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Full-Text Articles in Biology

Parents Don’T Dictate The Menu: Lack Of Strong Host-Specific Parental Effects May Help Maintain Dietary Generalism, Emma J. Sellers, Mayra C. Vidal, Dhaval K. Vyas, Mykaela Tanino-Springsteen, Gina M. Wimp, Mattheau S. Comerford, Mariana Abarca, Shannon M. Murphy Oct 2026

Parents Don’T Dictate The Menu: Lack Of Strong Host-Specific Parental Effects May Help Maintain Dietary Generalism, Emma J. Sellers, Mayra C. Vidal, Dhaval K. Vyas, Mykaela Tanino-Springsteen, Gina M. Wimp, Mattheau S. Comerford, Mariana Abarca, Shannon M. Murphy

Biological Sciences: Faculty Publications

The environment or experiences of a parent generation can impact the fitness of the next generation, a phenomenon known as parental effects. While a high-quality diet can directly benefit an individual and a low-quality diet can reduce fitness, a parental effect occurs only when there is a transgenerational response to these stimuli that manifests in the individual’s offspring. In dietary generalists, a parental effect could play an important role for offspring performance if the species experiences considerable variation in quality across host plants; posi- tive parental effects may result from host matching between parents and offspring on high-quality host plants, …


Insect Monitoring Without Pitfalls: Seven Steps For Robust Insect Sensing Systems, Jamie Alison, Luca Pegoraro, Jarrett Blair, Yuval Cohen, Birgen Haest, Jacob Idec, Jacob Kamminga, Jenna Lawson, Meng Li, Leandro Aparecido Do Nascimento, Charlotte L. Outhwaite, Benjamin Rutschmann, Maximilian Sittinger, Mariana Abarca, Et Al Sep 2026

Insect Monitoring Without Pitfalls: Seven Steps For Robust Insect Sensing Systems, Jamie Alison, Luca Pegoraro, Jarrett Blair, Yuval Cohen, Birgen Haest, Jacob Idec, Jacob Kamminga, Jenna Lawson, Meng Li, Leandro Aparecido Do Nascimento, Charlotte L. Outhwaite, Benjamin Rutschmann, Maximilian Sittinger, Mariana Abarca, Et Al

Biological Sciences: Faculty Publications

1. Data shortages fuel controversy about an ongoing insect biodiversity crisis. Insects are immensely diverse and functionally critical for ecosystems, yet data on their trends remain patchy and biased. Sensors, ranging from camera traps and acoustic recorders to weather radar stations, are set to transform data collection in entomol- ogy. Meanwhile, AI models that extract biological information from sensors are improving at a startling rate.

2. Realising the potential of automated monitoring means progressing from proof- of-concept studies to scalable insect sensing systems. However, stakeholders face severe operational challenges when adopting a growing suite of sensors, models and protocols for …


Insights Into Longevity And Virus-Driven Adaptation From Myotis Bat Genomes, Juan M. Vazquez, M. Elise Lauterbur, Saba Mottaghinia, Léa Gaucherand, Sarah Maesen, Michael Singer, Sarah Villa, Melanie Bucci, Devaughn Fraser, Genavieve Gray-Sandoval, Zeinab R. Haidar, Melissa Han, William Kohler, Tanya Lama, Et Al Aug 2026

Insights Into Longevity And Virus-Driven Adaptation From Myotis Bat Genomes, Juan M. Vazquez, M. Elise Lauterbur, Saba Mottaghinia, Léa Gaucherand, Sarah Maesen, Michael Singer, Sarah Villa, Melanie Bucci, Devaughn Fraser, Genavieve Gray-Sandoval, Zeinab R. Haidar, Melissa Han, William Kohler, Tanya Lama, Et Al

Biological Sciences: Faculty Publications

The genus Myotis is one of the largest clades of bats, and it exhibits some of the most extreme variation in lifespans among mammals, alongside unique adaptations to viral tolerance and immune defence1–3. Here, to study the evolution of these phenotypes, we generated cell lines and near-complete genome assemblies for eight closely related Myotis species. Using genome-wide screens of positive selection, analyses of structural variation and functional experiments in primary cells, we identify patterns of adaptation contributing to longevity, cancer resistance and viral interactions. We demonstrate distinct modes of adaptation to DNA and RNA viruses compared with all …


Parental Thermal Environment Affects Offspring Resilience To Winter And Spring Weather Anomalies, Ruzhuo Chen, Mariel Dunn, Caroline A. Curtis, Mariana Abarca Aug 2026

Parental Thermal Environment Affects Offspring Resilience To Winter And Spring Weather Anomalies, Ruzhuo Chen, Mariel Dunn, Caroline A. Curtis, Mariana Abarca

