Biology Commons^™

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

Biological Sciences: Faculty Publications

No abstract provided.

Evolution As Spatial Projection, Charles H. Smith, Ngoc Nguyen

Faculty/Staff Personal Papers

A theory combining explanations for the nature of three-dimensional systems and evolutionary processes is advanced, set to a geometric simulation, and then discussed in the context of several empirical studies bearing on its validity. The concept “evolution” is first discussed, then related to Baruch de Spinoza’s ideas on natural philosophy, including his concept of the conatus. These ideas are then extended by posing the possible existence of a general form of natural systems subsystemization leading to the extended space condition. A geometrical/topological simulation study projecting spatial relations among subsystem structures interpretable through entropy maximization and multidimensional scaling methods is presented, …

Nedd 4 Pyre-Fighters To Extinguish Inflammation: Nedd4l Ubiquitinates Gasdermin D And Gasdermin E To Dampen Pyroptosis, Kailash Gulshan

Biological, Geological, and Environmental Faculty Publications

No abstract provided.

Imidacloprid Effects On The Survival And Cutaneous Microbiome Of Northern Leopard Frogs, Evelyn Margaret Osterloo

Honors Thesis

Amphibians are experiencing population declines due to habitat loss, climate change, and diseases, particularly chytridiomycosis caused by the fungus Batrachochytrium dendrobatidis. Protection from this fungal infection stems from the cutaneous microbiome. Pesticides have been shown to affect amphibians in a variety of ways, including reducing survival, locomotor performance, and accumulation in body tissues. Pesticides may also lead to changes in the cutaneous microbiome affecting amphibians who rely on these organisms as an anti-Bd defense mechanism. To investigate the effect of imidacloprid, a neonicotinoid insecticide, Northern Leopard frogs (Lithobates pipiens) were subjected to sublethal concentrations (control = …

First High-Quality Genome Assembly Of Umbelopsis Nana Isolated From Forest Soil, Ryuka Iizuka, Tomohiro Suzuki, Nozomu Watanabe, Javier F. Tabima, David Hibbett, Yoko Katayama, Makoto Yoshida

Biology

Species of the genus Umbelopsis are ubiquitous soil saprotrophic fungi known for their role in ecological nutrient cycling and biotechnological potential in lipid production. Here, we present the genome assembly of Umbelopsis sp. strain THIF13, which is characterized by its capability to produce carbonyl sulfide. Using PacBio Sequel long-read data, a high-quality genome assembly was generated comprising 18 contigs totaling 27.2 Mb, which is larger than other Umbelopsis genomes, with an N50 of 1.77 Mb. Notably, 16 contigs were flanked by telomeric repeats at both ends. The assembly showed high completeness, with 98.1% complete Benchmarking Universal Single-Copy Orthologs and 11.15% …

Alabama Prairie Reconstruction: Comparing Management Pathways For A Southeastern Landscape, Cecelia R. Geyer

Theses

Southeastern prairies are highly biodiverse yet increasingly threatened by land-use change, fire suppression, and habitat fragmentation. These disturbance-dependent systems rely on periodic fire and grazing to maintain plant diversity and ecosystem function. This study evaluates prairie restoration strategies by testing predictions from the Intermediate Disturbance Hypothesis and the Patch Mosaic Burn Hypothesis. The study site was divided into three treatments: prescribed burned only (B), prescribed burned with mowing (BM) to simulate grazing, and an undisturbed control (C). A standardized mix of native plant seeds was broadcast across all treatments. Ecosystem health and function were evaluated using plant community diversity and …

Abundance Of Microplastics In The Water And Stream Fish Of Big Walnut Creek, David J. Hartman

Undergraduate Honors Thesis Projects

Microplastics are a major threat to both ecosystem and human health. In this study, I investigated the abundance of microplastics at five sites along Big Walnut Creek, Ohio including sites upstream, downstream, and within urban development. Samples were taken from the stream surface water and fish at each site. Microplastics were detected in the surface water and fish at all five sites with a total of 383 microplastic particles found in the 157 fish collected for this study. The mean concentration for all sites was 80.8 particles/m3 in the surface water and 2.4 particles per fish. Microplastics were almost entirely …

A Double-Edged Sword? Liana Wood Decomposes Faster Than Tree Wood, Denis Mburu Njoroge, Aphrodis Munyaneza, Juan Zuo, Gbadamassi G. O. Dossa, Douglas Schaefer, Rhett D. Harrison, Stefan A. Schnitzer, J. Hans C. Cornelissen

