the-art algorithms and includes collective noise-filtering mechanisms. Therefore, it has an extended range of robotic platforms on which it can run. All robots are interchangeable, run the same code, and do not need any prior knowledge. Through our algorithm, robots reach collective synchronisation and autonomously become aware of the swarm’s spatial configuration and their position within it.

154. Porfiri, M., Abaid, N., & Garnier, S. (2024). Socially driven negative feedback regulates activity and energy use in ant colonies. PLoS Computational Biology, 20(11), e1012623. https://doi.org/10.1371/journal.pcbi.1012623
     DOI ABSTRACT

     @article{Porfiri2024cu,
       title = {Socially driven negative feedback regulates activity and energy use in ant colonies},
       author = {Porfiri, Maurizio and Abaid, Nicole and Garnier, Simon},
       year = {2024},
       month = {25~nov},
       journal = {PLoS computational biology},
       publisher = {Public Library of Science (PLoS)},
       volume = {20},
       number = {11},
       pages = {e1012623},
       doi = {10.1371/journal.pcbi.1012623},
       issn = {1553-734X,1553-7358},
       url = {http://dx.doi.org/10.1371/journal.pcbi.1012623},
       file = {All Papers/2024/Porfiri et al. 2024 - Socially driven negative feedback regulates activity and energy use in ant colonies.pdf},
       language = {en}
     }
     

     Despite almost a century of research on energetics in biological systems, we still cannot explain energy regulation in social groups, like ant colonies. How do individuals regulate their collective activity without a centralized control system? What is the role of social interactions in distributing the workload amongst group members? And how does the group save energy by avoiding being constantly active? We offer new insight into these questions by studying an intuitive compartmental model, calibrated with and compared to data on ant colonies. The model describes a previously unexplored balance between positive and negative social feedback driven by individual activity: when activity levels are low, the presence of active individuals stimulates inactive individuals to start working; when activity levels are high, however, active individuals inhibit each other, effectively capping the proportion of active individuals at any one time. Through the analysis of the system stability, we demonstrate that this balance results in energetic spending at the group level growing proportionally slower than the group size. Our finding is reminiscent of Kleiber’s law of metabolic scaling in unitary organisms and highlights the critical role of social interactions in driving the collective energetic efficiency of group-living organisms.

155. Porfiri, M., De Lellis, P., Aung, E., Meneses, S., Abaid, N., Waters, J. S., & Garnier, S. (2024). Reverse social contagion as a mechanism for regulating mass behaviors in highly integrated social systems. PNAS Nexus, gae246. https://doi.org/10.1093/pnasnexus/pgae246
     DOI ABSTRACT

     @article{Porfiri2024zv,
       title = {Reverse social contagion as a mechanism for regulating mass behaviors in highly integrated social systems},
       author = {Porfiri, Maurizio and De Lellis, Pietro and Aung, Eighdi and Meneses, Santiago and Abaid, Nicole and Waters, Jane S and Garnier, Simon},
       year = {2024},
       month = {26~jun},
       journal = {PNAS nexus},
       publisher = {Oxford University Press},
       pages = {gae246},
       doi = {10.1093/pnasnexus/pgae246},
       issn = {2752-6542},
       url = {https://academic.oup.com/pnasnexus/advance-article-pdf/doi/10.1093/pnasnexus/pgae246/58339843/pgae246.pdf},
       file = {All Papers/2024/Porfiri et al. 2024 - Reverse social contagion as a mechanism for regulating mass behaviors in highly integrated social systems.pdf},
       language = {en}
     }
     

     Abstract. Mass behavior is the rapid adoption of similar conduct by all group members, with potentially catastrophic outcomes such as mass panic. Yet, thes

156. Ramon-Mateu, J., Edgar, A., Mitchell, D., & Martindale, M. Q. (2022). Studying Ctenophora WBR Using Mnemiopsis leidyi. In Methods in Molecular Biology (pp. 95–119). Springer US. https://doi.org/10.1007/978-1-0716-2172-1_5
     DOI

     @incollection{Ramon_Mateu_2022,
       title = {Studying Ctenophora {WBR} Using Mnemiopsis leidyi},
       author = {Ramon-Mateu, Julia and Edgar, Allison and Mitchell, Dorothy and Martindale, Mark Q.},
       year = {2022},
       booktitle = {Methods in Molecular Biology},
       publisher = {Springer {US}},
       pages = {95--119},
       doi = {10.1007/978-1-0716-2172-1_5},
       url = {https://doi.org/10.1007%2F978-1-0716-2172-1_5}
     }
     

157. Rocchini, D., Chieffallo, L., Thouverai, E., D’Introno, R., Dagostin, F., Donini, E., Foody, G., Garnier, S., Mazzochini, G. G., Moudry, V., Rudis, B., Simova, P., Torresani, M., & Nowosad, J. (2024). Under the mantra: ‘Make use of colorblind friendly graphs.’ Environmetrics, e2877. https://doi.org/10.1002/env.2877
     DOI ABSTRACT

     @article{Rocchini2024md,
       title = {Under the mantra: `Make use of colorblind friendly graphs'},
       author = {Rocchini, Duccio and Chieffallo, Ludovico and Thouverai, Elisa and D'Introno, Rossella and Dagostin, Francesca and Donini, Emma and Foody, Giles and Garnier, Simon and Mazzochini, Guilherme G and Moudry, Vitezslav and Rudis, Bob and Simova, Petra and Torresani, Michele and Nowosad, Jakub},
       year = {2024},
       month = {20~aug},
       journal = {Environmetrics},
       publisher = {John Wiley \& Sons, Ltd},
       pages = {e2877},
       doi = {10.1002/env.2877},
       issn = {1099-095X,1180-4009},
       url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/env.2877},
       file = {All Papers/2024/Rocchini et al. 2024 - Under the mantra - ‘Make use of colorblind friendly graphs’.pdf},
       keywords = {colorblindness; colors; R software; science dissemination; scientific graphs},
       language = {en}
     }
     

     Colorblindness is a genetic condition that affects a person’s ability to accurately perceive colors. Several papers still exist making use of rainbow colors palette to show output. In such cases, for...

158. Rotstein, H. G., & Nadim, F. (2020). Neurons and neural networks: Computational models. ELS, 1–11.

     @article{rotstein2020neurons,
       title = {Neurons and neural networks: Computational models},
       author = {Rotstein, Horacio G and Nadim, Farzan},
       year = {2020},
       journal = {eLS},
       publisher = {John Wiley \& Sons, Ltd},
       pages = {1--11}
     }
     

159. Rotstein, H. G. G. (2026). Integration between the knowledge diaspora and their country of origin through institutional affiliations: a case study for policy development. Frontiers in Research Metrics and Analytics, Volume 11 - 2026. https://doi.org/10.3389/frma.2026.1852906
     DOI ABSTRACT

     @article{hr20261,
       title = {Integration between the knowledge diaspora and their country of origin through institutional affiliations: a case study for policy development},
       author = {Rotstein, Horacio G. G.},
       year = {2026},
       journal = {Frontiers in Research Metrics and Analytics},
       volume = {Volume 11 - 2026},
       doi = {10.3389/frma.2026.1852906},
       issn = {2504-0537},
       url = {https://www.frontiersin.org/journals/research-metrics-and-analytics/articles/10.3389/frma.2026.1852906}
     }
     

     The knowledge economy is fundamentally driven by human capital, making the “brain drain” phenomenon a critical challenge for national development. Traditionally, policy frameworks have focused on repatriation, circulation or vinculation to address this issue. However, these models often fail to account for more regular and permanent institutional associations between the diaspora of knowledge professionals (KPs) and the science, technology and innovation (STI) institutions of their country of origin (CO). Such associations are increasingly feasibly due to technological advances that render many STI activities independent of geography. This paper advances the notion of KP diaspora integration within the domestic STI institutions of their CO, incorporating a framework focused on structural institutional membership. We provide an in depth analysis and propose a blueprint for policy development aimed at achieving this goal. We use Argentina as a case study for several reasons, including its well-developed STI system, its comparatively large KP diaspora, and its history of KP diaspora organization and interaction with the Argentine STI system. The proposed policy framework opens avenues for the development of specific policies at the institutional level tailored to the unique characteristics, local constraints and goals of each organization. The ideas, core principles, and policy blueprint we present have a broader generality and are applicable mutatis mutandis to other developing countries experiencing the brain drain phenomenon.