Biological Sciences: Faculty Publications

Recent increases in the frequency and intensity of thermal anomalies can result in recurrent stressful weather events. Among annual insects, this phenomenon may expose parents and offspring to a succession of different weather anomalies (e.g. summer heatwaves and late spring frosts). Parental stress can alter offspring physiology and performance, potentially affecting their tolerance of environmental variation. We investigated the transgenerational effects of thermal anomalies on a univoltine wetland butterfly. We induced parental thermal stress by exposing pupae to a constant temperature, ranging from stressfully cold to stressfully hot (10 ◦C, 26 ◦C, 28 ◦C, 32 ◦C), for three days. Offspring …


Phenological Plasticity Provides Limited Resilience To Climate Warming In A Sea Turtle Species With Temperature-Dependent Sex Determination, Blair P. Bentley, Lisa M. Komoroske, Cintia M. Santos, Armando J. B. Santos, Estefany Argueta, Vic Quennessen, Christina M. Coppenrath, Camille Kynoch, Vincent S. Saba, Claudio Bellini, Rafaely N. M. S. Ventura, J. Wilson White, Mariana M. P. B. Fuentes Aug 2026

Phenological Plasticity Provides Limited Resilience To Climate Warming In A Sea Turtle Species With Temperature-Dependent Sex Determination, Blair P. Bentley, Lisa M. Komoroske, Cintia M. Santos, Armando J. B. Santos, Estefany Argueta, Vic Quennessen, Christina M. Coppenrath, Camille Kynoch, Vincent S. Saba, Claudio Bellini, Rafaely N. M. S. Ventura, J. Wilson White, Mariana M. P. B. Fuentes

Biological Sciences: Faculty Publications

Anthropogenic climate change is threatening global biodiversity, with sea turtles particularly vulnerable as offspring sex and developmental success are strongly influenced by incubation temperature. Behavioral plasticity, including the seasonal distribution of reproductive output, may provide short-term mechanisms for mitigating these impacts. Here, we investigated season-wide hatchling sex ratios and emergence success in a small population of green turtles (Chelonia mydas), tracking individual females across their nesting seasons. Sex ratios varied markedly through the nesting season, with later nests producing a greater proportion of male hatchlings. Moreover, sex ratios were relatively consistent among nests laid by individual females. Overall, females producing …


Thermoclock:A Novel Automated Temperature Regulation Device That Can Model Circadian Entrainment And Disruption In 2d And 3d In Vitro Models, Kaiyin Kelly Zhang, Cathryn A. Cutia, Chanelle A. Moise, Bhavna Kalyanaraman, Kaitlyn Chhe, Jiexin Wang, Michelle E. Farkas, Ilia N. Karatsoreos, Mary Harrington, Meghan E. Huber, Cathal J. Kearney Jul 2026

Thermoclock:A Novel Automated Temperature Regulation Device That Can Model Circadian Entrainment And Disruption In 2d And 3d In Vitro Models, Kaiyin Kelly Zhang, Cathryn A. Cutia, Chanelle A. Moise, Bhavna Kalyanaraman, Kaitlyn Chhe, Jiexin Wang, Michelle E. Farkas, Ilia N. Karatsoreos, Mary Harrington, Meghan E. Huber, Cathal J. Kearney

Biological Sciences: Faculty Publications

Circadian rhythms are critical for maintaining homeostasis and regulating physiological functions, and consequentially impact disease progression; yet, they remain largely overlooked in in vitro models used in preclinical research. One major barrier to rigorously testing the role of circadian rhythms in these models is the lack of accessible tools that seamlessly integrate into standard culture setups and are capable of sustainably delivering time cues to cells and tissues in long term experiments. Here, we present the ThermoClock, a low-cost, Arduino-based automated temperature control system capable of delivering independent temperature programs to multiple cultures simultaneously. Using circadian reporter U2OS cell lines …


Hot And Bothered: Introduced Generalist Marine Snail Outperforms Native Specialist Under Gradual And Extreme Warming, Alysha B. Putnam, Adeline Dwyer, Danielle T. Weiss, Bethany A. Bradley, Michelle D. Staudinger, Paulette Peckol Jul 2026

Hot And Bothered: Introduced Generalist Marine Snail Outperforms Native Specialist Under Gradual And Extreme Warming, Alysha B. Putnam, Adeline Dwyer, Danielle T. Weiss, Bethany A. Bradley, Michelle D. Staudinger, Paulette Peckol

Biological Sciences: Faculty Publications

Climate change is reshaping coastal ecosystems through gradual warming and increasingly frequent extreme heat events, potentially affecting native and introduced species differently. We experimentally compared the native marine snail Littorina obtusata, a habitat and dietary specialist, to the introduced generalist Littorina littorea under sustained warming and short-term extreme heat. We measured survival and performance metrics, including grazing, growth, and attachment strength, under short- and long-term thermal stress in air and water. L. littorea consistently outperformed L. obtusata, maintaining or increasing function under warming and exhibiting greater survival during simulated heatwaves. Conversely, L. obtusata showed performance declines and higher …


