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A Ubiquitous Organophosphate Flame Retardant Disrupts Energy And Glucose Homeostasis In Mice, Krystal M. Sewell, Kelly Oriakhi, Sara Y. Ngo Tenlep, Megan L. Weaver, Mansura Shahad Bawa, Se-Hyung Park, Shubh Saraswat, Xiaohua D. Zhang, Robert N. Helsley, Samir Softic, Cetewayo S. Rashid Jan 2026

A Ubiquitous Organophosphate Flame Retardant Disrupts Energy And Glucose Homeostasis In Mice, Krystal M. Sewell, Kelly Oriakhi, Sara Y. Ngo Tenlep, Megan L. Weaver, Mansura Shahad Bawa, Se-Hyung Park, Shubh Saraswat, Xiaohua D. Zhang, Robert N. Helsley, Samir Softic, Cetewayo S. Rashid

Pharmacology and Nutritional Sciences Faculty Publications

Organophosphate flame retardants (OPFRs) are used in many consumer products, and their presence in our environment raises concerns about potential health dangers. In humans, exposure to OPFRs, such as tris(1,3-dichloro-2-propyl) phosphate (TDCPP) is associated with metabolic disorders such as obesity, hyperglycemia, and insulin resistance. Our current study seeks to determine how TDCPP exposure affects body composition, glucose homeostasis, and energy balance in a rodent model. C57Bl/6 J mice were divided into two weight-matched groups and fed purified low phytoestrogen diets containing either 0.1 % DMSO (control) or TDCPP 415 mg/kg resulting in an approximate exposure of 50 mg/kg/day. Both male …


Contribution Of Metabolism-Independent Glucose Sensing To Metabolic Homeostasis, Nadia Rashid, Kavaljit H. Chhabra Jan 2026

Contribution Of Metabolism-Independent Glucose Sensing To Metabolic Homeostasis, Nadia Rashid, Kavaljit H. Chhabra

Pharmacology and Nutritional Sciences Faculty Publications

Glucose sensing and signaling are central to cellular metabolic machinery for the regulation of metabolic homeostasis. Glucose sensing has been almost always assumed to be coupled with glucose metabolism; however, recent findings have unraveled metabolism-independent sensing mechanisms. Here, we discuss whether glucose transporters (GLUTs) and sodium-glucose co-transporters (SGLTs) may also function as glucose sensors independent of their roles in transporting glucose. Moreover, we review the emerging roles of G protein-coupled receptors (GPCRs) in sensing glucose and, consequently, initiating its signaling pathways in a cell-specific manner. Altogether, this review offers insights into the newly identified glucose sensing mechanisms and highlights the …


Anatomical Atlas Of Kinase Responsiveness To Weight Gain: Adipose Depot Reprogramming In Diet-Induced Adiposity, Wang-Hsin Lee, Zachary A. Kipp, Sally N. Pauss, Genesee J. Martinez, Mei Xu, Terry D. Hinds, Jr. Jan 2026

Anatomical Atlas Of Kinase Responsiveness To Weight Gain: Adipose Depot Reprogramming In Diet-Induced Adiposity, Wang-Hsin Lee, Zachary A. Kipp, Sally N. Pauss, Genesee J. Martinez, Mei Xu, Terry D. Hinds, Jr.

Pharmacology and Nutritional Sciences Faculty Publications

Background/Objectives: Adipose tissue depots located at different anatomical sites exert differential functions in response to adiposity and glucose intolerance. These fat depots exhibit distinct metabolic signaling patterns that may influence pathological fat accumulation, thereby affecting the efficacy of anti-obesity interventions. Nonetheless, the mechanisms underpinning depot-specific signaling and pathway responsiveness remain insufficiently understood.

Methods: Kinase activity was characterized during the progression of adiposity across five adipose tissue depots in obese versus lean mice using the advanced PamGene kinome technology. Furthermore, kinase pathways in human preadipocytes and mouse 3T3-L1 preadipocytes were analyzed and compared with those in their differentiated, mature adipocytes. The …


Effects Of Rnai Of Ribophorin 1, Eukaryotic Translation Initiation Factor 2 Beta, And Peptidylprolyl Isomerase A In Acyrthosiphon Pisum, Brandon L. Kennemer Jan 2026

Effects Of Rnai Of Ribophorin 1, Eukaryotic Translation Initiation Factor 2 Beta, And Peptidylprolyl Isomerase A In Acyrthosiphon Pisum, Brandon L. Kennemer