Biological Sciences Faculty Research and Publications

Lianas are increasing in many forests and show higher stem turnover rates and different chemical profiles compared with trees. However, liana deadwood decomposition dynamics have been overlooked. We redress this omission and hypothesize that liana wood decomposes faster than tree wood due to its larger vessels and higher nutrient content than trees, resulting in greater activity of both microbial and invertebrate decomposers. We tested this hypothesis in a common-garden decomposition experiment with deadwood of two size classes (2.5 and 4 cm diameter) belonging to 12 liana and 12 tree species in tropical China. Liana wood decomposed 28.6% faster than tree …

Pfas And Western Diet Effects On Adolescent Rat Feeding And Metabolism, Whesli Kim

Theses and Dissertations from DePaul University

Per- and polyfluoroalkyl substances (PFAS) are a class of widespread persistent organic pollutants associated with metabolic and neural dysfunction in humans. These processes are also affected by Western diet high sugar high fat contents. However, interacting effects of PFAS exposure and Western diet on metabolic regulation and feeding behavior have not been tested. Exposure to PFAS is high during sensitive gestational and neonatal periods of development. Adolescence is a key period where nutritional demands shift, eating habits are established, and gonadal hormones change. This study tests the hypothesis that early life exposure to PFOS alters adolescent metabolic function and feeding …

Analysis Of Mitochondrial Dna Haplotype Groups For South Texas Canids, Canis Rufus, After Past Hybridization Events, Isabella Lopez

Presentations - 2026

mtDNA: mitochondrial DNA; passed from maternal parent to offspring (Haplotype)

Haplotype:  a group of genes or genetic markers inherited together from a single parent (Haplotype)

Mitochondrial DNA haplotypes specific sequences of mtDNA that is passed exclusively from maternal parent to offspring (Giles et al. 1980)

Pro's:

It is passed unchanged from mother to offspring, meaning it is fairly stable (Giles et al. 1980)

Each cell has multiple mitochondria vs one nucleus , which means mtDNA it is more likely to be recoverable from degraded samples like scat (Templeton et al. 2013)

Bird Population Response To Abiotic And Biotic Stresses In Urban & Restored Oak Savannah Habitat, Annabelle Ball

Posters - 2026

Birds are heavily impacted by urban development. Many experience habitat fragmentation and removal of food sources. However, other species can adapt to and even thrive in urban environments, thanks to certain tree species, bird feeders, and buildings. In North America, the house sparrow and the European starling are invasive species that benefit from urban environments (Bartelt, 2011; Fitzwater, 2014). Meanwhile, many habitats across the continent are experiencing restoration/rewilding efforts for the benefit of birds. One such habitat is the oak-savannah, which is characterized by 10-30% canopy cover and a mixture of prairie & woodland vegetation, supporting a high diversity of …

Comparison Of Levels Of Bmi, Stress, And Depression Of Women During The Prenatal Period Relative To Their Activity Levels, Kalayna King

Honors Theses

This study aimed to analyze the relationships between activity levels, Body Mass Index (BMI), stress levels, and depression symptoms in obese pregnant women in Arkansas. Two separate exercise intervention studies were combined in this analysis to ultimately give a sample size of 293 pregnant women who were randomized into standard of care group (control) and an exercise group (treatment/experimental) (n = 115 and n = 178, respectively). Women in the control groups were instructed to independently continue to follow the physical activity guidelines recommended by their gynecologist, whereas the experimental groups participated in a combination of aerobic and resistance exercise …

Characterization Of A Core Fungal Community And Captivity-Induced Gut “Mycobiome” Change In Fowler's Toad (Anaxyrus Fowleri), Alexander J. Bradshaw, Sinlan Poo, Tracey E. Malter, Rylie M. Strasbaugh, Brianna Bodner, Madison R. Hincher, Anne Devan-Song, Javier F. Tabima

Biology

Amphibious animals, such as frogs, are found at the intersection of aquatic and terrestrial ecosystems. They may serve as keystone and sentinel species and play key roles in nutrient cycling and food webs. In recent decades, amphibians have experienced drastic population declines due to habitat loss, climate change, and disease. These declines have prompted investments in ex situ conservation and captive breeding programs, which aim to reduce extinction risk by creating assurance colonies and reintroducing individuals once threats are mitigated. A critical component of these programs is proper husbandry, which ensures the health and longevity of captive populations and their …