Snail Snacks: Introduced Seaweeds Facilitate Performance Of An Introduced Marine Snail, Alysha B. Putnam, Adeline Dwyer, Paulette Peckol Apr 2026

Snail Snacks: Introduced Seaweeds Facilitate Performance Of An Introduced Marine Snail, Alysha B. Putnam, Adeline Dwyer, Paulette Peckol

Biological Sciences: Faculty Publications

Facilitative interactions among introduced species can accelerate invasion and community change, yet positive interactions are often overlooked compared to competition and predation. In marine systems, positive facilitation is more commonly demonstrated indirectly through habitat modification, with fewer studies examining direct performance impacts. While introduced herbivores in non-marine systems consume and even prefer introduced food sources, this pattern is less studied in marine environments. In this study, we tested grazing preferences and growth responses of the introduced periwinkle Littorina littorea and the native Littorina obtusata, when fed native and introduced seaweeds from southern New England. L. littorea grazed broadly across …


Editorial 2026, Maud I. Tenaillon, Laura A. Katz Apr 2026

Editorial 2026, Maud I. Tenaillon, Laura A. Katz

Biological Sciences: Faculty Publications

No abstract provided.


Cannibalism, Predation, And Refuges Of Juvenile Blue Crabsfrom A 37–Year Experiment, Anson H. Hines, Margaret A. Kramer, Kimberly D. Richie, L. David Smith, Robert Aguilar, Matthew B. Ogburn, Eric G. Johnson, Gregory M. Ruiz Mar 2026

Cannibalism, Predation, And Refuges Of Juvenile Blue Crabsfrom A 37–Year Experiment, Anson H. Hines, Margaret A. Kramer, Kimberly D. Richie, L. David Smith, Robert Aguilar, Matthew B. Ogburn, Eric G. Johnson, Gregory M. Ruiz

Biological Sciences: Faculty Publications

This 37-y record (1989–2025) of field experiments tested seasonal and annual variation in predation on juvenile blue crabs (Callinectes sapidus) in a representative mesohaline site of Chesapeake Bay, USA, where the species is a dominant epibenthic predator and major fishery. We used replicated sets of individually tethered crabs to provide a relative index of lethal and sublethal predation rates on intermolt individuals as a function of size and habitats. Cannibalism by large adult crabs accounted for>97% of predation of juvenile crabs; predation by fish was not observed; and mortality from physiological stress was rare (< 1%). Sampling by depth showed that juveniles occurred in nearshore shallows, while adults were in deeper water. Cannibalism was also depth-dependent: Rates were high at 75 cm depth; intermediate at 40cm; and lowest at 15 cm shallows, which provided partial refuge. Cannibalism was size-dependent: 30 to 50 mm juveniles experienced high rates of predation; 90 to 110mm preadults had low rates; and >120 mm adults …


Assessing Climate Adaptation Among Canada Lynx (Lynx Canadensis) Populations At The Trailing Edge, Tanya Lama, Blair P. Bentley, Warren E. Johnson, Lisa M. Komoroske, Stephen Destefano, Jennifer Vashon, Kaela Beaulerc, Jason M. Kamilar, Giulio Formenti, Andrea Batista, Andrew G. Spencer, Olivier Fedrigo, Erich D. Jarvis, Jeff S. Bowman, Paul Wilson, John F. Organ Feb 2026

Assessing Climate Adaptation Among Canada Lynx (Lynx Canadensis) Populations At The Trailing Edge, Tanya Lama, Blair P. Bentley, Warren E. Johnson, Lisa M. Komoroske, Stephen Destefano, Jennifer Vashon, Kaela Beaulerc, Jason M. Kamilar, Giulio Formenti, Andrea Batista, Andrew G. Spencer, Olivier Fedrigo, Erich D. Jarvis, Jeff S. Bowman, Paul Wilson, John F. Organ

Biological Sciences: Faculty Publications

Species must acclimate, shift their distributions, or adapt in place in response to anthropogenic climate change. Populations at low-latitude trailing edges of species distributions typically experience thermal conditions closest to the upper limit of their thermoregulatory capacity. Landscape and functional genomic approaches provide quantitative measures of risk and adaptive capacity which can inform and prioritize conservation actions. Using low-coverage whole genomes from Canada lynx (Lynx canadensis), we characterized population genomic structure and identified putatively adaptive loci using genotype-environment association analyses across the eastern extent of their distribution. We detected genetic breaks across two previously identified biogeographical barriers, the St. Lawrence …


Genomic Comparisons And The Adaptive Basis Of Brain Size Plasticity And Chromosomal Instability In The Eurasian Common Shrew, William R. Thomas, Tanya M. Lama, Cecilia Baldoni, Laia Marín-Gual, Diana Moreno Santillán, Marta Farré, Linelle Abueg, Jennifer Balacco, Olivier Fedrigo, Giulio Formenti, Nivesh Jain, Jacquelyn Mountcastle, Tatiana Tilley, Ying Sims, Alan Tracey, Jo Wood, David A. Ray, Dominik Von Elverfeldt, John Nieland, Angelique P. Corthals, Aurora Ruiz-Herrera, Dina K.N. Dechmann, Erich Jarvis, Liliana M. Dávalos Feb 2026