160. Rouhana, L., Edgar, A., Hugosson, F., Dountcheva, V., Martindale, M. Q., & Ryan, J. F. (2023). Cytoplasmic polyadenylation is an ancestral hallmark of early development in animals. https://doi.org/10.1101/2023.05.10.540224
     DOI

     @article{Rouhana_2023,
       title = {Cytoplasmic polyadenylation is an ancestral hallmark of early development in animals},
       author = {Rouhana, Labib and Edgar, Allison and Hugosson, Fredrik and Dountcheva, Valeria and Martindale, Mark Q. and Ryan, Joseph F.},
       year = {2023},
       month = may,
       publisher = {Cold Spring Harbor Laboratory},
       doi = {10.1101/2023.05.10.540224},
       url = {http://dx.doi.org/10.1101/2023.05.10.540224}
     }
     

161. Saha, T., Genoud, A. P., Williams, G. M., Russell, G. J., & Thomas, B. P. (2024). Monitoring Mosquito Abundance: Comparing an Optical Sensor with a Trapping Method. Insects, 15(8), 584. https://doi.org/10.3390/insects15080584
     DOI ABSTRACT

     @article{saha2024monitoring,
       title = {Monitoring Mosquito Abundance: Comparing an Optical Sensor with a Trapping Method},
       author = {Saha, Topu and Genoud, Adrien P and Williams, Gregory M and Russell, Gareth J and Thomas, Benjamin P},
       year = {2024},
       journal = {Insects},
       publisher = {MDPI},
       volume = {15},
       number = {8},
       pages = {584},
       doi = {10.3390/insects15080584}
     }
     

     Optical sensors have shown significant promise in offering additional data to track insect populations. This article presents a comparative study between abundance measurements obtained from a novel near-infrared optical sensor and physical traps. The optical instrument, named an Entomological Bistatic Optical Sensor System, or eBoss, is a non-destructive sensor operating in the near-infrared spectral range and designed to continuously monitor the population of flying insects. The research compares the mosquito aerial density (#/m3) obtained through the eBoss with trap counts from eight physical traps during an eight-month field study. The eBoss recorded over 302,000 insect sightings and assessed the aerial density of all airborne insects as well as male and female mosquitoes specifically with a resolution of one minute. This capability allows for monitoring population trends throughout the season as well as daily activity peaks. The results affirmed the correlation between the two methods. While optical instruments do not match traps in terms of taxonomic accuracy, the eBoss offered greater temporal resolution (one minute versus roughly three days) and statistical significance owing to its much larger sample size. These outcomes further indicate that entomological optical sensors can provide valuable complementary data to more common methods to monitor flying insect populations, such as mosquitoes or pollinators.

162. Samson, J. E., Ray, D. D., Porfiri, M., Miller, L. A., & Garnier, S. (2020). Collective Pulsing in Xeniid Corals: Part I-Using Computer Vision and Information Theory to Search for Coordination. Bulletin of Mathematical Biology, 82(7), 90. https://doi.org/10.1007/s11538-020-00759-2
     DOI ABSTRACT

     @article{Samson2020rt,
       title = {Collective Pulsing in Xeniid Corals: Part I-Using Computer Vision and Information Theory to Search for Coordination},
       author = {Samson, Julia E and Ray, Dylan D and Porfiri, Maurizio and Miller, Laura A and Garnier, Simon},
       year = {2020},
       month = {7~jul},
       journal = {Bulletin of mathematical biology},
       volume = {82},
       number = {7},
       pages = {90},
       doi = {10.1007/s11538-020-00759-2},
       issn = {0092-8240,1522-9602},
       url = {http://dx.doi.org/10.1007/s11538-020-00759-2},
       affiliation = {Biology Department, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA. Department of Collective Behaviour, Max Planck Institute of Animal Behavior, Constance, Germany. Chair of Biodiversity and Collective Behaviour, Department of Biology, University of Konstanz, Constance, Germany. Centre for the Advanced Study of Collective Behaviour, University of Konstanz, Constance, Germany. Department of Mathematics, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA. Department of Mechanical and Aerospace Engineering and Department of Biomedical Engineering, New York University, Tandon School of Engineering, Brooklyn, NY, USA. Department of Biological Sciences, New Jersey Institute of Technology, Newark, NJ, USA. garnier\@njit.edu.},
       file = {All Papers/2020/Samson et al. 2020 - Collective Pulsing in Xeniid Corals - Part I-Using Computer Vision and Information Theory to Search for Coordination.pdf},
       keywords = {Collective behavior; Coral; ISOMAP; Pulsing; Transfer entropy},
       pmid = {32638174},
       language = {en}
     }
     

     Xeniid corals (Cnidaria: Alcyonacea), a family of soft corals, include species displaying a characteristic pulsing behavior. This behavior has been shown to increase oxygen diffusion away from the coral tissue, resulting in higher photosynthetic rates from mutualistic symbionts. Maintaining such a pulsing behavior comes at a high energetic cost, and it has been proposed that coordinating the pulse of individual polyps within a colony might enhance the efficiency of fluid transport. In this paper, we test whether patterns of collective pulsing emerge in coral colonies and investigate possible interactions between polyps within a colony. We video recorded different colonies of Heteroxenia sp. in a laboratory environment. Our methodology is based on the systematic integration of a computer vision algorithm (ISOMAP) and an information-theoretic approach (transfer entropy), offering a vantage point to assess coordination in collective pulsing. Perhaps surprisingly, we did not detect any form of collective pulsing behavior in the colonies. Using artificial data sets, however, we do demonstrate that our methodology is capable of detecting even weak information transfer. The lack of a coordination is consistent with previous work on many cnidarians where coordination between actively pulsing polyps and medusa has not been observed. In our companion paper, we show that there is no fluid dynamic benefit of coordinated pulsing, supporting this result. The lack of coordination coupled with no obvious fluid dynamic benefit to grouping suggests that there may be non-fluid mechanical advantages to forming colonies, such as predator avoidance and defense.

163. Sankey, D. W. E., O'Bryan, L. R., Garnier, S., Cowlishaw, G., Hopkins, P., Holton, M., Fürtbauer, I., & King, A. J. (2021). Consensus of travel direction is achieved by simple copying, not voting, in free-ranging goats. Royal Society Open Science, 8(2), 201128. https://doi.org/10.1098/rsos.201128
     DOI ABSTRACT

     @article{Sankey2021jk,
       title = {Consensus of travel direction is achieved by simple copying, not voting, in free-ranging goats},
       author = {Sankey, D W E and O\'Bryan, L R and Garnier, S and Cowlishaw, G and Hopkins, P and Holton, M and F\"{u}rtbauer, I and King, A J},
       year = {2021},
       month = {3~feb},
       journal = {Royal Society open science},
       publisher = {Royal Society},
       volume = {8},
       number = {2},
       pages = {201128},
       doi = {10.1098/rsos.201128},
       issn = {2054-5703},
       url = {http://dx.doi.org/10.1098/rsos.201128},
       affiliation = {Swansea University, Singleton Park, Swansea SA2 8PP, UK. New Jersey Institute of Technology, Newark, NJ 07102, USA. Institute of Zoology, Zoological Society of London, Regent's Park, London NW14RY, UK.},
       file = {All Papers/2021/Sankey et al. 2021 - Consensus of travel direction is achieved by simple copying, not voting, in free-ranging goats.pdf},
       keywords = {collective behaviour; coordination; decision-making; heuristics; rules-of-thumb; self-organization},
       pmc = {PMC8074689},
       pmid = {33972846},
       language = {en}
     }
     

     For group-living animals to remain cohesive they must agree on where to travel. Theoretical models predict shared group decisions should be favoured, and a number of empirical examples support this. However, the behavioural mechanisms that underpin shared decision-making are not fully understood. Groups may achieve consensus of direction by active communication of individual preferences (i.e. voting), or by responding to each other’s orientation and movement (i.e. copying). For example, African buffalo (Syncerus caffer) are reported to use body orientation to vote and indicate their preferred direction to achieve a consensus on travel direction, while golden shiners (Notemigonus crysoleucas) achieve consensus of direction by responding to the movement cues of their neighbours. Here, we present a conceptual model (supported by agent-based simulations) that allows us to distinguish patterns of motion that represent voting or copying. We test our model predictions using high-resolution GPS and magnetometer data collected from a herd of free-ranging goats (Capra aegagrus hircus) in the Namib Desert, Namibia. We find that decisions concerning travel direction were more consistent with individuals copying one another’s motion and find no evidence to support the use of voting with body orientation. Our findings highlight the role of simple behavioural rules for collective decision-making by animal groups.