Master's Theses or Doctor of Nursing Practice

Three genes found in the Unfolded protein response, Ribophorin 1, Eukaryotic translation initiation factor 2 beta, and Peptidylprolyl isomerase A are thought to be potential targets for RNA Interference (RNAi) in Acyrthosiphon pisum.  Ribophorin 1 (RPN1) is a transmembrane glycoprotein that assists in anchoring ribosomes to the rough endoplasmic reticulum membrane.  It acts as a substrate-specific chaperone.  It facilitates N-glycosylation by delivering newly synthesized proteins to the oligosaccharyltransferase (OST) complex.  Eukaryotic translation initiation factor 2 beta (eIF2B) is a key component of the eIF2 heterotrimer that facilitates protein synthesis initiation by binding GTP and recruiting a specific transfer RNA to …


Buzzes Over Burrows: Bats And Black-Tailed Prairie Dogs In Western Kansas, Patrick L. Geyer Jan 2026

Buzzes Over Burrows: Bats And Black-Tailed Prairie Dogs In Western Kansas, Patrick L. Geyer

Master's Theses or Doctor of Nursing Practice

The native grasslands of the Great Plains and the organisms that inhabit them are threatened by the anthropogenic disturbance of land-use change; prairie dogs (Genus Cynomys) are one such example. These mammals are considered ecosystem engineers due to their behaviors that physically modify the areas they inhabit, directly affecting the resources available to surrounding organisms. Much research exists on established or potential relationships between black-tailed prairie dogs (Cynomys ludovicianus) and other taxa; until recently, one taxon group absent from mentions of an association with black-tailed prairie dogs was bats (Order Chiroptera). Results of acoustic studies in eastern …


Genomic Characterization Of A Novel Bloom-Forming Cyanobacterial Species From Western Kansas., Louisa Acquah Jan 2026

Genomic Characterization Of A Novel Bloom-Forming Cyanobacterial Species From Western Kansas., Louisa Acquah

Master's Theses or Doctor of Nursing Practice

Harmful cyanobacterial blooms are a danger to freshwater systems, particularly in water limited regions such as western Kansas, yet the genetic identity and diversity of bloom-forming taxa in this region remain poorly characterized. In this study, I investigated a cyanobacterial bloom in Horsethief Reservoir (Kansas, USA) in summer 2024 with the aim of resolving the taxonomic identity and genomic features of the dominant organism. Bloom water samples were collected, and the dominant cyanobacterium was enriched and rendered nearly axenic through controlled cultivation and repeated subculturing. Preliminary 16S rRNA gene sequencing indicated affiliation with the genus Limnothrix, but with notable …


Exploring The Link Between Soil Microbes, And Land Use Through A One Health Lens, Yaw A. Antwi Jan 2026

Exploring The Link Between Soil Microbes, And Land Use Through A One Health Lens, Yaw A. Antwi

Master's Theses or Doctor of Nursing Practice

The diversity of microbes within the soil plays an essential role in soil ecosystem

functioning. However, these microbes may also serve as environmental reservoirs for antibiotic resistance genes. The study examined the diversity of bacteria that are found in soil across Rural/Agricultural and Rural/Nonagricultural landscapes within some selected counties in Kansas and its associated antibiotic resistance genes taxa. A total of twenty-four soil samples was collected and analyzed using 16S rRNA gene amplicon sequencing which targeted the V3-V4 regions. Statistical analysis revealed that the alpha diversity metrics (Chao1 richness and Shannon evenness) showed no significant difference in microbial structure (p=0.693, …


The Synergy Between A Silver-Ruthenium Antimicrobial And Aminoglycosides Is Based On Severe Macromolecular Damage, Emmanuel P. Oladokun, Gracious Y. Donkor, Julius K. Narh, Grady D. Jacobson, Cade Ward, Patrick O. Tawiah, Lisa K. Polzer, Kevin A. Edwards, Kyle A. Floyd, Jan-Ulrik Dahl Jan 2026

The Synergy Between A Silver-Ruthenium Antimicrobial And Aminoglycosides Is Based On Severe Macromolecular Damage, Emmanuel P. Oladokun, Gracious Y. Donkor, Julius K. Narh, Grady D. Jacobson, Cade Ward, Patrick O. Tawiah, Lisa K. Polzer, Kevin A. Edwards, Kyle A. Floyd, Jan-Ulrik Dahl