Genomic Comparisons And The Adaptive Basis Of Brain Size Plasticity And Chromosomal Instability In The Eurasian Common Shrew, William R. Thomas, Tanya M. Lama, Cecilia Baldoni, Laia Marín-Gual, Diana Moreno Santillán, Marta Farré, Linelle Abueg, Jennifer Balacco, Olivier Fedrigo, Giulio Formenti, Nivesh Jain, Jacquelyn Mountcastle, Tatiana Tilley, Ying Sims, Alan Tracey, Jo Wood, David A. Ray, Dominik Von Elverfeldt, John Nieland, Angelique P. Corthals, Aurora Ruiz-Herrera, Dina K.N. Dechmann, Erich Jarvis, Liliana M. Dávalos

Biological Sciences: Faculty Publications

Sorex araneus, the Eurasian common shrew, has seasonal brain size plasticity (Dehnel's phenomenon) and many intraspecific chromosomal rearrangements. Genomic contributions to these traits, however, remain unknown. We couple a chromosome-scale genome assembly with seasonal brain transcriptomes to discover relationships between molecular evolution and both traits. While Positively Selected Genes (PSGs) enriched the Fanconi anemia DNA repair pathway (FANCI, FAAP100), which is likely involved in chromosomal rearrangements by preventing the accumulation of chromosomal aberrations, genes under positive selection or showing seasonal differential expression in the brain implicate neurogenesis (PCDHA6, SOX9, Notch signaling) and metabolic regulation (VEGFA, SPHK2) as key mechanisms underlying …


Human Body Temperature Cues Widespread Changes In Virulence Gene Expression In Uropathogenic Escherichia Coli, Carolyn A. Dehner, Isidora N. Stankovic, Madeleine Sutherland, Lou Ann Bierwert, Stylianos P. Scordilis, Daniel M. Stoebel, Christine A. White-Ziegler Feb 2026

Human Body Temperature Cues Widespread Changes In Virulence Gene Expression In Uropathogenic Escherichia Coli, Carolyn A. Dehner, Isidora N. Stankovic, Madeleine Sutherland, Lou Ann Bierwert, Stylianos P. Scordilis, Daniel M. Stoebel, Christine A. White-Ziegler

Biological Sciences: Faculty Publications

As a bacterial pathogen enters a human host, it immediately encounters a temperature upshift to 37°C. Mimicking the early hours of infection, we analyzed the transcriptome and proteome of uropathogenic Escherichia coli CFT073 initially grown at 23°C, then shifted to 37°C for 4 h. Temperature caused a change in mRNA expression for 9% of the genome (1% false discovery rate, ≥2-fold); similar impacts were observed for the proteome with a good concordance amongst the most highly temperature-regulated genes. Comparison to E. coli K-12 MC4100 shows temperature to be a more broadly used regulatory cue in the uropathogen. Multiple operons associated …


Marine Cold-Spells In The California Current System: Modeling Changes In Frequency And Impacts On Endangered Species Habitat, Kaila J. Frazer, Heather M. Welch, Michael G. Jacox, Nerea Lezama-Ochoa, Briana Abrahms, Mercedes Pozo Buil, Scott R. Benson, Daniel M. Palacios, L. David Smith, Thomas A. Clay, Steven J. Bograd, Elliott L. Hazen Jan 2026

Marine Cold-Spells In The California Current System: Modeling Changes In Frequency And Impacts On Endangered Species Habitat, Kaila J. Frazer, Heather M. Welch, Michael G. Jacox, Nerea Lezama-Ochoa, Briana Abrahms, Mercedes Pozo Buil, Scott R. Benson, Daniel M. Palacios, L. David Smith, Thomas A. Clay, Steven J. Bograd, Elliott L. Hazen

Biological Sciences: Faculty Publications

Marine cold-spells are an understudied phenomena which can both negatively impact marine wildlife and provide thermal refugia for species displaced by climate change. To develop forward-looking and climate-ready management schemes, it is critical to examine how marine species respond to cold-spells, how long-term warming will affect marine cold-spells over the next century, and how these future cold-spells will in turn affect species of conservation concern, particularly in marine protected areas. To this end, we detect marine cold-spells across the California Current System, a productive Eastern Boundary Upwelling System, relative to a fixed baseline (1980–2009) and to a detrended time series …


Increasing Temperatures And Heatwave Durations Negatively Affect The Performance Of A Dietary Generalist, Kailey G. Hicks, Claire Guzinski, Mariana Abarca, Mayra C. Vidal, Audrey M. Mitchell, Dhaval K. Vyas, Shannon M. Murphy Jan 2026