164. Saro-Cortes, V., Flammang, B., & Wissa, A. (2023). The role of the pelvic fin in flying fish: an experimental study on a bioinspired flying fish. INTEGRATIVE AND COMPARATIVE BIOLOGY, 62, S277–S277.

     @inproceedings{saro2023role,
       title = {The role of the pelvic fin in flying fish: an experimental study on a bioinspired flying fish},
       author = {Saro-Cortes, V and Flammang, B and Wissa, A},
       year = {2023},
       booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
       volume = {62},
       pages = {S277--S277},
       organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
     }
     

165. Saro-Cortes, V., Cui, Y., Dufficy, T., Boctor, A., Flammang, B. E., & Wissa, A. (2022). An adaptable flying fish robotic model for aero-and hydrodynamic experimentation. Integrative and Comparative Biology, 62(5), 1202–1216.

     @article{saro2022adaptable,
       title = {An adaptable flying fish robotic model for aero-and hydrodynamic experimentation},
       author = {Saro-Cortes, Valeria and Cui, Yuhe and Dufficy, Tierney and Boctor, Arsanious and Flammang, Brooke E and Wissa, Aimy},
       year = {2022},
       journal = {Integrative and Comparative Biology},
       publisher = {Oxford University Press},
       volume = {62},
       number = {5},
       pages = {1202--1216}
     }
     

166. Saro-Cortes, V., Cui, Y., Yanez, J., Flammang, B., & Wissa, A. (2023). Experimental study of the effect of caudal fin stiffness on taxi locomotion of a robotic flying fish model. Bulletin of the American Physical Society.

     @article{saro2023experimental,
       title = {Experimental study of the effect of caudal fin stiffness on taxi locomotion of a robotic flying fish model.},
       author = {Saro-Cortes, Valeria and Cui, Yuhe and Yanez, Jose and Flammang, Brooke and Wissa, Aimy},
       year = {2023},
       journal = {Bulletin of the American Physical Society},
       publisher = {American Physical Society}
     }
     

167. Saro-Cortes, V., Flammang, B., & Wissa, A. (2024). Forces of nature: flying fish taxi and takeoff mechanics. INTEGRATIVE AND COMPARATIVE BIOLOGY, 64, S452–S452.

     @inproceedings{saro2024forces,
       title = {Forces of nature: flying fish taxi and takeoff mechanics},
       author = {Saro-Cortes, Valeria and Flammang, Brooke and Wissa, Aimy},
       year = {2024},
       booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
       volume = {64},
       pages = {S452--S452},
       organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
     }
     

168. Saro-Cortes, V., Sedky, G., Ko, H., Flammang, B., & Wissa, A. (2023). Hydrodynamic evaluation of a flying fish robotic model organism: A study on the effects of the caudal fin shape. 2023 IEEE Conference on Control Technology and Applications (CCTA), 670–674.

     @inproceedings{saro2023hydrodynamic,
       title = {Hydrodynamic evaluation of a flying fish robotic model organism: A study on the effects of the caudal fin shape},
       author = {Saro-Cortes, Valeria and Sedky, Girguis and Ko, Hungtang and Flammang, Brooke and Wissa, Aimy},
       year = {2023},
       booktitle = {2023 IEEE Conference on Control Technology and Applications (CCTA)},
       pages = {670--674},
       organization = {IEEE}
     }
     

169. Saro-Cortes, V., Yanez-Salas, J., Cui, Y., Flammang, B., & Wissa, A. (2023). A Flying Fish Robotic Model Organism: Multibody Dynamic Modeling and Experimental Validation. INTEGRATIVE AND COMPARATIVE BIOLOGY, 63, S405–S406.

     @inproceedings{saro2023flying,
       title = {A Flying Fish Robotic Model Organism: Multibody Dynamic Modeling and Experimental Validation},
       author = {Saro-Cortes, Valeria and Yanez-Salas, Jose and Cui, Yuhe and Flammang, Brooke and Wissa, Aimy},
       year = {2023},
       booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
       volume = {63},
       pages = {S405--S406},
       organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
     }
     

170. Sawh, I., Bae, E., Camilo, L., Lanan, M., Lucky, A., Menezes, H. M., Fiorentino, G., Sosiak, C., Khadempour, L., & Barden, P. (2023). The first fossil replete ant worker establishes living food storage in the Eocene. Myrmecological News, 33, 139–147.

     @article{sawh2023first,
       title = {The first fossil replete ant worker establishes living food storage in the Eocene},
       author = {Sawh, Indira and Bae, Eunice and Camilo, Luciana and Lanan, Michele and Lucky, Andrea and Menezes, Henrique Morais and Fiorentino, Gianpiero and Sosiak, Christine and Khadempour, Lily and Barden, Phillip},
       year = {2023},
       journal = {Myrmecological News},
       volume = {33},
       pages = {139--147}
     }
     

171. Schneider, A. C., Fox, D., Itani, O., Golowasch, J., Bucher, D., & Nadim, F. (2021). Frequency-Dependent Action of Neuromodulation [Journal Article]. ENeuro, 8(6). https://doi.org/10.1523/ENEURO.0338-21.2021
     DOI ABSTRACT

     @article{RN3862,
       title = {Frequency-Dependent Action of Neuromodulation},
       author = {Schneider, A. C. and Fox, D. and Itani, O. and Golowasch, J. and Bucher, D. and Nadim, F.},
       year = {2021},
       journal = {eNeuro},
       publisher = {Society for Neuroscience},
       volume = {8},
       number = {6},
       doi = {10.1523/ENEURO.0338-21.2021},
       issn = {2373-2822 (Electronic) 2373-2822 (Linking)},
       url = {https://www.ncbi.nlm.nih.gov/pubmed/34593519 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8584230/pdf/ENEURO.0338-21.2021.pdf},
       note = {Schneider, Anna C Fox, David Itani, Omar Golowasch, Jorge Bucher, Dirk Nadim, Farzan eng R01 MH060605/MH/NIMH NIH HHS/ eNeuro. 2021 Nov 9;8(6). pii: ENEURO.0338-21.2021. doi: 10.1523/ENEURO.0338-21.2021. Print 2021 Nov-Dec.},
       keywords = {calcium central pattern generator modeling neuromodulation stomatogastric},
       type = {Journal Article}
     }
     

     In oscillatory circuits, some actions of neuromodulators depend on the oscillation frequency. However, the mechanisms are poorly understood. We explored this problem by characterizing neuromodulation of the lateral pyloric (LP) neuron of the crab stomatogastric ganglion (STG). Many peptide modulators, including proctolin, activate the same ionic current (I MI) in STG neurons. Because I MI is fast and non-inactivating, its peak level does not depend on the temporal properties of neuronal activity. We found, however, that the amplitude and peak time of the proctolin-activated current in LP is frequency dependent. Because frequency affects the rate of voltage change, we measured these currents with voltage ramps of different slopes and found that proctolin activated two kinetically distinct ionic currents: the known I MI, whose amplitude is independent of ramp slope or direction, and an inactivating current (I MI-T), which was only activated by positive ramps and whose amplitude increased with increasing ramp slope. Using a conductance-based model we found that I MI and I MI-T make distinct contributions to the bursting activity, with I MI increasing the excitability, and I MI-T regulating the burst onset by modifying the postinhibitory rebound in a frequency-dependent manner. The voltage dependence and partial calcium permeability of I MI-T is similar to other characterized neuromodulator-activated currents in this system, suggesting that these are isoforms of the same channel. Our computational model suggests that calcium permeability may allow this current to also activate the large calcium-dependent potassium current in LP, providing an additional mechanism to regulate burst termination. These results demonstrate a mechanism for frequency-dependent actions of neuromodulators.