Developing A Range Prediction For The Imperiled Florida Harvester Ant (Pogonomyrmex Badius) Using Species Distribution Modeling, Noah Williamson

Honors Theses

The Florida Harvester Ant (Pogonomyrmex badius) was once widespread and commonplace throughout the sandhills of the Southeastern United States, providing key ecosystem services, such as seed dispersal and soil aeration. Over recent decades, however, Florida Harvester Ant populations have declined in some areas. Current literature postulates that Red Imported Fire Ants (RIFA), and the insecticides used to manage them, as well as further human encroachment onto their habitat, all likely contributed to Florida Harvester Ant population declines. Thus, to better protect these organisms, pursue data-driven conservation efforts, and guide management practices, more information about their nest site selection, as well …

Final Project: Nutrition And Human Disease, Sam Newberry Ph.D.

School of Arts & Sciences

This assignment is made up of a series of smaller assignments that were developed by SUNY Geneseo Professor Sam Newberry during the spring 2026 semester.

Learning Objectives

• Identify and demonstrate understanding of audience needs
• Identify nutritional issues associated with human disease
• Clear communication of information via an Infographic
• Proper utilization of scholarly sources of information

Biol 210: Nutrition (Syllabus), Sam Newberry Ph.D.

School of Arts & Sciences

This syllabus was developed by SUNY Geneseo Professor Sam Newberry during the spring 2026 semester.

Course Learning Objectives:

Students who are active participants and complete course requirements will be able to: 

1. Demonstrate familiarity with nutrients, their food sources, their functions, and signs and symptoms of deficiency or excess.
2. Demonstrate familiarity with biological, psychological, social and cultural factors that influence human diet and nutrition.
3. Describe and explain in class discussion and on exams the relationship between diet and health, particularly for selected public health issues.
4. Demonstrate familiarity with nutritional guidelines used in the United States, and the challenges of establishing such …

Career Readiness In Developmental Biology Module, Travis Bailey Ph.D.

School of Arts & Sciences

This set of activities were developed and modified by SUNY Geneseo Professor Travis Bailey in the spring 2026 semester.

Biol 454: Developmental Biology (Syllabus), Travis Bailey Ph.D.

School of Arts & Sciences

This syllabus was developed by SUNY Geneseo Professor Travis Bailey in the spring 2026 semester.

Learning Outcomes-Students will:

• Understand the methods scientist use to explore the genetic, cellular, and tissue control of development.
• Compare and contrast developmental strategies of model organisms.
• Read primary literature critically and explain strengths and weaknesses.
• Test hypotheses with self-designed experimentation, measurement and data collection, evaluation of evidence, and employment of mathematical analysis.
• Relate discoveries from model animals to human conditions.
• Communicate findings orally and in writing.
• Integrate multiple bodies of knowledge with their personal experience by asking meaningful questions about real-world problems
• Apply skills, theories, …

Leveraging Aspiring And Inspiring Mentorship Relationships To Promote Stem Persistence, Rayann K. Hoppe

Honors Thesis

While several mentorship interventions for STEM students already exist, persistence and retention in STEM fields remain relatively low. Additionally, there is limited research examining the intersections between aspiring (upward) and inspiring (downward) mentorship roles.

This article aims to address these gaps by examining existing literature and mentorship frameworks, with a focus on how mentorship dynamics influence STEM persistence. Two principal findings emerge from the literature: (1) effective mentorship should be conceptualized as an interconnected ecosystem rather than a hierarchical structure, and (2) the intersection of aspiring and inspiring roles contributes to the development of identity, self-efficacy, and a sense of …

An Insight Into The Venom Gland Proteome Of The Two-Spined Trap-Jaw Ant, Odontomachus Haematodus, Aaron Morgan

Honors Theses

Ants are ecologically important and highly abundant organisms, playing key roles in many ecosystems. One recently introduced species in the southeastern United States is Odontomachus haematodus (the two-spined trap-jaw ant), a South American native that has often been misidentified, contributing to limited research on its biology and venom composition. This study aimed to provide the first detailed characterization of the venom apparatus and proteome of O. haematodus. Specimens were collected and dissected, and venom-related proteins were extracted and analyzed using SDS-PAGE and tandem mass spectrometry (MS/MS-ESI). Confocal microscopy was also used to visualize the sting apparatus, including F-actin filaments and …