Increasing Temperatures And Heatwave Durations Negatively Affect The Performance Of A Dietary Generalist, Kailey G. Hicks, Claire Guzinski, Mariana Abarca, Mayra C. Vidal, Audrey M. Mitchell, Dhaval K. Vyas, Shannon M. Murphy

Biological Sciences: Faculty Publications

Climate variability has increased in recent decades, and this trend is predicted to continue. Globally, there is a rise in extreme temperatures, such as heatwaves, which are strengthening in both intensity and frequency. As ectotherms, insects are especially affected by temperature variation. Insects are the most speciose group of animals and important members of most terrestrial ecosystems, providing critical ecosystem services. Most studies of global change have investigated only a single stressor, yet insects rarely experience one stressor at a time. Two stressors that co-occur are heatwaves and warming temperature regimes; thus, is it important that we study their interaction …


Immunoglobulin Germline Reference Sequences Enable Investigations And Reveal Insights Into Bat-Specific Immunity, Ashley B. Reers, Shijun Zhan, Taylor Pursell, Clara Reasoner, Natasha Hodges, Tanya M. Lama, Tony Schountz, Hannah K. Frank Dec 2025

Immunoglobulin Germline Reference Sequences Enable Investigations And Reveal Insights Into Bat-Specific Immunity, Ashley B. Reers, Shijun Zhan, Taylor Pursell, Clara Reasoner, Natasha Hodges, Tanya M. Lama, Tony Schountz, Hannah K. Frank

Biological Sciences: Faculty Publications

We generated a highly contiguous, annotated genome of the Jamaican fruit bat, Artibeus jamaicensis, including annotated germline immunoglobulin heavy-chain (IGH) and light-chain lambda (IGL) loci to understand bat B cell receptor repertoires. The bat germline shares many structures and features described in human immunoglobulin loci. However, some features are unique to A. jamaicensis, including an expansion of cysteine-rich IGHV genes. To investigate the relationship between the germline IGH locus and expressed B cell receptors (BCRs), we sequenced the BCRs of wild-caught and captive A. jamaicensis, finding an enrichment of IGHV3 and IGHV4 genes. Compared to humans, A. jamaicensis had shorter …


Gene Expression Reveals The Pancreas Of Aselli As A Critical Organ For Plasma Cell Differentiation In The Eurasian Common Shrew, William R. Thomas, Cecilia Baldoni, Tanya M. Lama, Yuanyuan Zeng, Angelique P. Corthals, Dominik Von Elverfeldt, John Nieland, Dina K.N. Dechmann, Liliana M. Dávalos Dec 2025

Gene Expression Reveals The Pancreas Of Aselli As A Critical Organ For Plasma Cell Differentiation In The Eurasian Common Shrew, William R. Thomas, Cecilia Baldoni, Tanya M. Lama, Yuanyuan Zeng, Angelique P. Corthals, Dominik Von Elverfeldt, John Nieland, Dina K.N. Dechmann, Liliana M. Dávalos

Biological Sciences: Faculty Publications

Background: Almost all mammals rely on the thymus and bone marrow to generate and differentiate B and T cells essential for adaptive immunity. A few members of the family Soricidae, or true shrews within Eulipotyphla, have also evolved an enlarged pancreas of Aselli, a kidney-sized organ hypothesized to serve this primary immune role, and whose gene expression profile is unknown. Results: Here we introduce transcriptomes of juvenile Eurasian common shrews (Sorex araneus, family Soricidae) pancreas of Aselli. We compare these to those of the shrew spleen and chick bursa of Fabricius, an analogous, bird-specific organ, and explore differential expression overlaps …


Single-Cell Genomics Reveals Complex Microbial And Viral Associations In Ciliates And Testate Amoebae, Frederik Schulz, Ying Yan, Agnes K. M. Weiner, Ragib Ahsan, Laura A. Katz, Tanja Woyke Nov 2025

Single-Cell Genomics Reveals Complex Microbial And Viral Associations In Ciliates And Testate Amoebae, Frederik Schulz, Ying Yan, Agnes K. M. Weiner, Ragib Ahsan, Laura A. Katz, Tanja Woyke

Biological Sciences: Faculty Publications

Protists play important roles in nutrient cycling across ecosystems, yet the composition and function of their associated microbiomes remain poorly studied. Here, we use cultivation-independent single-cell isolation and genome-resolved metagenomics to investigate the microbiomes and viromes of more than 100 uncultivated ciliates and amoebae from diverse environments. Our findings reveal unique microbiome structures and complex associations with bacterial symbionts and viruses, with stark differences between ciliates and amoebae. We recover 117 microbial genomes affiliated with known eukaryotic endosymbionts, including Holosporales, Rickettsiales, Legionellales, Chlamydiae, and Babelota, and 258 genomes linked to host-associated Patescibacteriota. Many show …