172. Schneider, A. C., Itani, O., Bucher, D., & Nadim, F. (2022). Neuromodulation reduces interindividual variability of neuronal output [Journal Article]. ENeuro, 9(4). https://doi.org/10.1523/ENEURO.0166-22.2022
     DOI ABSTRACT

     @article{RN3991,
       title = {Neuromodulation reduces interindividual variability of neuronal output},
       author = {Schneider, A. C. and Itani, O. and Bucher, D. and Nadim, F.},
       year = {2022},
       journal = {eNeuro},
       publisher = {Society for Neuroscience},
       volume = {9},
       number = {4},
       doi = {10.1523/ENEURO.0166-22.2022},
       issn = {2373-2822 (Electronic) 2373-2822 (Linking)},
       url = {https://www.ncbi.nlm.nih.gov/pubmed/35853725 https://www.eneuro.org/content/eneuro/9/4/ENEURO.0166-22.2022.full.pdf},
       note = {Schneider, Anna C Itani, Omar Bucher, Dirk Nadim, Farzan eng R01 MH060605/MH/NIMH NIH HHS/ eNeuro. 2022 Jul 18;9(4):ENEURO.0166-22.2022. doi: 10.1523/ENEURO.0166-22.2022.},
       keywords = {Bursting Neuron Central Pattern Generator Stomatogastric Variability},
       type = {Journal Article}
     }
     

     In similar states, neural circuits produce similar outputs across individuals despite substantial interindividual variability in neuronal ionic conductances and synapses. Circuit states are largely shaped by neuromodulators that tune ionic conductances. It is therefore possible that, in addition to producing flexible circuit output, neuromodulators also contribute to output similarity despite varying ion channel expression. We studied whether neuromodulation at saturating concentrations can increase the output similarity of a single identified neuron across individual animals. Using the LP neuron of the crab stomatogastric ganglion (STG), we compared the variability of f-I curves and rebound properties in the presence of neuropeptides. The two neuropeptides we used converge to activate the same target current, which increases neuronal excitability. Output variability was lower in the presence of the neuropeptides, regardless of whether the neuropeptides significantly changed the mean of the corresponding parameter or not. However, the addition of the second neuropeptide did not add further to the reduction of variability. With a family of computational LP-like models, we explored how increased excitability and target variability contribute to output similarity and found two mechanisms: Saturation of the responses and a differential increase in baseline activity. Saturation alone can reduce the interindividual variability only if the population shares a similar ceiling for the responses. In contrast, reduction of variability due to the increase in baseline activity is independent of ceiling effects.Significance StatementThe activity of single neurons and neural circuits can be very similar across individuals even though the ionic currents underlying activity are variable. The mechanisms that compensate for the underlying variability and promote output similarity are poorly understood but may involve neuromodulation. Using an identified neuron, we show that neuropeptide modulation of excitability can reduce interindividual variability of response properties at a single-neuron level in two ways. First, the neuropeptide increases baseline excitability in a differential manner, resulting in similar response thresholds. Second, the neuropeptide increases excitability towards a shared saturation level, promoting similar maximal firing rates across individuals. Such tuning of neuronal excitability could be an important mechanism compensating for interindividual variability of ion channel expression.

173. Schneider, A. C., Cronin, E., Daur, N., Bucher, D., & Nadim, F. (2024). Convergent comodulation reduces interindividual variability of circuit output [Journal Article]. Eneuro, 11(9), ENEURO.0167–0124.2024. https://doi.org/10.1523/eneuro.0167-24.2024
     DOI ABSTRACT

     @article{schneider2024convergent,
       title = {Convergent comodulation reduces interindividual variability of circuit output},
       author = {Schneider, Anna C and Cronin, Elizabeth and Daur, Nelly and Bucher, Dirk and Nadim, Farzan},
       year = {2024},
       journal = {Eneuro},
       publisher = {Society for Neuroscience},
       volume = {11},
       number = {9},
       pages = {ENEURO.0167--24.2024},
       doi = {10.1523/eneuro.0167-24.2024},
       url = {https://www.eneuro.org/content/eneuro/11/9/ENEURO.0167-24.2024.full.pdf},
       type = {Journal Article}
     }
     

     Ionic current levels of identified neurons vary substantially across individual animals. Yet, under similar conditions, neural circuit output can be remarkably similar, as evidenced in many motor systems. All neural circuits are influenced by multiple neuromodulators, which provide flexibility to their output. These neuromodulators often overlap in their actions by modulating the same channel type or synapse, yet have neuron-specific actions resulting from distinct receptor expression. Because of this different receptor expression pattern, in the presence of multiple convergent neuromodulators, a common downstream target would be activated more uniformly in circuit neurons across individuals. We therefore propose that a baseline tonic (non-saturating) level of comodulation by convergent neuromodulators can reduce interindividual variability of circuit output. We tested this hypothesis in the pyloric circuit of the crab, Cancer borealis. Multiple excitatory neuropeptides converge to activate the same voltage-gated current in this circuit, but different subsets of pyloric neurons have receptors for each peptide. We quantified the interindividual variability of the unmodulated pyloric circuit output by measuring the activity phases, cycle frequency, and intraburst spike number and frequency. We then examined the variability in the presence of different combinations and concentrations of three neuropeptides. We found that at mid-level concentration (30\hspace0.25emnM) but not at near-threshold (1\hspace0.25emnM) or saturating (1\hspace0.25em\mathrmμM) concentrations, comodulation by multiple neuropeptides reduced the circuit output variability. Notably, the interindividual variability of response properties of an isolated neuron was not reduced by comodulation, suggesting that the reduction of output variability may emerge as a network effect.

174. Schwaner, M. J., Deming, S., Kmec, J. A., & Flammang, B. E. (2020). Parenting Through Academia as a SICB member. Integrative and Comparative Biology, 60(3), 549–558.

     @article{schwaner2020parenting,
       title = {Parenting Through Academia as a SICB member},
       author = {Schwaner, M Janneke and Deming, Sarah and Kmec, Julie A and Flammang, Brooke E},
       year = {2020},
       journal = {Integrative and comparative biology},
       publisher = {Oxford University Press},
       volume = {60},
       number = {3},
       pages = {549--558}
     }
     

175. Schwaner, M. J., Hsieh, S. T., Braasch, I., Bradley, S., Campos, C. B., Collins, C. E., Donatelli, C. M., Fish, F. E., Fitch, O. E., Flammang, B. E., & others. (2021). Future tail tales: A forward-looking, integrative perspective on tail research. Integrative and Comparative Biology, 61(2), 521–537.

     @article{schwaner2021future,
       title = {Future tail tales: A forward-looking, integrative perspective on tail research},
       author = {Schwaner, MJ and Hsieh, ST and Braasch, I and Bradley, S and Campos, CB and Collins, CE and Donatelli, Cassandra M and Fish, FE and Fitch, OE and Flammang, BE and others},
       year = {2021},
       journal = {Integrative and Comparative Biology},
       publisher = {Oxford University Press},
       volume = {61},
       number = {2},
       pages = {521--537}
     }
     

176. Seth, D., Lauder, G., Flammang, B. E., & Tangorra, J. L. (2020). Fish Fin Compliance: A Perturbation Technique to Determine Compliance During Free Swimming. INTEGRATIVE AND COMPARATIVE BIOLOGY, 60, E211–E211.