Faculty Publications – Biological Sciences

The rise of multidrug-resistant (MDR) bacterial pathogens, including uropathogenic Escherichia coli (UPEC), highlights the urgent need for alternative treatment strategies to restore antibiotic efficacy. The silver-ruthenium antimicrobial AGXX exerts potent bactericidal effects through the production of reactive oxygen species (ROS); however, its potential synergy with antibiotics has not been thoroughly investigated. Here, we show that sublethal concentrations of AGXX strongly enhance aminoglycoside-mediated killing across a diverse panel of Gram-negative and Gram-positive MDR clinical isolates, including highly aminoglycoside-resistant strains. Combinational treatments significantly reduced the effective concentrations of gentamicin, tobramycin, kanamycin, and amikacin required to kill bacteria. Mechanistic analyses revealed that AGXX/aminoglycoside …


The Role Of Tumor Microenvironment In Glioblastoma Multiforme(Gbm) Therapeutic Resistance, Kwesi E. Taylor Jan 2026

The Role Of Tumor Microenvironment In Glioblastoma Multiforme(Gbm) Therapeutic Resistance, Kwesi E. Taylor

Master's Theses or Doctor of Nursing Practice

Despite significant advances in cancer research and treatment, Glioblastoma multiforme (GBM) remains one of the most difficult cancers to treat effectively, with minimal improvement in long-term survival rates over the past few decades. This is largely attributed to tumor heterogeneity and the ability of tumor cells to develop adaptive resistance mechanisms supported by the tumor microenvironment (TME). Although the TME is recognized as a key contributor to tumor progression and therapeutic resistance, the underlying molecular pathways and regulatory genes remain incompletely understood. This study investigated the role of the tumor microenvironment in GBM therapeutic resistance using a bioinformatics approach. Single-cell …


Floodwater Salinity And Flood Duration Regulate Greenhouse Gas Production In High- Latitude Coastal Wetland And Tundra Soils, Mia J. Dicianna Jan 2026

Floodwater Salinity And Flood Duration Regulate Greenhouse Gas Production In High- Latitude Coastal Wetland And Tundra Soils, Mia J. Dicianna

Electronic Theses and Dissertations

Coastal high-latitude ecosystems are increasingly flooded from storm surges associated with climate change, exposing soils that were historically infrequently inundated to higher-salinity waters for longer durations. Sub-Arctic wetlands and tundra store large amounts of carbon, yet how flooding characteristics, particularly flood duration, influence microbial mineralization and, consequently, greenhouse gas (GHG) production in these soils remains poorly understood. We conducted a full-factorial microcosm incubation experiment in which coastal wetland and tundra soils were subjected to simulated flooding with three durations (1, 3, and 10 days) and four salinity treatments (unflooded, freshwater, 3 ppt, and 12 ppt) and measured carbon dioxide (CO2) …


An Integrated Evaluation Of Trace Mineral Status, Regional Variation, And Supplementation Effects On Circulating Mineral And Reproductive Performance In American Plains Bison, Bailey M. Rodriguez Jan 2026

An Integrated Evaluation Of Trace Mineral Status, Regional Variation, And Supplementation Effects On Circulating Mineral And Reproductive Performance In American Plains Bison, Bailey M. Rodriguez

Electronic Theses and Dissertations

The continued expansion of the American Plains Bison (Bison bison) industry has increased the need for science-based nutritional recommendations tailored specifically to the species, due to limited species-specific research. Because trace minerals influence immune function, growth, and reproductive performance, establishing baseline mineral status and evaluating responses to supplementation are critical for advancing bison production and conservation efforts. This thesis integrates two complementary investigations to evaluate trace mineral status in American Plains bison at both regional and herd management levels. First, a herd level comparison evaluated the influence of differing mineral supplementation strategies on circulating mineral concentrations, herd performance, and reproductive …


Winter-Feeding High Forage Vs. High Concentrate Diets To Beef Cows: Effects On Placental Transcriptomics, Lactation Capacity, And Enteric Methane Emissions, Megan Ann Wehrbein Jan 2026

Winter-Feeding High Forage Vs. High Concentrate Diets To Beef Cows: Effects On Placental Transcriptomics, Lactation Capacity, And Enteric Methane Emissions, Megan Ann Wehrbein

