Biology Commons^™

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.

Genetic Aspects Of Resilience In The Foundational Seagrass Halodule Wrightii: The Role Of Genetic Variation And Gene Expression In Maintaining Primary Production, Anastasia M. Konefal

LSU New Orleans Theses and Dissertations

Seagrasses are coastal foundation species which significantly contribute to the primary production of shallow water ecosystems and provide several services. However, seagrasses, like other coastal foundation species, are threatened by myriad anthropogenic stressors. Conservation is difficult in ecosystems under multiple threats where the factors that contribute to production are not easily elucidated. Genetic diversity and gene expression may be related to the function and stability of populations but are rarely considered in management plans. High genetic diversity and the associated trait variation within a population are known to contribute to higher function and stability of a population. Additionally, individual-level changes …

Survival Of The Smartest? The Evolutionary Ecology Of Cognition In Anolis Lizards, Mahaut V. Sorlin

LSU New Orleans Theses and Dissertations

Cognitive processes such as learning, memory, and decision-making are integral to an organism’s fitness, allowing to integrate cues from its environment and adjust its behavior accordingly. Historically, cognitive abilities were thought to have evolved according to a Scala Naturae design—an idea that has since been disproven—which suggested that complex cognitive abilities were exclusive to “higher” taxa. This perspective has created significant phylogenetic gaps in our understanding of cognitive evolution. In this dissertation I aimed to address this issue by investigating the evolution of cognition in reptiles, focusing on the green (Anolis carolinensis) and the brown anole (Anolis …

Integrated Transcriptomics And Proteomics Study Of Starvation Selected Drosophila Melanogaster, Aavash Adhikari

UNLV Theses, Dissertations, Professional Papers, and Capstones

Drosophila melanogaster, selected for starvation resistance exhibits phenotypic traits such as increased body size, slower development, reduced fecundity and obesity like characteristics including higher lipid reserves and cardiac dysfunction. While prior studies have explored the metabolic and biochemical changes in these flies, the underlying genetic and molecular mechanisms remain unclear. This study aims to investigate the gene expression and protein abundance in starvation-selected Drosophila through RNAseq, proteomics, and integrating both datasets using the MixOmics package in R. I found differential gene expression in the fat body at the third instar larval stage, particularly in pathways related to lipid metabolism, calcium …

Physiology And Genomics At The Bottom Of The World: Genome To Phenome, Amy Christine Klink

UNLV Theses, Dissertations, Professional Papers, and Capstones

Mammals are exposed to a suite of physiological challenges based on the environment in which they inhabit. Animal individuals can overcome challenges associated with the dynamic nature of their habitat through variation in phenotypic traits. The plasticity of a phenotype relies on an individual’s genome and the transcription factors that act on regulatory elements. Species living in Antarctica display physiological specializations to withstand harsh conditions, such as severe cold temperatures, shifts in available ice habitat, and annual fluctuations in daylight. To explore the connections between an individual’s genome and its phenotype, we investigated two physiologies of the Antarctic Weddell seal …

Dissecting Metabolic Landscape Of Alveolar Macrophage, Sunayana Malla

Department of Chemical and Biomolecular Engineering: Dissertations, Theses, and Student Research

The highly plastic nature of alveolar macrophage (AM) plays a crucial role in the defense against inhaled particulates and pathogens in the lungs. Depending on the signal, AM acquires either the classically activated M1 phenotype or the alternatively activated M2 phenotype. In this study, we investigate the metabolic shift in the activated phases of AM (M1 and M2 phases) by reconstructing context specific genome-scale metabolic (GSM) models. Metabolic pathways such as pyruvate metabolism, arachidonic acid metabolism, chondroitin/heparan sulfate biosynthesis, and heparan sulfate degradation are found to be important driving forces in the development of the M1/M2 phenotypes. Additionally, we formulated …

Short-Term Soil Fungal Community Dynamics Following Fire In Mediterranean Climate-Type Banksia Woodlands, Aaron J. Brace, Katinka X. Ruthrof, Ben P. Miller, Joseph B. Fontaine, Anna J.M. Hopkins

Research outputs 2022 to 2026

Fire is a dominant ecosystem process in many Mediterranean climate type ecosystems, and is predicted to increase in severity and frequency, shifting away from previous regimes in many regions. Responses of flora and fauna to fire are relatively well studied, but less is known about the responses of belowground microbiota. We quantified soil fungal dynamics over the first 12–15 months after fire, focusing on attributes of the fire regime (season, interval, severity). Soil samples were collected from three sites in a threatened woodland ecosystem in southwestern Australia, a Mediterranean-type climate region. Fungal taxa were identified via high throughput sequencing of …