     @inproceedings{seth2020fish,
       title = {Fish Fin Compliance: A Perturbation Technique to Determine Compliance During Free Swimming},
       author = {Seth, D and Lauder, G and Flammang, BE and Tangorra, JL},
       year = {2020},
       booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
       volume = {60},
       pages = {E211--E211},
       organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
     }
     

177. Soares, D., Gallman, K., Bichuette, M. E., & Fortune, E. S. (2023). Adaptive shift of active electroreception in weakly electric fish for troglobitic life. Frontiers in Ecology and Evolution, 11, 1180506.

     @article{soares2023adaptive,
       title = {Adaptive shift of active electroreception in weakly electric fish for troglobitic life},
       author = {Soares, Daphne and Gallman, Kathryn and Bichuette, Maria Elina and Fortune, Eric S},
       year = {2023},
       journal = {Frontiers in Ecology and Evolution},
       publisher = {Frontiers Media SA},
       volume = {11},
       pages = {1180506}
     }
     

178. Sosiak, C., Cockx, P., Suarez, P. A., McKellar, R., & Barden, P. (2024). Prolonged faunal turnover in earliest ants revealed by North American Cretaceous amber. Current Biology, 34(8), 1755–1761.

     @article{sosiak2024prolonged,
       title = {Prolonged faunal turnover in earliest ants revealed by North American Cretaceous amber},
       author = {Sosiak, Christine and Cockx, Pierre and Suarez, Pablo Aragon{\'e}s and McKellar, Ryan and Barden, Phillip},
       year = {2024},
       journal = {Current Biology},
       publisher = {Elsevier},
       volume = {34},
       number = {8},
       pages = {1755--1761}
     }
     

179. Sosiak, C., Janovitz, T., Perrichot, V., Timonera, J. P., & Barden, P. (2023). Trait-based paleontological niche prediction recovers extinct ecological breadth of the earliest specialized ant predators. The American Naturalist.

     @article{sosiak2023trait,
       title = {Trait-based paleontological niche prediction recovers extinct ecological breadth of the earliest specialized ant predators},
       author = {Sosiak, Christine and Janovitz, Tyler and Perrichot, Vincent and Timonera, John Paul and Barden, Phillip},
       year = {2023},
       journal = {The American Naturalist}
     }
     

180. Sosiak, C. E., & Barden, P. (2021). Multidimensional trait morphology predicts ecology across ant lineages. Functional Ecology, 35(1), 139–152.

     @article{sosiak2021multidimensional,
       title = {Multidimensional trait morphology predicts ecology across ant lineages},
       author = {Sosiak, Christine E and Barden, Phillip},
       year = {2021},
       journal = {Functional Ecology},
       volume = {35},
       number = {1},
       pages = {139--152}
     }
     

181. Sosiak, C. E., Borowiec, M. L., & Barden, P. (2023). Retraction: An Eocene army ant. The Royal Society.

     @misc{sosiak2023retraction,
       title = {Retraction: An Eocene army ant},
       author = {Sosiak, Christine E and Borowiec, Marek L and Barden, Phillip},
       year = {2023},
       publisher = {The Royal Society}
     }
     

182. Sosiak, C. E., Borowiec, M. L., & Barden, P. (2023). An Invited Reply to: A Comment on: An Eocene army ant (2022) by Sosiak CE et al. Biology Letters, 19(4), 20230140.

     @article{sosiak2023invited,
       title = {An Invited Reply to: A Comment on: An Eocene army ant (2022) by Sosiak CE et al.},
       author = {Sosiak, Christine E and Borowiec, Marek L and Barden, Phillip},
       year = {2023},
       journal = {Biology Letters},
       publisher = {The Royal Society},
       volume = {19},
       number = {4},
       pages = {20230140}
     }
     

183. Sosiak, C. E., Borowiec, M. L., & Barden, P. (2022). RETRACTED: An Eocene army ant. Biology Letters, 18(11), 20220398.

     @article{sosiak2022retracted,
       title = {RETRACTED: An Eocene army ant},
       author = {Sosiak, Christine E and Borowiec, Marek L and Barden, Phillip},
       year = {2022},
       journal = {Biology Letters},
       publisher = {The Royal Society},
       volume = {18},
       number = {11},
       pages = {20220398}
     }
     

184. Tai, X., Anderegg, W. R. L., Blanken, P. D., Burns, S. P., Christensen, L., & Brooks, P. D. (2020). Hillslope hydrology influences the spatial and temporal patterns of remotely sensed ecosystem productivity [Journal Article]. Water Resources Research, 56(11), e2020WR027630.

     @article{RN757,
       title = {Hillslope hydrology influences the spatial and temporal patterns of remotely sensed ecosystem productivity},
       author = {Tai, Xiaonan and Anderegg, William RL and Blanken, Peter D and Burns, Sean P and Christensen, Lindsey and Brooks, Paul D},
       year = {2020},
       journal = {Water Resources Research},
       volume = {56},
       number = {11},
       pages = {e2020WR027630},
       issn = {0043-1397},
       type = {Journal Article}
     }
     

185. Tai, X., Trugman, A. T., & Anderegg, W. R. L. (2023). Linking remotely sensed ecosystem resilience with forest mortality across the continental United States [Journal Article]. Global Change Biology, 29(4), 1096–1105.

     @article{RN1021,
       title = {Linking remotely sensed ecosystem resilience with forest mortality across the continental United States},
       author = {Tai, Xiaonan and Trugman, Anna T and Anderegg, William RL},
       year = {2023},
       journal = {Global Change Biology},
       volume = {29},
       number = {4},
       pages = {1096--1105},
       issn = {1354-1013},
       type = {Journal Article}
     }
     

186. Tai, X., Venturas, M. D., Mackay, D. S., Brooks, P. D., & Flanagan, L. B. (2021). Lateral subsurface flow modulates forest mortality risk to future climate and elevated CO2 [Journal Article]. Environmental Research Letters, 16(8), 084015. https://doi.org/10.1088/1748-9326/ac1135
     DOI

     @article{RN764,
       title = {Lateral subsurface flow modulates forest mortality risk to future climate and elevated CO2},
       author = {Tai, Xiaonan and Venturas, Martin D. and Mackay, D. Scott and Brooks, Paul D. and Flanagan, Lawrence B.},
       year = {2021},
       journal = {Environmental Research Letters},
       volume = {16},
       number = {8},
       pages = {084015},
       doi = {10.1088/1748-9326/ac1135},
       issn = {1748-9326},
       url = {http://dx.doi.org/10.1088/1748-9326/ac1135},
       type = {Journal Article}
     }
     

187. Tanvir, Z., Rivera, D., Severi, K. E., Haspel, G., & Soares, D. (2021). Evolutionary and homeostatic changes in morphology of visual dendrites of Mauthner cells in Astyanax blind cavefish. Journal of Comparative Neurology, 529(8), 1779–1786.

     @article{tanvir2021evolutionary,
       title = {Evolutionary and homeostatic changes in morphology of visual dendrites of Mauthner cells in Astyanax blind cavefish},
       author = {Tanvir, Zainab and Rivera, Daihana and Severi, Kristen E and Haspel, Gal and Soares, Daphne},
       year = {2021},
       journal = {Journal of Comparative Neurology},
       publisher = {John Wiley \& Sons, Inc. Hoboken, USA},
       volume = {529},
       number = {8},
       pages = {1779--1786}
     }
     

188. Thomas, A., Kolb, T., Biederman, J., Venturas, M. D., Ma, Q., Yang, D., Dore, S., & Tai, X. (2024). Mitigating drought mortality by incorporating topography into variable forest thinning strategies [Journal Article]. Environmental Research Letters, 19(3), 034035.

     @article{RN952,
       title = {Mitigating drought mortality by incorporating topography into variable forest thinning strategies},
       author = {Thomas, Anooja and Kolb, Thomas and Biederman, Joel and Venturas, Martin D and Ma, Qin and Yang, Di and Dore, Sabina and Tai, Xiaonan},
       year = {2024},
       journal = {Environmental Research Letters},
       volume = {19},
       number = {3},
       pages = {034035},
       issn = {1748-9326},
       type = {Journal Article}
     }
     

189. Tribull, C. M., Barden, P., & Olmi, M. (2020). Hybristodryinus moutesoe (Hymenoptera, Dryinidae), a new species from mid-Cretaceous Kachin (Burmese) amber. Cretaceous Research, 114, 104528.