Electronic Theses and Dissertations

Nutritional management and lactation performance are critical factors influencing productivity in cattle. This research includes two complementary studies. The first study was a meta-analysis to develop a lactation curve for Bos taurus cattle in North America using data from machine or hand milked cows. Data from 7 studies were used resulting in 1340 cow-day observations. Milk yield was analyzed by parity (primiparous or multiparous) and feeding management (non-nutrient restricted or nutrient restricted), revealing that primiparous cattle peaked earlier and at lower yields than multiparous cattle, and nutrient restriction reduced peak milk yield. Overall, Bos taurus cattle followed lactation trends similar …


Absolute Quantification And Identification Of Rna From Rna-Lipid Nanoparticles Using High Resolution Mass Spectrometry, Jason C. Funderburk, Yasir A. Alshehry, Matthew S. Halquist Phd, Sandro R.P. Da Rocha Phd Jan 2026

Absolute Quantification And Identification Of Rna From Rna-Lipid Nanoparticles Using High Resolution Mass Spectrometry, Jason C. Funderburk, Yasir A. Alshehry, Matthew S. Halquist Phd, Sandro R.P. Da Rocha Phd

Graduate Research Posters

Background

RNA therapeutics are a rising drug category with potential use for a range of conditions encompassing infectious diseases to therapies for cancer, diseases, and genetic disorders. RNA-lipid nanoparticles (RNA-LNPs) are the prominent delivery method for these therapeutics approved products include mRNA vaccines and polyneuropathy treatments. The emergency use authorizations and orphan drug status of current RNA-LNP drugs has allowed approval without finalization of the regulatory analytical procedures for quality monitoring. The objective of the study was to develop an LC-MS assay to simultaneously measure identity and concentration of two therapeutically relevant intact RNA constructs extracted from RNA-LNPs to enhance …


Considerations For The Analysis Of Urinary Environmental Chemical Concentrations During Pregnancy, Danielle R. Stevens, Kaleigh Hinton, Katie M. O'Brien, Jessie P. Buckley, Barrett M. Welch, Jason A. Watts, Antonia M. Calafat, Julianne C. Botelho, Elena Sinkovskaya, Ann Przybylska, George Saade, Alfred Abuhamad, Kelly K. Ferguson Jan 2026

Considerations For The Analysis Of Urinary Environmental Chemical Concentrations During Pregnancy, Danielle R. Stevens, Kaleigh Hinton, Katie M. O'Brien, Jessie P. Buckley, Barrett M. Welch, Jason A. Watts, Antonia M. Calafat, Julianne C. Botelho, Elena Sinkovskaya, Ann Przybylska, George Saade, Alfred Abuhamad, Kelly K. Ferguson

Department of Obstetrics & Gynecology Faculty Publications

Background:

Pregnancy physiology may impact indicators of hydration, affecting exposure assessment in gestational studies with urinary chemical biomarkers.

Methods:

We aimed to characterize hydration and demonstrate the impact of different methods for standardizing urinary chemical biomarker concentrations on exposure descriptives in the Human Placenta and Phthalates Study (n = 303, 2017-2020), a prospective pregnancy cohort with eight study visits between 12 and 38 weeks of gestation. We assessed trajectories and predictors of hydration using urine flow rate (UFR) and specific gravity (SG). Likewise, we examined trajectories and predictors of mono-n-butyl phthalate (MBP), for which concentrations were unstandardized or standardized via …


The Critical Role Of Near-Surface Dynamics In Identifying Spawning Areas Of Atlantic Bluefin Tuna In The Gulf Of Mexico, Donald R. Johnson, William J. Teague, Harriet Perry, James S. Franks Jan 2026

The Critical Role Of Near-Surface Dynamics In Identifying Spawning Areas Of Atlantic Bluefin Tuna In The Gulf Of Mexico, Donald R. Johnson, William J. Teague, Harriet Perry, James S. Franks

Gulf and Caribbean Research

Atlantic Bluefin Tuna, Thunnus thynnus (ABFT), migrate long distances to broadcast spawn in the Gulf of Mexico (GOM) basin, the Mediterranean Sea and the Slope Sea (NW Atlantic). These areas have commonalities including a highly dynamic upper ocean eddy environment that draws nutrients from shallow thermoclines and adjacent continental shelves and can provide temporal sanctuaries from some larval predators. In the GOM basin, the Loop Current (LC) and its energetic spin—off eddies sweep weak swimming predators such as jellyfish (Pelagia noctiluca) into lines and aggregations, leaving relatively open areas as temporal sanctuaries for ABFT larvae during the vulnerable …