Unravelling Large-Scale Patterns And Drivers Of Biodiversity In Dry Rivers, Arnaud Foulquier, Thibault Datry, Roland Corti, Daniel Von Schiller, Klement Tockner, Rachel Stubbington, Mark O. Gessner, Frédéric Boyer, Marc Ohlmann, Wilfried Thuiller, Delphine Rioux, Christian Miquel, Ricardo Albariño, Daniel C. Allen, Florian Altermatt, Maria Isabel Arce, Shai Arnon, Damien Banas, Andy Banegas-Medina, Erin Beller, Melanie L. Blanchette, Joanna Blessing, Iola Gonçalves Boëchat, Kate Boersma, Michael Bogan, Núria Bonada

Research outputs 2022 to 2026

More than half of the world’s rivers dry up periodically, but our understanding of the biological communities in dry riverbeds remains limited. Specifically, the roles of dispersal, environmental filtering and biotic interactions in driving biodiversity in dry rivers are poorly understood. Here, we conduct a large-scale coordinated survey of patterns and drivers of biodiversity in dry riverbeds. We focus on eight major taxa, including microorganisms, invertebrates and plants: Algae, Archaea, Bacteria, Fungi, Protozoa, Arthropods, Nematodes and Streptophyta. We use environmental DNA metabarcoding to assess biodiversity in dry sediments collected over a 1-year period from 84 non-perennial rivers across 19 countries …

In Vitro Investigation Of The Potential Therapeutic Implications Of Safranal On Gastric Cancer, Aisha Juma Al Otaibi

Theses

Despite the fact that gastric cancer patients are indispensable to conventional radiation and chemotherapy, the detrimental side effects of those approaches prompt cancer research to seek new integrative treatments. In this respect, safranal (SAF) stands out as a complementary phytotherapeutic drug with exceptional anticancer properties. Concurring studies have shown that SAF is negatively associated with several cancer types, yet its potential therapeutic impact on gastric cancer remains vastly obscure. Thus, this dissertation sought to investigate SAF's prospective tumoricidal ability and its underlying mechanisms of action on gastric cancer in vitro. Herein, the study evaluated the cytotoxicity of SAF on …

Preparing Educators To Effectively Engage With Postsecondary Stem Students With Autism, Luzconsuelo Gavaldon

Open Access Theses & Dissertations

Autism spectrum disorder (ASD) is a lifetime mental disability (Boucher, 2009). Because the brains of people with autism work differently than their non-neurodiverse peers (Kuzminskaite et al., 2020), they tend to respond to external stimuli in a hypo- or hyper-sensory fashion. One of the primary considerations that must be accounted for when working with individuals with autism is that the brains of these persons are each neurologically distinct. In other words, there is no "one-size-fits-all" means by which individuals with ASD learn and develop and, consequently, no single way to therefore engage with said individuals (Anderson & Butt, 2017; Kuzminski …

Evolutionary History Of A Specialized And Diverse Highland Snake Complex (Crotalus Willardi), Michael Joseph Buontempo

Open Access Theses & Dissertations

The Ridgenosed rattlesnake (Crotalus willardi) is a highly unique group of small rattlesnakes consisting of 5 subspecies that inhabit the high elevation pine oak woodlands of the Sierra Madre Occidental and the Madrean Archipelago. They remain one of the most understudied groups of rattlesnakes with little understanding of the relationships between the subspecies. I utilize genomic level genetic data collected using ddRAD-seq methodology on 60 individuals encompassing all 5 subspecies and the majority of the range. Utilizing co-ancestry analysis, Admixture, and Phylogenetic analyses (both maximum likelihood and Bayesian approaches) we uncovered seven separate genetic groups. Of these, three consisted of …

Implementing The Methodology To Generate Diagnostic And Therapeutic Antibodies, Andrea Mariana Carlin

Open Access Theses & Dissertations

This research aimed to establish the methodology for developing monoclonal antibodies at The University of Texas at El Paso. Monoclonal antibodies are indispensable across multiple fields, including diagnostics, therapeutics, and biotechnology, yet there is a shortage of commercially available antibodies targeting specific proteins or possessing specialized characteristics. To address this gap, three models were selected: a peptide derived from the intracellular protein Schlafen 8 and two cell surface protein receptors: mouse vascular endothelial growth factor receptor 2 (VEGFR2) and human melanocortin receptor 4 (MC4R). These proteins present unique challenges in antibody generation, including issues of accessibility, expression, and specificity.