Breaking Confirmatory Spells By Implementing Research- Integrated Cures, J. A.C. Vriezen Aug 2025

Breaking Confirmatory Spells By Implementing Research- Integrated Cures, J. A.C. Vriezen

Biological Sciences: Faculty Publications

Differences in economic and social growth and academic equity, experi ences, and opportunities have left an achievement gap in STEM for underprivileged students. Course-based Undergraduate Research Experiences (CUREs) have attempted to answer these inequalities by leveling the playing field or by offering course-based research opportunities with minimal requirements for background knowledge. When we ask novel questions, more students get the experience of performing research, which lowers thresholds to pursue research and increases participation. Although the learning outcomes have been largely positive, there is a concern that many CUREs are still too scaffolded. In contrast, I propose to develop exploratory, hypothesis-driven …


Rethinking Large-Scale Phylogenomics With Eukphylo V.1.0, A Flexible Toolkit To Enable Phylogeny-Informed Data Curation And Analyses Of Diverse Eukaryotic Lineages, Laura A. Katz, Marie Leleu, Godwin Ani, Rebecca Gawron, Auden Cote-L'Heureux Jun 2025

Rethinking Large-Scale Phylogenomics With Eukphylo V.1.0, A Flexible Toolkit To Enable Phylogeny-Informed Data Curation And Analyses Of Diverse Eukaryotic Lineages, Laura A. Katz, Marie Leleu, Godwin Ani, Rebecca Gawron, Auden Cote-L'Heureux

Biological Sciences: Faculty Publications

Eukaryotic diversity is largely microbial, with macroscopic lineages (plants, animals, and fungi) nesting among a plethora of diverse protists. Our understanding of the evolutionary relationships among eukaryotes is rapidly advancing through ’omics analyses, but phylogenomic analyses are challenging for microeukaryotes, particularly uncultivable lineages, as single-cell sequencing approaches generate a mixture of sequences from hosts, associated microbiomes, and contaminants. Moreover, many analyses of eukaryotic gene families and phylogenies rely on boutique data sets and methods that are challenging for other research groups to replicate. To address these challenges, we present EukPhylo v.1.0, a modular, user-friendly pipeline that enables effective data curation …


Proteomic Investigation Of Aging And Omega-3 Supplementation In Rat Skeletal Muscle, Francesco Maria Del Re, David W. Russ, Kalina P. Dimova, Stylianos P. Scordilis May 2025

Proteomic Investigation Of Aging And Omega-3 Supplementation In Rat Skeletal Muscle, Francesco Maria Del Re, David W. Russ, Kalina P. Dimova, Stylianos P. Scordilis

Biological Sciences: Faculty Publications

Aging is a pan-organ process with an intricate and multimodal nature. Deciphering the aging phenomenon is complex, yet recent attention is analyzing the potential benefits of non-invasive life adjustments to achieve healthy aging. Omega-3 polyunsaturated fatty acids (FA) have emerged as promising nutraceuticals for a plethora of different medical conditions. In the current study we conducted an in-depth, bottom-up, global, shotgun proteomic study (LC-MS/MS) investigating both the effects of aging on skel- etal muscle and the potential alterations due to ω-3 FA. Sprague Dawley rats were fed different diets and divided into four groups (n = 5 per group): adult …


What Do We Know About Insect Responses To Global Change? A Review Of Meta-Analyses On Global Change Drivers, Mayra C. Vidal, Mariana Abarca, Kristi Backe, Anne E. Curé, Deborah L. Finke, Amanda M. Koltz, Alycia C.R. Lackey, J. Christina Mitchell, Rebecca M. Prather, Ellen A.R. Welti, Gina M. Wimp, Shannon M. Murphy Apr 2025

What Do We Know About Insect Responses To Global Change? A Review Of Meta-Analyses On Global Change Drivers, Mayra C. Vidal, Mariana Abarca, Kristi Backe, Anne E. Curé, Deborah L. Finke, Amanda M. Koltz, Alycia C.R. Lackey, J. Christina Mitchell, Rebecca M. Prather, Ellen A.R. Welti, Gina M. Wimp, Shannon M. Murphy

Biological Sciences: Faculty Publications

1. Global change is causing major declines in biodiversity, especially of insects. Scientific interest in global change impacts on insects has increased in recent years, resulting in many different meta-analyses examining questions within this topic.

2. We performed a comprehensive review of meta-analyses examining the effects of global change stressors on insects to identify well-studied questions and gaps in our knowledge and synthesise the responses of insects to those stressors. We identified 75 meta-analyses that fit our scope, accounting for 905 meta-results and spanning 18 global change stressors.