Oyster Drill (Stramonita Haemastoma Complex) Habitat Preferences In A Shallow Coastal Estuary, Coen Mcgarrah, Cynthia Lupton, Eric Sparks, Jennifer L. Debose Jan 2026

Oyster Drill (Stramonita Haemastoma Complex) Habitat Preferences In A Shallow Coastal Estuary, Coen Mcgarrah, Cynthia Lupton, Eric Sparks, Jennifer L. Debose

Gulf and Caribbean Research

Southern oyster drill snails (Stramonita haemastoma complex) are nuisance organisms within the Gulf of Mexico. This is due to their damaging impact on recovering and farmed oyster (Crassostrea virginica) populations, which are one of the drills’ main food sources. Oyster reef recovery and increased aquaculture production are priorities for Mississippi and the wider northern Gulf coast. The Grand Bay National Estuarine Research Reserve (NERR) hosts multiple oyster reef restoration sites within its boundaries, yet no comprehensive survey of oyster drill abundance has been conducted in this area to date. Additionally, knowledge of oyster drill preferences for sediment …


First Photo-Identification Resighting Of A Male Sperm Whale (Physeter Macrocephalus) Between Guadeloupe, Lesser Antilles And Andøya, Northern Norway, Rocío Prieto González, Lisa Steiner, Zoë Morange, Tiu Similä, Marten Brill, Cédric Millon, Laurent Bouveret Jan 2026

First Photo-Identification Resighting Of A Male Sperm Whale (Physeter Macrocephalus) Between Guadeloupe, Lesser Antilles And Andøya, Northern Norway, Rocío Prieto González, Lisa Steiner, Zoë Morange, Tiu Similä, Marten Brill, Cédric Millon, Laurent Bouveret

Gulf and Caribbean Research

No abstract provided.


Pollutant Load Reduction In Sarasota Bay, Florida (Usa): Target Development, Implementation, And Outcomes, David Tomasko, Mike Wessel, Jon Perry, Chris Anastasiou, Ryan Gandy Jan 2026

Pollutant Load Reduction In Sarasota Bay, Florida (Usa): Target Development, Implementation, And Outcomes, David Tomasko, Mike Wessel, Jon Perry, Chris Anastasiou, Ryan Gandy

Gulf and Caribbean Research

Between 2006 and 2012, seagrass coverage across Sarasota Bay expanded by 1,108 ha, a 28% increase. During the subsequent years of 2012−2020, 830 ha of seagrass were lost, a 16% decline. In response to these findings, resource management efforts focused on determining the likely reason(s) why those 2 periods had such contrasting trends, to come up with strategies to reverse these losses. Based on results from the seagrass data, the 7—y period of 2006−2012 was designated a “reference period” and water quality data were compared against the subsequent 7—y designated “degraded period” of 2013−2019. Annual average chlorophyll-a (chl-a …


Feeding Mode Is Associated With Infant Night Sleep Trajectories During The First Postnatal Year, Magdalena Olson, Li Liu, Elizabeth Reifsnider, Dean V. Coonrod, Sarada S. Panchanathan, Megan E. Petrov, Corrie M. Whisner Jan 2026

Feeding Mode Is Associated With Infant Night Sleep Trajectories During The First Postnatal Year, Magdalena Olson, Li Liu, Elizabeth Reifsnider, Dean V. Coonrod, Sarada S. Panchanathan, Megan E. Petrov, Corrie M. Whisner

Ellmer School of Nursing Faculty Publications

Background: Short sleep and formula feeding during infancy are associated with increased risk of childhood obesity. Feeding practices and sleep arrangements vary during infancy and may also be dynamic, yet their impact on infant night sleep duration remains unclear. Understanding these relationships is crucial for formulating recommendations to support breastfeeding and address sleep concerns. Objective: We examined the association between feeding mode and parent-reported infant night sleep duration during the first postnatal year, while additionally evaluating night-weaning and bedsharing as contextual sleep-related practices. Methods: Infants in the Phoenix Metropolitan Area (n = 193) were followed up at 3, 8, 13, …


Ovarian Cancer Immunology And Immunotherapy: Editorial Note, Chris D. Platsoucas Jan 2026