Throughout …

Accumbal Plasticity And Associated Behavioral Adaptations In The Spared Nerve Injury Model Of Chronic Neuropathic Pain, Yu-Hsuan Chang

Arts & Sciences Graduate Student Theses and Dissertations

Chronic pain is a debilitating neurological disorder that affects hundreds of millions of individuals worldwide. It is associated with cognitive symptoms such as cognitive inflexibility, which is defined as the inability to adaptively update behavior in response to changing environmental conditions. To date, there are no effective treatments for these symptoms, even though they substantially contribute to the decreased quality of life of chronic pain patients and are associated with reduced efficacy of pain management strategies. Therefore, understanding the neural circuit adaptations that drive cognitive symptoms of chronic pain, like cognitive inflexibility, is essential for improving existing treatments for this …

Red Snapper (Lutjanus Campechanus) Neurocranium, Michelle Bassali, Anthony D'Auria, David Kerstetter

All Scans: Kerstetter Fisheries and Avian Ecology 3D Scan Series

No abstract provided.

Variation In Diet And Leafy Browse Offerings Amongcolobus Monkeys (Colobus Spp.) And Langurs(Trachypithecus Spp.) In Aza Facilities, Maura R. Plocek, Noah T. Dunham

Student Scholarship

Providing nutritionally balanced diets is a key aspect of successful husbandry and can help support sustainable ex situ populations. This study focuses on the diets of zoo‐housed colobus monkeys (Colobus angolensis and C. guereza) and langurs (Trachypithecus cristatus and T. francoisi) across AZA institutions. We utilized survey responses from 34 institutions to (1)document the extent of dietary variation with regard to food categories and macronutrients offered, (2) assess interspecific variation in diets offered, and (3) identify important aspects of browse provisioning among institutions. A total of 95 different food items and 229 common‐name browse types were …

An Integrative Approach Clarifies Species Delimitation And Biogeographic History Of Debregeasia (Urticaceae), Amos Kipkoech, Ke Li, Richard I. Milne, Oyetola Olesegun Oyebanji, Moses C. Wambulwa, Xiao-Gang Fu, Dennis A. Wakhungu, Zheng-Yuan Wu, Jie Liu

Biological Sciences Faculty Publications and Presentations

Integrative data from plastid and nuclear loci are increasingly utilized to resolve species boundaries and phylogenetic relationships within major angiosperm clades. Debregeasia (Urticaceae), an economically important genus, presents challenges in species delimitation due to its overlapping morphological traits and unstable taxonomic assignments. Here, we analyzed 14 morphological traits and generated 12 data matrices from the plastomes and nrDNA using genome skimming from the nine recognized morphospecies to clarify species boundaries and assess barcode performance in Debregeasia. We also used a universal set of 353 nuclear genes to explore reticulate evolution and biogeographic history of Debregeasia. Plastomes of Debregeasia …

3d Reconstruction And Comparative Anatomical And Kinematic Analyses Of The Foot Of Archaeopteryx, Alexander M. Kirk

USF Tampa Graduate Theses and Dissertations

Research on the evolution of dinosaur flight has long been dominated by the wing, often overlooking the foot. The foot of Archaeopteryx, the “icon of evolution”, thus offers a unique opportunity to investigate this critical evolutionary stage. Chapter I of this dissertation integrates advanced 3D reconstruction techniques, combining photogrammetry with X-ray data, to create a high-resolution model of the foot of the Thermopolis specimen of Archaeopteryx for visualization and analysis. Driven by 3D coordinate axes derived from joint surface topology, the analyses in Chapter II reveal terrestrial adaptations -- such as a medially oriented hallux (81°), serially shorter phalanges on …

Assessing Fish Species Richness Using Edna And Seine Nets In A Restored Estuary In Tampa Bay, Florida, Us, Alex Seigel

USF Tampa Graduate Theses and Dissertations

Coastal estuarine systems associated with the Tampa Bay region along the Gulf of Mexico, Florida, US, are critical to the region’s fishing industry, which contributes significantly to Florida’s economy. Restoring estuaries along the Gulf Coast of Florida is an investment in Florida’s environmental health and economic stability. Estuaries serve as nurseries for many marine species, including commercially important organisms like finfish. Restoring these areas can enhance fish stocks and, by extension, boost the economic returns from commercial and recreational fishing. In this study, differences in fish species richness were compared among a seven-month period in 2022, seine nets (once in …

Ecological Epidemiology Of The Fungal Pathogen Ophidiomyces Ophiodiicola In Southeastern U.S. Snake Populations: Distribution, Drivers, And Anthropogenic Risk Factors, Shivam Shukla