     @article{tribull2020hybristodryinus,
       title = {Hybristodryinus moutesoe (Hymenoptera, Dryinidae), a new species from mid-Cretaceous Kachin (Burmese) amber},
       author = {Tribull, Carly Melissa and Barden, Phillip and Olmi, Massimo},
       year = {2020},
       journal = {Cretaceous Research},
       publisher = {Academic Press},
       volume = {114},
       pages = {104528}
     }
     

190. Uyanik, I., Sefati, S., Stamper, S. A., Cho, K.-A., Ankarali, M. M., Fortune, E. S., & Cowan, N. J. (2020). Variability in locomotor dynamics reveals the critical role of feedback in task control. Elife, 9, e51219.

     @article{uyanik2020variability,
       title = {Variability in locomotor dynamics reveals the critical role of feedback in task control},
       author = {Uyanik, Ismail and Sefati, Shahin and Stamper, Sarah A and Cho, Kyoung-A and Ankarali, M Mert and Fortune, Eric S and Cowan, Noah J},
       year = {2020},
       journal = {Elife},
       publisher = {eLife Sciences Publications, Ltd},
       volume = {9},
       pages = {e51219}
     }
     

191. Uyanık, İ., Cowan, N. J., & Fortune, E. S. (2020). Toward understanding neural mechanisms of active sensing in weakly electric fish. Anatomy: International Journal of Experimental & Clinical Anatomy, 14.

     @article{uyanik2020toward,
       title = {Toward understanding neural mechanisms of active sensing in weakly electric fish.},
       author = {Uyan{\i}k, {\.I}smail and Cowan, Noah J and Fortune, Eric S},
       year = {2020},
       journal = {Anatomy: International Journal of Experimental \& Clinical Anatomy},
       volume = {14}
     }
     

192. Vargas, A. M., DeBiasse, M. B., Dykes, L. L., Edgar, A., Hayes, T. D., Groso, D. J., Babonis, L. S., Martindale, M. Q., & Ryan, J. F. (2024). Morphological and dietary changes encoded in the genome of Beroe ovata, a ctenophore-eating ctenophore. NAR Genomics and Bioinformatics, 6(2). https://doi.org/10.1093/nargab/lqae072
     DOI

     @article{Vargas_2024,
       title = {Morphological and dietary changes encoded in the genome of Beroe ovata, a ctenophore-eating ctenophore},
       author = {Vargas, Alexandra~M and DeBiasse, Melissa~B and Dykes, Lana~L and Edgar, Allison and Hayes, T~Danielle and Groso, Daniel~J and Babonis, Leslie~S and Martindale, Mark~Q and Ryan, Joseph~F},
       year = {2024},
       month = apr,
       journal = {NAR Genomics and Bioinformatics},
       publisher = {Oxford University Press (OUP)},
       volume = {6},
       number = {2},
       doi = {10.1093/nargab/lqae072},
       issn = {2631-9268},
       url = {http://dx.doi.org/10.1093/nargab/lqae072}
     }
     

193. Vida, T., Calamari, Z. T., & Barden, P. (2025). Post K-Pg rise in ant and termite prevalence underlies convergent dietary specialization in mammals. Evolution, qpaf121.

     @article{vida2025post,
       title = {Post K-Pg rise in ant and termite prevalence underlies convergent dietary specialization in mammals},
       author = {Vida, Thomas and Calamari, Zachary T and Barden, Phillip},
       year = {2025},
       journal = {Evolution},
       publisher = {Oxford University Press},
       pages = {qpaf121}
     }
     

194. Walsh, J. T., Garnier, S., & Linksvayer, T. A. (2020). Ant Collective Behavior Is Heritable and Shaped by Selection. The American Naturalist, 196(5), 541–554. https://doi.org/10.1086/710709
     DOI ABSTRACT

     @article{Walsh2020xv,
       title = {Ant Collective Behavior Is Heritable and Shaped by Selection},
       author = {Walsh, Justin T and Garnier, Simon and Linksvayer, Timothy A},
       year = {2020},
       month = nov,
       journal = {The American naturalist},
       volume = {196},
       number = {5},
       pages = {541--554},
       doi = {10.1086/710709},
       issn = {0003-0147,1537-5323},
       url = {http://dx.doi.org/10.1086/710709},
       file = {All Papers/2020/Walsh et al. 2020 - Ant Collective Behavior Is Heritable and Shaped by Selection.pdf},
       keywords = {animal personality; caste ratio; collective behavior; genetic correlation; heritability; selection},
       pmid = {33064586},
       language = {en}
     }
     

     AbstractCollective behaviors are widespread in nature and usually assumed to be strongly shaped by natural selection. However, the degree to which variation in collective behavior is heritable and has fitness consequences-the two prerequisites for evolution by natural selection-is largely unknown. We used a new pharaoh ant (Monomorium pharaonis) mapping population to estimate the heritability, genetic correlations, and fitness consequences of three collective behaviors (foraging, aggression, and exploration), as well as of body size, sex ratio, and caste ratio. Heritability estimates for the collective behaviors were moderate, ranging from 0.17 to 0.32, but lower than our estimates for the heritability of caste ratio, sex ratio, and body size of new workers, queens, and males. Moreover, variation in collective behaviors among colonies was phenotypically correlated, suggesting that selection may shape multiple colony collective behaviors simultaneously. Finally, we found evidence for directional selection that was similar in strength to estimates of selection in natural populations. Altogether, our study begins to elucidate the genetic architecture of collective behavior and is one of the first studies to demonstrate that it is shaped by selection.

195. Wang, L., Israel, J. W., Edgar, A., Raff, R. A., Raff, E. C., Byrne, M., & Wray, G. A. (2020). Genetic basis for divergence in developmental gene expression in two closely related sea urchins. Nature Ecology & Evolution, 4(6), 831–840. https://doi.org/10.1038/s41559-020-1165-y
     DOI

     @article{Wang_2020,
       title = {Genetic basis for divergence in developmental gene expression in two closely related sea urchins},
       author = {Wang, Lingyu and Israel, Jennifer W. and Edgar, Allison and Raff, Rudolf A. and Raff, Elizabeth C. and Byrne, Maria and Wray, Gregory A.},
       year = {2020},
       month = apr,
       journal = {Nature Ecology {\&} Evolution},
       publisher = {Springer Science and Business Media {LLC}},
       volume = {4},
       number = {6},
       pages = {831--840},
       doi = {10.1038/s41559-020-1165-y},
       url = {https://doi.org/10.1038%2Fs41559-020-1165-y}
     }
     

196. Washburn, S., Oñate, M., Yoshida, J., Vera, J., Bhuvanasundaram, R., Khatami, L., Nadim, F., & Khodakhah, K. (2024). The cerebellum directly modulates the substantia nigra dopaminergic activity. Nature Neuroscience, 27(3), 497–513.

     @article{washburn2024cerebellum,
       title = {The cerebellum directly modulates the substantia nigra dopaminergic activity},
       author = {Washburn, Samantha and O{\~n}ate, Maritza and Yoshida, Junichi and Vera, Jorge and Bhuvanasundaram, Ramakrishnan and Khatami, Leila and Nadim, Farzan and Khodakhah, Kamran},
       year = {2024},
       journal = {Nature neuroscience},
       publisher = {Nature Publishing Group US New York},
       volume = {27},
       number = {3},
       pages = {497--513}
     }
     

197. Webber-Schultz, A. C., Amplo, H. E., Crawford, C. H., & Flammang, B. E. (2023). Comparativemorphology of extant remora soft tissues. INTEGRATIVE AND COMPARATIVE BIOLOGY, 62, S326–S326.