Ovarian Cancer Immunology And Immunotherapy: Editorial Note, Chris D. Platsoucas

Biological Sciences Faculty Publications

[Introduction] As the guest editor of the Special Issue on Ovarian Cancer Immunology Immunotherapy, I would like to include certain brief comments on the current state of the field and to introduce the Special Issue. Ovarian carcinoma and malignant melanoma are the first human tumors where immune responses, primarily restricted to autologous tumor cells, were first demonstrated. T-cell lines and clones developed in recombinant interleukin-2 (rIL-2) from tumor-infiltrating lymphocytes (TIL) from these tumors exhibited cytotoxicity and/or cytokine production, primarily restricted to autologous tumor cells. The T-cell receptor (TCR) and the CD3 differentiation antigen on effector T cells and HLA on …


Bayesian Multivariate Modelling Of Lone Star (Amblyomma Americanum) Tick Life Stage Abundance And Temporal Trends To Inform Public Health Risk In Virginia, Thabo Lephoto, Henry Mwambi, Oliver Bodhlyera, Holly Gaff Jan 2026

Bayesian Multivariate Modelling Of Lone Star (Amblyomma Americanum) Tick Life Stage Abundance And Temporal Trends To Inform Public Health Risk In Virginia, Thabo Lephoto, Henry Mwambi, Oliver Bodhlyera, Holly Gaff

Biological Sciences Faculty Publications

The increasing abundance of ticks poses a growing public health concern due to heightened human exposure to tick bites. The lone star tick (Amblyomma americanum: Ixodida: Ixodidae), a common human-biting species in the United States, has expanded its range in recent years. However, how its different life stages vary across time, habitats, and locations remains insufficiently understood. We analyzed tick abundance data collected in southeastern Virginia between 2009 and 2018, focusing on larval, nymphal, and adult life stages. A Bayesian multivariate modelling framework was used to examine seasonal patterns, habitat effects, spatial variation, and biological links between life stages. Two …


Left In The (Road) Dust: Analyzing Advanced Clean Cars Ii In California’S Disadvantaged Communities, Jj Hoffman Jan 2026

Left In The (Road) Dust: Analyzing Advanced Clean Cars Ii In California’S Disadvantaged Communities, Jj Hoffman

Pomona Senior Theses

Across the United States, air pollution disproportionately impacts minority groups. California’s Advanced Clean Cars II (ACC II) waiver was positioned to lead to significant environmental justice impacts, such as reductions in emissions and adverse health outcomes, by establishing stricter regulations for vehicle emissions and ensuring that 100 percent of new passenger vehicle sales are zero-emission by 2035. As the federal government recently nullified ACC II, pollution, and by extension health, could worsen, especially in disadvantaged communities. The thesis established several important relationships, including how disadvantaged communities experienced higher traffic, pollution, and worse health outcomes than non-disadvantaged communities. Though the results …


Feral Horses And Native Ungulates: Evaluating The Potential For Competition In Predator–Prey Communities Of Alberta’S Upper Foothills, Birch Gano Jan 2026

Feral Horses And Native Ungulates: Evaluating The Potential For Competition In Predator–Prey Communities Of Alberta’S Upper Foothills, Birch Gano

Graduate Student Theses, Dissertations, & Professional Papers

Feral herbivores are expanding in range and numbers globally, yet their community-level effects in ecosystems are poorly resolved. We evaluated whether feral horses reshape predator–prey–vegetation dynamics in Alberta’s Upper Foothills, Canada, through two pathways; i) potential exploitative competition for forage and ii) apparent competition via shared predators. We combined fecal DNA metabarcoding with remote wildlife cameras to quantify diets, spatiotemporal co-occurrence, and the role of horses in carnivore diet. We analyzed 241 ungulate scats (feral horses, elk, bighorn sheep, cattle, moose, and deer), 96 combined camera-years at 23 sites, and 190 carnivore scats (wolves, cougars, coyotes, bears) from 2023–2025. The …


An Ecological-Evolutionary Investigation Of Phenotypic, Genetic, And Environmental Variation And Correlations Among Reproductive Traits Of Tall Goldenrod (Solidago Altissima), Michael J. Wise, Daniel Lavy, David E. Carr, Warren G. Abrahamson Ii Jan 2026

An Ecological-Evolutionary Investigation Of Phenotypic, Genetic, And Environmental Variation And Correlations Among Reproductive Traits Of Tall Goldenrod (Solidago Altissima), Michael J. Wise, Daniel Lavy, David E. Carr, Warren G. Abrahamson Ii