3. Our synthesis identified several global change stressors that are relatively well-studied …


Bat Genomes Illuminate Adaptations To Viral Tolerance And Disease Resistance, Ariadna E. Morales, Yue Dong, Thomas Brown, Kaushal Baid, Dimitrios Georgios Kontopoulos, Victoria Gonzalez, Zixia Huang, Alexis Walid Ahmed, Arkadeb Bhuinya, Leon Hilgers, Sylke Winkler, Graham Hughes, Xiaomeng Li, Ping Lu, Yixin Yang, Bogdan M. Kirilenko, Paolo Devanna, Tanya M. Lama, Yomiran Nissan, Martin Pippel, Liliana M. Dávalos, Sonja C. Vernes, Sebastien J. Puechmaille, Stephen J. Rossiter, Yossi Yovel, Joseph B. Prescott, Andreas Kurth, David A. Ray, Burton K. Lim, Eugene Myers, Emma C. Teeling, Arinjay Banerjee Jan 2025

Bat Genomes Illuminate Adaptations To Viral Tolerance And Disease Resistance, Ariadna E. Morales, Yue Dong, Thomas Brown, Kaushal Baid, Dimitrios Georgios Kontopoulos, Victoria Gonzalez, Zixia Huang, Alexis Walid Ahmed, Arkadeb Bhuinya, Leon Hilgers, Sylke Winkler, Graham Hughes, Xiaomeng Li, Ping Lu, Yixin Yang, Bogdan M. Kirilenko, Paolo Devanna, Tanya M. Lama, Yomiran Nissan, Martin Pippel, Liliana M. Dávalos, Sonja C. Vernes, Sebastien J. Puechmaille, Stephen J. Rossiter, Yossi Yovel, Joseph B. Prescott, Andreas Kurth, David A. Ray, Burton K. Lim, Eugene Myers, Emma C. Teeling, Arinjay Banerjee

Biological Sciences: Faculty Publications

Zoonoses are infectious diseases transmitted from animals to humans. Bats have been suggested to harbour more zoonotic viruses than any other mammalian order1. Infections in bats are largely asymptomatic2,3, indicating limited tissue-damaging inflammation and immunopathology. To investigate the genomic basis of disease resistance, the Bat1K project generated reference-quality genomes of ten bat species, including potential viral reservoirs. Here we describe a systematic analysis covering 115 mammalian genomes that revealed that signatures of selection in immune genes are more prevalent in bats than in other mammalian orders. We found an excess of immune gene adaptations in the ancestral chiropteran branch and …


Making Dew In The Atacama Desert: A Paradigmatic Case Of Plant Water Uptake From An Unsaturated Atmosphere Fails A Test, Jess T. Gersony, Anju Manandhar, Uri Hochberg, Nora Abdellaoui, Paula Llanos, Jacques Dumais, N. Michele Holbrook, Fulton E. Rockwell Jan 2025

Making Dew In The Atacama Desert: A Paradigmatic Case Of Plant Water Uptake From An Unsaturated Atmosphere Fails A Test, Jess T. Gersony, Anju Manandhar, Uri Hochberg, Nora Abdellaoui, Paula Llanos, Jacques Dumais, N. Michele Holbrook, Fulton E. Rockwell

Biological Sciences: Faculty Publications

No abstract provided.


Consistency And Flexibility Of Character In Free-Ranging Male African Elephants Across Time, Age, And Social Contexts, Caitlin E. O’Connell-Rodwell, Jodie L. Berezin, Colleen Kinzley, Patrick T. Freeman, Monica N. Sandri, Dustin Kieschnick, Timothy C. Rodwell, Mariana Abarca, Virginia Hayssen Dec 2024

Consistency And Flexibility Of Character In Free-Ranging Male African Elephants Across Time, Age, And Social Contexts, Caitlin E. O’Connell-Rodwell, Jodie L. Berezin, Colleen Kinzley, Patrick T. Freeman, Monica N. Sandri, Dustin Kieschnick, Timothy C. Rodwell, Mariana Abarca, Virginia Hayssen

Biological Sciences: Faculty Publications

Post-dispersal male African elephants (Loxodonta africana) live within complex social networks. To quantify the consistency of male elephant character (or personality) within these networks, we employed behavioral repeatability analysis tools across social and environmental contexts. We collected behavioral data from thirty-four individually-identified male elephants at the same waterhole over five field seasons (2007–2011) in Etosha National Park, Namibia. Using repeatability models to assess ten behavioral categories, we found five behaviors (affiliation, aggression, dominance, self-directed anxious, and self-directed comfort) were consistent at the individual level. Some of these behaviors were also repeatable, depending on social context. In particular, the …


A Practical Guide To Avoiding Biased Communication In Reproductive Biology, Zoe Baker, Virginia Hayssen Dec 2024

A Practical Guide To Avoiding Biased Communication In Reproductive Biology, Zoe Baker, Virginia Hayssen

Biological Sciences: Faculty Publications

When cultural biases pervade communication, whether visual or text-based, objectivity is impaired. Anthropocentrism (human-centered bias) and androcentrism (male-centered bias) in particular distort perspectives in mammalian reproductive biology. This paper provides a resource for professionals who understand how cultural biases can be reinforced with language, visuals, and conceptual framing. After brief explanations, we present neutral alternatives to biased terminology as well as ways to avoid bias in illustrations. Since this paper is animal-centric, we hope to inspire the creation of similar resources across a more diverse biota and, thus, move towards a more neutral perspective across reproductive biology.