     @inproceedings{webber2023comparativemorphology,
       title = {Comparativemorphology of extant remora soft tissues},
       author = {Webber-Schultz, AC and Amplo, HE and Crawford, CH and Flammang, BE},
       year = {2023},
       booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
       volume = {62},
       pages = {S326--S326},
       organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
     }
     

198. Webber-Schultz, A., Flammang, B., & Gamel, K. (2024). Shark Tales: Comparative Caudal Fin Diversity of Dermal Denticles. INTEGRATIVE AND COMPARATIVE BIOLOGY, 64, S546–S546.

     @inproceedings{webber2024shark,
       title = {Shark Tales: Comparative Caudal Fin Diversity of Dermal Denticles},
       author = {Webber-Schultz, Amani and Flammang, Brooke and Gamel, Kaelyn},
       year = {2024},
       booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
       volume = {64},
       pages = {S546--S546},
       organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
     }
     

199. Webber-Schultz, A., Flammang, B., Hall, K., & Simonitis, L. (2025). Who nose what flows: Shark narial denticle morphology and hydrodynamic implications. Integrative And Comparative Biology, icaf104.

     @article{webber2025nose,
       title = {Who nose what flows: Shark narial denticle morphology and hydrodynamic implications},
       author = {Webber-Schultz, Amani and Flammang, Brooke and Hall, Kayla and Simonitis, Lauren},
       year = {2025},
       journal = {Integrative And Comparative Biology},
       publisher = {Oxford University Press},
       pages = {icaf104}
     }
     

200. Webber-Schultz, A., Flammang, B., Hall, K., & Simonitis, L. E. (2024). Picking the Nose: investigating dermal denticle orientation at the nares of sharks. American Geophysical Union, Ocean Sciences Meeting, 1694, PI24B–1694.

     @inproceedings{webber2024picking,
       title = {Picking the Nose: investigating dermal denticle orientation at the nares of sharks},
       author = {Webber-Schultz, Amani and Flammang, Brooke and Hall, Kayla and Simonitis, Lauren Eve},
       year = {2024},
       booktitle = {American Geophysical Union, Ocean Sciences Meeting},
       number = {1694},
       pages = {PI24B--1694}
     }
     

201. Webber-Schultz, A., Hall, K., Ajavon, A., Summers, A., Flammang, B., & Simonitis, L. (2023). Who nosewhat flows: dermal denticlemorphology and narial flow. INTEGRATIVE AND COMPARATIVE BIOLOGY, 63, S489–S489.

     @inproceedings{webber2023nosewhat,
       title = {Who nosewhat flows: dermal denticlemorphology and narial flow},
       author = {Webber-Schultz, Amani and Hall, Kayla and Ajavon, Ayi and Summers, Adam and Flammang, Brooke and Simonitis, Lauren},
       year = {2023},
       booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
       volume = {63},
       pages = {S489--S489},
       organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
     }
     

202. Wilson, M., Barden, P., & Ware, J. (2021). A review of ectoparasitic fungi associated with termites. Annals of the Entomological Society of America, 114(4), 373–396.

     @article{wilson2021review,
       title = {A review of ectoparasitic fungi associated with termites},
       author = {Wilson, Megan and Barden, Phillip and Ware, Jessica},
       year = {2021},
       journal = {Annals of the Entomological Society of America},
       publisher = {Oxford University Press US},
       volume = {114},
       number = {4},
       pages = {373--396}
     }
     

203. Wilson, M. M., Emam, A., Davis, S. R., Hall, G., Barden, P., & Ware, J. L. (2023). Description of a novel termite ectoparasite, Termitaria hexasporodochia sp. nov.(Kathistaceae), presenting an unusual six-sectioned infestation, and a key to the fungal family Kathistaceae. Phytotaxa, 591(2), 106–124.

     @article{wilson2023description,
       title = {Description of a novel termite ectoparasite, Termitaria hexasporodochia sp. nov.(Kathistaceae), presenting an unusual six-sectioned infestation, and a key to the fungal family Kathistaceae},
       author = {Wilson, Megan M and Emam, Amany and Davis, Steven R and Hall, Gene and Barden, Phillip and Ware, Jessica L},
       year = {2023},
       journal = {Phytotaxa},
       volume = {591},
       number = {2},
       pages = {106--124}
     }
     

204. Wiśniewska, M., O’Connell-Rodwell, C. E., Kilian, J. W., Garnier, S., & Russell, G. J. (2025). Interplay of physical and social drivers of movement in male African savanna elephants. Behavioral Ecology, 36(1), arae091. https://doi.org/10.1093/beheco/arae091
     DOI ABSTRACT

     @article{wisniewska2025interplay,
       title = {Interplay of physical and social drivers of movement in male African savanna elephants},
       author = {Wi{\'s}niewska, Maggie and O'Connell-Rodwell, Caitlin E and Kilian, J Werner and Garnier, Simon and Russell, Gareth J},
       year = {2025},
       journal = {Behavioral Ecology},
       publisher = {Oxford University Press UK},
       volume = {36},
       number = {1},
       pages = {arae091},
       doi = {10.1093/beheco/arae091}
     }
     

     Despite extensive research into the behavioral ecology of free-ranging animal groups, questions remain about how group members integrate information about their physical and social surroundings. This is because (1) tracking of multiple group members is limited to a few easily manageable species and (2) the tools to simultaneously quantify physical and social influences on an individual’s movement remain challenging, especially across large geographic scales. A relevant example of a widely ranging species with complex social structure and of conservation concern is the African savanna elephant. We evaluate highly synchronized GPS tracks from 5 male elephants in Etosha National Park in Namibia by incorporating their dynamic social landscape into an established resource selection model. The fitted model predicts movement patterns based simultaneously on the physical landscape (e.g. repeated visitation of waterholes) and the social landscape (e.g. avoidance of a dominant male). Combining the fitted models for multiple focal individuals produces landscape-dependent social networks that vary over space (e.g. with distance from a waterhole) and time (e.g. as the seasons change). The networks, especially around waterholes, are consistent with dominance patterns determined from previous behavioral studies. Models that combine physical landscape and social effects, based on remote tracking, can augment traditional methods for determining social structure from intensive behavioral observations. More broadly, these models will be essential to effective, in-situ conservation and management of wide-ranging social species in the face of anthropogenic disruptions to their physical surroundings and social connections.

205. Wiśniewska, M., Puga-Gonzalez, I., Lee, P., Moss, C., Russell, G., Garnier, S., & Sueur, C. (2022). Simulated poaching affects global connectivity and efficiency in social networks of African savanna elephants–An exemplar of how human disturbance impacts group-living species. PLoS Computational Biology, 18(1), e1009792. https://doi.org/10.1371/journal.pcbi.1009792
     DOI ABSTRACT

     @article{wisniewska2022simulated,
       title = {Simulated poaching affects global connectivity and efficiency in social networks of African savanna elephants--An exemplar of how human disturbance impacts group-living species},
       author = {Wi{\'s}niewska, Maggie and Puga-Gonzalez, Ivan and Lee, Phyllis and Moss, Cynthia and Russell, Gareth and Garnier, Simon and Sueur, C{\'e}dric},
       year = {2022},
       month = jan,
       journal = {PLoS computational biology},
       publisher = {Public Library of Science San Francisco, CA USA},
       volume = {18},
       number = {1},
       pages = {e1009792},
       doi = {10.1371/journal.pcbi.1009792},
       issn = {1553-734X,1553-7358},
       url = {http://dx.doi.org/10.1371/journal.pcbi.1009792},
       affiliation = {Department of Biological Sciences, New Jersey Institute of Technology, Newark, New Jersey, United States of America. Institutt for global utvikling og samfunnsplanlegging, Universitetet i Agder, Kristiansand, Norway. Center for Modeling Social Systems at NORCE, Kristiansand, Norway. Amboseli Trust for Elephants, Nairobi, Kenya. Faculty of Natural Science, University of Stirling, Stirling, United Kingdom. Universit\'{e} de Strasbourg, CNRS, IPHC, UMR 7178, Strasbourg, France. Institut Universitaire de France, Paris, France.},
       file = {All Papers/2022/Wiśniewska et al. 2022 - Simulated poaching affects global connectivity ... nts-An exemplar of how human disturbance impacts group-living species.pdf},
       pmc = {PMC8797174},
       pmid = {35041648},
       language = {en}
     }
     