Emerald Bowfin Amia Ocellicauda Ecology In Three Minnesota Lakes: Abundance, Age Analysis, Diet Composition, And Stable Isotope Food Web, Griffin Blegen

Biology Graduate Theses

The Emerald Bowfin Amia ocellicauda is a predatory fish species native to Minnesota that has often been discriminated against. This research expands ecological knowledge of Bowfin in Minnesota and provides population data to guide future management. Bowfin were sampled in the spring of 2024 and 2025 and a multi-census mark–recapture model was used to estimate abundance in three lakes. Estimated populations were 196 individuals in Little Toad Lake (95% CI: 116, 242) or 4.4 fish/littoral ha (95% CI: 2.7,5.7), 657 in Lake Sarah (95% CI: 436, 1014) or 4.2 fish/littoral ha (95% CI: 3.0, 6.7), and 612 in Gun Lake …

Small Jellyfish, Large Consequences: The Overlooked Predatory Role Of Hydromedusae In Subtropical Estuarine Ecosystems, Guilherme M. Von Montfort, Kelly R. Sutherland, Sean Colin, John H. Costello, Renato M. Nagata

Arts & Sciences Faculty Publications

Hydromedusae are often overlooked in pelagic trophic ecology compared to large scyphozoans. We investigated the diet, prey selectivity, ingestion rates, digestion times, and predation impacts of the native Liriope tetraphylla and non-indigenous species Cnidostoma fallax and Moerisia inkermanica in a subtropical estuary of the southwestern Atlantic. While all three species predominantly consumed copepods, L. tetraphylla exhibited the broadest diet and highest number of preys in gut content (up to 13). Digestion time for L. tetraphylla decreased significantly with increasing temperature, from 94 min at 18°C to 64 min at 28°C, with Q10 values showing that digestion rates roughly double with …

Qualitative And Quantitative Analysis Of The Sk-3 I398 Interval In Neurospora Crassa, Tapasvi Bhatt

Senior Theses – Biological Sciences

Spore killer-3 (Sk-3) is a selfish genetic element on Chromosome III of Neurospora that biases its own transmission by killing meiotic products that fail to inherit the element. Although the resistance component of Sk-3 is known, the killer has not been identified. Previous deletion mapping confined the candidate killer region to a small block of DNA near interval i350 and suggested that the nearby 178 bp interval i398 might show different behavior in qualitative versus quantitative assays. The goal of this thesis was to construct and analyze an Sk-3 i398Δ strain and determine whether deletion of i398 …

Lactation-Stage Specific Protein Shifts In Koala Milk Mirror The Joey's Growth Needs, Manujaya W. Jayamanna Mohottige, Angéla Juhász, Emma Peel, Mitchell G. Nye-Wood, Katherine A. Farquharson, Tawfeek Khedr, Katherine Belov, Carolyn J. Hogg, Michelle L. Colgrave

Research outputs 2022 to 2026

AbstractKoalas (Phascolarctos cinereus) give birth to highly altricial young that rely on maternal milk for nutritional support and immune protection in the first year of life. This study applied proteomics to analyse stage-specific shifts in the koala milk proteome across early-, mid-, and late-lactation. Proteins were extracted from seven samples and analysed using liquid chromatography-tandem mass spectrometry. Quantitative profiling identified 874, 1220, and 498 proteins in early-, mid- and late-lactation stages, respectively. The most abundant proteins—including β-lactoglobulin, caseins, clusterin, trichosurin, albumin and lactotransferrin—were consistently detected across all stages, reflecting crucial roles in nutrition, immune function, and detoxification. Protein–protein interaction analyses …

A Computational Assessment Of Halobacterium Salinarum Glutamate Dehydrogenase Enzymes, Maaz Abdalla

Theses

Glutamate dehydrogenase (GDH) is a hexameric enzyme. GDH is involved in several pathways and cellular processes such as oxidation-reduction homeostasis, ammonia metabolism, lipid biosynthesis, insulin and lactate production, and acid-base equilibrium. The main objective of this thesis is to understand the structural and biochemical properties of this enzyme and why some organisms, for e.g., Halobacterium salinarum, have more than one GDH with different coenzyme specificities. The catabolism of glutamate is linked to NAD+ specific GDHs, meanwhile, NADP+ specific GDHs play an anabolic role in ammonia assimilation. Molecular docking and binding free energy calculations were employed followed by long-scale (500 nanoseconds) …