Diverse Genome Structures Among Eukaryotes May Have Arisen In Response To Genetic Conflict, Elinor G. Sterner, Auden Cote-L’Heureux, Xyrus X. Maurer-Alcalá, Laura A. Katz Nov 2024

Diverse Genome Structures Among Eukaryotes May Have Arisen In Response To Genetic Conflict, Elinor G. Sterner, Auden Cote-L’Heureux, Xyrus X. Maurer-Alcalá, Laura A. Katz

Biological Sciences: Faculty Publications

In contrast to the typified view of genome cycling only between haploidy and diploidy, there is evidence from across the tree of life of genome dynamics that alter both copy number (i.e. ploidy) and chromosome complements. Here, we highlight examples of such processes, including endoreplication, aneuploidy, inheritance of extrachromosomal DNA, and chromatin extrusion. Synthesizing data on eukaryotic genome dynamics in diverse extant lineages suggests the possibility that such processes were present before the last eukaryotic common ancestor. While present in some prokaryotes, these features appear exaggerated in eukaryotes where they are regulated by eukaryote-specific innovations including the nucleus, complex cytoskeleton, …


Otocolobus Manul (Carnivora: Felidae), Paula Noonan, Zoe Baker, Virginia Hayssen Jul 2024

Otocolobus Manul (Carnivora: Felidae), Paula Noonan, Zoe Baker, Virginia Hayssen

Biological Sciences: Faculty Publications

Otocolobus manul (Pallas, 1776) is a small, solitary, terrestrial felid commonly called the Manul and is the sole species of its genus. It occurs in Afghanistan, Armenia, Bhutan, China, India, the Islamic Republic of Iran, Kazakhstan, Kyrgyzstan, Mongolia, Nepal, Pakistan, the Russian Federation, and Turkmenistan. Otocolobus manul might still occur in Tajikistan and Uzbekistan but might be extinct in Azerbaijan. As assessed in 2020, O. manul is listed as “Least Concern” (LC) on the International Union for Conservation of Nature and Natural Resources Red List of Threatened Species, with an estimate of 58,000 adults, although the population might be decreasing.


How New Communication Behaviors Evolve: Androgens As Modifiers Of Neuromotor Structure And Function In Foot-Flagging Frogs, Lisa A. Mangiamele, Allex Andrya Dawn, Kerry M. Lecure, Gina E. Mantica, Riccardo Racicot, Matthew J. Fuxjager, Doris Preininger May 2024

How New Communication Behaviors Evolve: Androgens As Modifiers Of Neuromotor Structure And Function In Foot-Flagging Frogs, Lisa A. Mangiamele, Allex Andrya Dawn, Kerry M. Lecure, Gina E. Mantica, Riccardo Racicot, Matthew J. Fuxjager, Doris Preininger

Biological Sciences: Faculty Publications

How diverse animal communication signals have arisen is a question that has fascinated many. Xenopus frogs have been a model system used for three decades to reveal insights into the neuroendocrine mechanisms and evolution of vocal diversity. Due to the ease of studying central nervous system control of the laryngeal muscles in vitro, Xenopus has helped us understand how variation in vocal communication signals between sexes and between species is produced at the molecular, cellular, and systems levels. Yet, it is becoming easier to make similar advances in non-model organisms. In this paper, we summarize our research on a group …


Foraminifera As A Model Of Eukaryotic Genome Dynamism, Caitlin Timmons, Kristine Le, H. B. Rappaport, Elinor G. Sterner, Xyrus X. Maurer-Alcaláh, Susan T. Goldstein, Laura A. Katz Mar 2024

Foraminifera As A Model Of Eukaryotic Genome Dynamism, Caitlin Timmons, Kristine Le, H. B. Rappaport, Elinor G. Sterner, Xyrus X. Maurer-Alcaláh, Susan T. Goldstein, Laura A. Katz

Biological Sciences: Faculty Publications

In contrast to the canonical view that genomes cycle only between haploid and diploid states, many eukaryotes have dynamic genomes that change content throughout an individual’s life cycle. However, the few detailed studies of microeukaryotic life cycles render our understanding of eukaryotic genome dynamism incomplete. Foraminifera (Rhizaria) are an ecologically important, yet understudied, clade of microbial eukaryotes with complex life cycles that include changes in ploidy and genome organization. Here, we apply fluorescence microscopy and image analysis techniques to over 2,800 nuclei in 110 cells to characterize the life cycle of Allogromia laticollaris strain Cold Spring Harbor (CSH), one of …