     Selective harvest, such as poaching, impacts group-living animals directly through mortality of individuals with desirable traits, and indirectly by altering the structure of their social networks. Understanding the relationship between disturbance-induced, structural network changes and group performance in wild animals remains an outstanding problem. To address this problem, we evaluated the immediate effect of disturbance on group sociality in African savanna elephants–an example, group-living species threatened by poaching. Drawing on static association data from ten free-ranging groups, we constructed one empirically based, population-wide network and 100 virtual networks; performed a series of experiments ‘poaching’ the oldest, socially central or random individuals; and quantified the immediate change in the theoretical indices of network connectivity and efficiency of social diffusion. Although the social networks never broke down, targeted elimination of the socially central conspecifics, regardless of age, decreased network connectivity and efficiency. These findings hint at the need to further study resilience by modeling network reorganization and interaction-mediated socioecological learning, empirical data permitting. The main contribution of our work is in quantifying connectivity together with global efficiency in multiple social networks that feature the sociodemographic diversity likely found in wild elephant populations. The basic design of our simulation makes it adaptable for hypothesis testing about the consequences of anthropogenic disturbance or lethal management on social interactions in a variety of group-living species with limited, real-world data.

206. Yanez-Salas, J., Saro-Cortes, V., Cui, Y., Flammang, B., & Wissa, A. (2023). A Flying Fish Robotic Model Organism: Design, Fabrication and Experimental Evaluation. INTEGRATIVE AND COMPARATIVE BIOLOGY, 63, S512–S512.

     @inproceedings{yanez2023flying,
       title = {A Flying Fish Robotic Model Organism: Design, Fabrication and Experimental Evaluation},
       author = {Yanez-Salas, Jose and Saro-Cortes, Valeria and Cui, Yuhe and Flammang, Brooke and Wissa, Aimy},
       year = {2023},
       booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
       volume = {63},
       pages = {S512--S512},
       organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
     }
     

207. Yang, D. Y., Gamel, K., Flammang, B., & Shorter, K. A. (2020). Modeling and Experimental Evaluation of Traditional and Remora-inspired Suction Cups. INTEGRATIVE AND COMPARATIVE BIOLOGY, 60, E261–E261.

     @inproceedings{yang2020modeling,
       title = {Modeling and Experimental Evaluation of Traditional and Remora-inspired Suction Cups},
       author = {Yang, DY and Gamel, K and Flammang, B and Shorter, KA},
       year = {2020},
       booktitle = {INTEGRATIVE AND COMPARATIVE BIOLOGY},
       volume = {60},
       pages = {E261--E261},
       organization = {OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
     }
     

208. Yang, Y., Yared, D. G., Fortune, E. S., & Cowan, N. J. (2024). Sensorimotor adaptation to destabilizing dynamics in weakly electric fish. Current Biology, 34(10), 2118–2131.

     @article{yang2024sensorimotor,
       title = {Sensorimotor adaptation to destabilizing dynamics in weakly electric fish},
       author = {Yang, Yu and Yared, Dominic G and Fortune, Eric S and Cowan, Noah J},
       year = {2024},
       journal = {Current Biology},
       publisher = {Elsevier},
       volume = {34},
       number = {10},
       pages = {2118--2131}
     }
     

209. Yoffe, M., Patel, K., Palia, E., Kolawole, S., Streets, A., Haspel, G., & Soares, D. (2020). Morphological malleability of the lateral line allows for surface fish (Astyanax mexicanus) adaptation to cave environments. Journal of Experimental Zoology Part B: Molecular and Developmental Evolution, 334(7-8), 511–517.

     @article{yoffe2020morphological,
       title = {Morphological malleability of the lateral line allows for surface fish (Astyanax mexicanus) adaptation to cave environments},
       author = {Yoffe, Marina and Patel, Kush and Palia, Eric and Kolawole, Samuel and Streets, Amy and Haspel, Gal and Soares, Daphne},
       year = {2020},
       journal = {Journal of Experimental Zoology Part B: Molecular and Developmental Evolution},
       volume = {334},
       number = {7-8},
       pages = {511--517}
     }
     

210. Yoshida, J., Oñate, M., Khatami, L., Vera, J., Nadim, F., & Khodakhah, K. (2022). Cerebellar contributions to the basal ganglia influence motor coordination, reward processing, and movement vigor. Journal of Neuroscience, 42(45), 8406–8415.

     @article{yoshida2022cerebellar,
       title = {Cerebellar contributions to the basal ganglia influence motor coordination, reward processing, and movement vigor},
       author = {Yoshida, Junichi and O{\~n}ate, Maritza and Khatami, Leila and Vera, Jorge and Nadim, Farzan and Khodakhah, Kamran},
       year = {2022},
       journal = {Journal of Neuroscience},
       publisher = {Society for Neuroscience},
       volume = {42},
       number = {45},
       pages = {8406--8415}
     }
     

211. Yu, C.-C., Barry, N. C., Wassie, A. T., Sinha, A., Bhattacharya, A., Asano, S., Zhang, C., Chen, F., Hobert, O., Goodman, M. B., & others. (2020). Expansion microscopy of C. elegans. Elife, 9, e46249.

     @article{yu2020expansion,
       title = {Expansion microscopy of C. elegans},
       author = {Yu, Chih-Chieh and Barry, Nicholas C and Wassie, Asmamaw T and Sinha, Anubhav and Bhattacharya, Abhishek and Asano, Shoh and Zhang, Chi and Chen, Fei and Hobert, Oliver and Goodman, Miriam B and others},
       year = {2020},
       journal = {Elife},
       publisher = {eLife Sciences Publications, Ltd},
       volume = {9},
       pages = {e46249}
     }
     

212. Zaki, H., Lushi, E., & Severi, K. E. (2021). Larval zebrafish exhibit collective motion behaviors in constrained spaces. BioRxiv, 9, 2021–2007.

     @article{zaki2021larval,
       title = {Larval zebrafish exhibit collective motion behaviors in constrained spaces},
       author = {Zaki, Haider and Lushi, Enkeleida and Severi, Kristen E},
       year = {2021},
       journal = {bioRxiv},
       publisher = {Cold Spring Harbor Laboratory},
       volume = {9},
       pages = {2021--07}
     }
     

213. Zhang, C., Wang, Y., Urena, J., Augustin-Lawson, R., Eno, C., Sun, M., Flammang, B., & Dong, L. (2025). Amphibious Generator via Mechanical Coupling for Versatile Energy Harvesting. Advanced Energy and Sustainability Research, 2500087.

     @article{zhang2025amphibious,
       title = {Amphibious Generator via Mechanical Coupling for Versatile Energy Harvesting},
       author = {Zhang, Chi and Wang, Yuxiao and Urena, Johan and Augustin-Lawson, Richards and Eno, Catherine and Sun, Mengdie and Flammang, Brooke and Dong, Lin},
       year = {2025},
       journal = {Advanced Energy and Sustainability Research},
       pages = {2500087}
     }
     

214. de Reus, K., Soma, M., Anichini, M., Gamba, M., de Heer Kloots, M., Lense, M., Hyland Bruno, J., Trainor, L., & Ravignani, A. (2021). Rhythm in dyadic interactions. Philosophical Transactions of the Royal Society B: Biological Sciences, 376(1835), 20200337. https://doi.org/10.1098/rstb.2020.0337
     DOI

     @article{de_Reus_2021,
       title = {Rhythm in dyadic interactions},
       author = {de Reus, Koen and Soma, Masayo and Anichini, Marianna and Gamba, Marco and de Heer Kloots, Marianne and Lense, Miriam and Hyland Bruno, Julia and Trainor, Laurel and Ravignani, Andrea},
       year = {2021},
       journal = {Philosophical Transactions of the Royal Society B: Biological Sciences},
       publisher = {The Royal Society},
       volume = {376},
       number = {1835},
       pages = {20200337},
       doi = {10.1098/rstb.2020.0337}
     }