Optimizing Duckweeds Harvesting Strategies To Maximize Nutrient Recovery And Its Role As A Phytosensor In Different Water Sources While Maintaining Sustainable Biomass Growth, Basma Ghannam

Theses

This thesis is concerned with determining the optimal water treatment and harvesting strategy for Lemna minor duckweed plants. The main objective of this thesis is to examine how duckweed plants grow in terms of biomass, photosynthetic activity, leaf morphology, chlorophyll and carotenoid content, and their efficiency in nutrient removal from different water sources. The methodology of the study included assessing duckweed in three water samples including tap water, saline water, and greywater and three harvesting strategies, including low, medium, and high harvesting intensities to assess their growth and nutrient removal efficiency. The results of the study showed that L. minor …

Swimming Behavior Of Longfin Squid Doryteuthis Pealeii Paralarvae: Escape Jets To Pirouettes, Mel Lhuillier

Biological Sciences Theses & Dissertations

Upon hatching, squid paralarvae must become proficient at locomotion and prey capture before their yolk reserves are depleted, while also contending with the physical constraints associated with low/intermediate Reynolds number (Re) environments. Although some aspects of behavior and jet dynamics have been examined in squids during early ontogeny, little is known about routine behaviors in paralarvae, whether repeatable patterns are employed, or how these behaviors are achieved dynamically. To better understand swimming behaviors and the propulsive flows that drive them in paralarvae, high-speed video data and digital particle image velocimetry (DPIV) data were collected simultaneously from longfin squid Doryteuthis pealeii …

Role Of Listeria Adhesion Protein In Monocyte-Associated And Extracellular Translocation Of Listeria Monocytogenes Across The In Vitro Placental Barrier Co-Culture Model, Ayesha Atique

Biological Sciences Theses & Dissertations

Listeria monocytogenes is a facultative intracellular foodborne pathogen capable of crossing the placental barrier, leading to miscarriage, stillbirth, and neonatal sepsis, and has a fetal/neonatal fatality rate of ~20–30%. Although the importance of canonical virulence factors such as Internalin A (InlA) and Internalin B (InlB) in L. monocytogenes crossing of the placental barrier has been demonstrated, clinical strains lacking functional canonical internalins have been reported to cause severe neonatal disease, suggesting additional mechanisms of placental translocation.

To investigate these virulence mechanisms, we adapted a physiologically relevant co-culture human placental barrier Transwell model composed of BeWo trophoblasts and primary human placental …

Mitochondria Dynamics In Microglia During Health, Inflammation, And Aging, Alicia Nicole Pietramale

Dartmouth College Ph.D Dissertations

Microglia continually surveil the brain, allowing for rapid detection of tissue damage or infection. Microglial metabolism is linked to tissue homeostasis, yet how mitochondria are subcellularly partitioned in microglia and dynamically reorganize during surveillance, injury responses, and phagocytic engulfment in the intact brain has remained unclear. In this dissertation, I combine intravital imaging, ultrastructural analyses, and metabolic and cytoskeletal markers to investigate how mitochondrial organization relates to microglial function across health, inflammation, and aging.

I first show that microglial processes diverge in their mitochondrial content, with some containing multiple mitochondria while others are completely void. This heterogeneous partitioning is conserved …

Exchanging Genes Within A City: Analysis Of Pollen Flow Patterns In A Narrow Endemic Plant Species Threatened By Urbanisation, Nicola Delnevo, Andrea Piotti, Eddie J. Van Etten, William D. Stock, David L. Field, Margaret Byrne

Research outputs 2022 to 2026

Human-driven habitat fragmentation is known to disrupt gene flow in a wide range of species. However, its consequences for endemic plant species that depend on specialised invertebrate pollinators remain poorly understood. Although honeybees are capable of travelling considerable distances while foraging, many small-bodied native bee species lack the capacity to expand their foraging ranges or cross anthropogenic barriers, rendering habitat fragmentation the most significant threat to these ecological interactions. In many long-lived plants, the time since fragmentation has not been long enough for detectable changes in the genetic composition of standing populations. Changes in dispersal patterns observed in seedlings may …