Faculty Journal Articles

Although fitness-related traits are expected to be under strong selection, traits related to reproduction are often quite variable within plant populations. We used data from two large greenhouse experiments to quantify phenotypic, genetic, and environmental variation, as well as genetic tradeoffs that might help explain the maintenance of withinpopulation variation in four traits related to sexual or vegetative reproduction in tall goldenrod (Solidago altissima). The goldenrod population exhibited high levels of both phenotypic and genetic variation for capitulum (flower head) number and size, seed production, and rhizome growth. Significant negative genetic correlations were present between the number of capitula and …


Frame: Fast Reference-Based Ancestry Makeup Estimation Tool, Pramesh Shakya, Ardalan Naseri, Degui Zhi, Shaojie Zhang Jan 2026

Frame: Fast Reference-Based Ancestry Makeup Estimation Tool, Pramesh Shakya, Ardalan Naseri, Degui Zhi, Shaojie Zhang

Faculty, Staff and Student Publications

Motivation: The availability of large-scale genetic data presents a unique opportunity to study the genetic ancestries of individuals, which requires an efficient and scalable method. The existing global ancestry methods are accurate, but they cannot scale to large genetic datasets. Identity-by-descent (IBD) segments are DNA segments shared by individuals such that they are inherited from a common recent ancestor without recombination. These IBD segments, which reflect co-ancestry, provide an efficient alternative for inferring genetic ancestry.

Results: We introduced a reference-based global ancestry inference method called FRAME (Fast Reference-based Ancestry Makeup Estimation). FRAME utilizes partial local ancestry information estimated through IBD …


An Ensemble Classifier For Ordinal Outcomes In High-Dimensional Genomics Data, Heranga K. Rathnasekara, Sinjini Sikdar Jan 2026

An Ensemble Classifier For Ordinal Outcomes In High-Dimensional Genomics Data, Heranga K. Rathnasekara, Sinjini Sikdar

Mathematics & Statistics Faculty Publications

Analysis of genomics data for predicting disease outcomes is a fast-growing field in medical research. There often exist categorical, specifically, ordinal outcomes that need to be predicted based on genomic profiles. This has led to recent development of some high-dimensional ordinal classification methods that can address the large dimensionality of the genomic covariate set. These high-dimensional ordinal models tend to vary widely in their performance depending on the data they are applied to and the evaluation criteria used. In this article, we outline an ensemble ordinal classifier that integrates different ordinal modeling approaches through bootstrap-based model evaluation, multi-metric performance assessment, …


Does Fishery Management For Groupers (Teleostei: Epinephelidae) Protect Them Effectively? Context From The Iucn's Red List Of Threatened Species, Sean T. Fennessy, Christi Linardich, Kevin Rhodes, Joao P. Barreiros, David Pollard, Eloy Sosa-Cordero, Felicia Coleman, Alfonso Aguilar-Perera, Christopher R. Malinowski, Thierry Brulé, Pedro Afonso, Kayan Ma, Min Liu, Muktha Menon, Colin Wen, Stanley K. H. Shea, Sean N. Porter, Matthew Craig, Yvonne Sadovy De Mitcheson Jan 2026

Does Fishery Management For Groupers (Teleostei: Epinephelidae) Protect Them Effectively? Context From The Iucn's Red List Of Threatened Species, Sean T. Fennessy, Christi Linardich, Kevin Rhodes, Joao P. Barreiros, David Pollard, Eloy Sosa-Cordero, Felicia Coleman, Alfonso Aguilar-Perera, Christopher R. Malinowski, Thierry Brulé, Pedro Afonso, Kayan Ma, Min Liu, Muktha Menon, Colin Wen, Stanley K. H. Shea, Sean N. Porter, Matthew Craig, Yvonne Sadovy De Mitcheson

Biological Sciences Faculty Publications

Worldwide, groupers (Epinephelidae) are commercially valued fishes, which also play key ecological roles on tropical and subtropical reefs. In 2007 and 2016, the IUCN's Groupers and Wrasses Specialist Group assessed all 160+ grouper species, with 17 of these being identified as threatened in 2016 and the major threat factor being overexploitation. Our present study aimed to identify whether management measures (MMs) for previously assessed groupers were established, whether these measures aligned with IUCN's Red List categories, and whether they effectively protect grouper populations. Experts in grouper biology and management assigned scores per grouper species based on the extent to which …


Three Decades Of Classifying Threatened Species: Lessons Learned From And About The Iucn Red List Criteria For Quantifying Extinction Risk, H. Resit Akçakaya, E. J. Milner-Gulland, Mike Hoffmann, Helen M. Regan, Ilona Naujokaitis-Lewis, Andre E. Punt, Kevin J. Gaston, David A. Keith, Stuart H. M. Butchart, Simon N. Stuart, Nigel J. Collar, Moreno Di Marco, Monika Bohm, Alex J. Berryman, David P. Mallon, Axel Hochkirch, Nicholas K. Dulvy, Malin Rivers, Thomas M. Brooks, James R. S. Westrip, Jonathan Paul Rodriguez, Craig Hilton-Taylor, Janet Scott, Simon Tarr, Sophie H. Ledger, Christi Linardich Jan 2026

Three Decades Of Classifying Threatened Species: Lessons Learned From And About The Iucn Red List Criteria For Quantifying Extinction Risk, H. Resit Akçakaya, E. J. Milner-Gulland, Mike Hoffmann, Helen M. Regan, Ilona Naujokaitis-Lewis, Andre E. Punt, Kevin J. Gaston, David A. Keith, Stuart H. M. Butchart, Simon N. Stuart, Nigel J. Collar, Moreno Di Marco, Monika Bohm, Alex J. Berryman, David P. Mallon, Axel Hochkirch, Nicholas K. Dulvy, Malin Rivers, Thomas M. Brooks, James R. S. Westrip, Jonathan Paul Rodriguez, Craig Hilton-Taylor, Janet Scott, Simon Tarr, Sophie H. Ledger, Christi Linardich

Biological Sciences Faculty Publications

The IUCN Red List of Threatened Species, the most widely used global system for assessing species' extinction risk, has become a foundational source of information for conservation management, policy and research. Since the adoption of quantitative extinction risk criteria more than three decades ago, the Red List has expanded substantially in scope and influence, informing decisions ranging from species conservation and protected area designation to international agreements, corporate risk assessments and global biodiversity indicators. Given its central role, maintaining scientific rigour, transparency and trust in the Red List system is essential. Feedback from users, emerging from evolving applications and scientific …


Eeg Signatures Of Motor Development In Early Childhood: A Systematic Review, Sonia Khurana, Ashwini Kulkarni, Thomas C. Bulea, Hunter J. Bennett Jan 2026

Eeg Signatures Of Motor Development In Early Childhood: A Systematic Review, Sonia Khurana, Ashwini Kulkarni, Thomas C. Bulea, Hunter J. Bennett

Rehabilitation Sciences Faculty Publications

Background

Early identification of motor developmental disorders is limited due to lack of objective neural markers that characterize typical neurodevelopmental patterns. This systematic review interprets and synthesizes existing evidence to propose a framework of EEG signatures associated with motor development in children aged 0-5 years, which may help inform future benchmarks for early assessment and intervention.

Methods

Following PRISMA guidelines, we searched published and gray literature across five databases between 2000 and 2025 (registered protocol). Included studies examined EEG during task-based, resting-state, or sleep studies linked to motor milestones, task performance, or standardized motor assessments. Study quality was assessed using …


Characterization Of Phytoplankton-Excreted Metabolites Mediating Carbon Flux Through The Surface Ocean, Yuting Zhu, Hanna S. Anderson, Eli Salcedo, Samuel E. Miller, Krista Longnecker, Melissa C. Kido Soule, Sheean T. Haley, Gretchen J. Swarr, Rogier Braakman, Sonya T. Dyhrman, Elizabeth B. Kujawinski Jan 2026

Characterization Of Phytoplankton-Excreted Metabolites Mediating Carbon Flux Through The Surface Ocean, Yuting Zhu, Hanna S. Anderson, Eli Salcedo, Samuel E. Miller, Krista Longnecker, Melissa C. Kido Soule, Sheean T. Haley, Gretchen J. Swarr, Rogier Braakman, Sonya T. Dyhrman, Elizabeth B. Kujawinski

Chemistry & Biochemistry Faculty Publications

The marine labile dissolved organic carbon (DOC) pool is a dynamic reservoir of thousands of molecules that cycles approximately one-quarter of Earth’s primary production within days to weeks. After excretion by phytoplankton and other microbes, metabolites are rapidly consumed, resulting in low standing concentrations (picomolar to low nanomolar). Despite the decades-long search for labile DOC sources and molecular identities, marine phytoplankton exometabolomes are not well characterized, largely due to difficulties in measuring small polar molecules in saline water. Here, we profiled the exometabolomes of six axenic phytoplankton species representing key functional groups including a diatom (Thalassiosira pseudonana CCMP1335), a …