USF Tampa Graduate Theses and Dissertations

Studying wildlife diseases is an important conservation measure, as many pathogens are a critical threat to biodiversity worldwide. Ophidiomycosis is an emerging infectious disease caused by the invasive fungal pathogen Ophidiomyces ophiodiicola that affects a wide variety of snake species, often causing mortality. There has been limited surveillance for ophidiomycosis in the southeastern United States’ (US) snake populations and research into the effects of anthropogenic disturbance on disease spread is also lacking. Thus, this project aimed to quantify the distribution and drivers (taxonomic, anthropogenic, and morphological) of ophidiomycosis in Florida, Louisiana, and Mississippi’s free ranging snakes as well as study …

Species Distribution Modeling With Environmental Time Series Data And Deep Learning, Austin M. Smith

USF Tampa Graduate Theses and Dissertations

Species distribution models (SDM) are frequently used to gain ecological understanding and guide conservation decisions. These models are developed with a wide variety of procedures - from regression-based approaches to more modern machine learning algorithms - but a requirement almost all share is the use of predictor variables that strongly simplify the temporal variability of driving factors. These static features are chosen by the user, which can incorporate unnecessary bias into a study. Additionally, current data preparation techniques often remove variables from the process entirely, which inherently removes information that may still be of importance. Conversely, novel architectures of deep …

Cd46 Is A Protein Receptor For Human Adenovirus Type 64, Eugene Y. Wu, Alexander M. Robertson, Hanglin (Henry) Zhu, Corina Stasiak, Laura A. Murray-Nerger, Emily Romanoff, Jesse Woon, Beth A. Bromme, Jason G. Smith

Biology Faculty Publications

Certain species D human adenoviruses (HAdV-D19, -D37, and -D64) are causative agents of epidemic keratoconjunctivitis. HAdV-D37 has previously been shown to bind CD46 (membrane cofactor protein) and sialic acid as adhesion receptors. HAdV-D64 is genetically highly similar to HAdV-D37, with an identical fiber protein sequence, but differs substantially in its penton base and hexon proteins, two other major capsid components, due to genetic recombination. Here, we demonstrate that, like HAdV-D37, HAdV-D64 virions bind directly to CD46 and that CD46 and sialic acid also function as receptors for HAdV-D64 on multiple cell types. Expression of CD46 on CD46-negative cells conferred susceptibility …

Study On The Seasonal Endobacterial Profile Of Avicennia Officinalis, Focusing On Core Bacterial Consortia Within Mangrove Pneumatophores, Devi R R, Vinod Prabhakar

Karbala International Journal of Modern Science

Microhabitats are smaller pockets of ecosystems with unique conditions and they serve as major contributors of species richness. Mangrove plants offer a diverse array of such microhabitats (rhizosphere, phyllosphere, endosphereetc), and the inhabitant bacteria benefit the host by providing better salinity tolerance, faster and better nutrient mobilization, protection from phytopathogens and assistance in seed germination. Identification of such beneficial bacteria,their growth requirementsandmetabolism, willhave direct application in the field of agriculture and ecosystem restoration. Hence in this study, effort has been made to elucidate the seasonal numerical and compositional profile of pneumatophore bacterial consortia of Avicennia officinalis, from the mangrove …

Isolation And Characterization Of Lignin From Oil Palm Shells Using A Precipitation Method With Sulfuric Acid And Polyaluminum Chloride As Coagulant, Eny Kusrini, Ria Yolanda Arundina, Anwar Usman, Resti Marlina, Bambang Subiyanto, Volkan Degirmenci, Nofrijon Sofyan, Yudan Whulanza

AUIQ Complementary Biological System

Lignin has useful and significant properties such as stiffness, resistance to UV radiation, antioxidant, antimicrobial, high thermal stability, and high carbon content. Due to these properties, lignin can be used for several applications including wood adhesive, carbon-based material, and can be developed as a functional material composite. Isolation and utilization of lignin from lignocellulosic biomass offers significant opportunities in various now and future industrial applications mainly for development advanced materials. In this study, isolation and characterization of lignin from oil palm shells (OPS) was conducted. Lignin was isolated from OPS using the precipitation method with sulfuric acid and coagulation using …

Greenspace Variation And Its Effect On Telomere Length In The American Robin Dna, Valentina Rodriguez-Munoz, Elise Mittlestat, Mikus Abolins-Abols

The Cardinal Edge

Green spaces is a crucial component of our environment, and a contributor to relieving stress in human and wildlife health. Stress is one of the causing factors for a shorter lifespan in humans and other animals by directly accelerating the shortening length of the telomeres in our DNA. In this study we investigated to what extent urban vegetation explain telomere length in the American Robins Turdus migratorius living in the Louisville area. Specifically, we predicted that lower amount of vegetation will be associated with shorter telomeres. We caught the birds using mist nets, we collected blood samples, extracted DNA, and …

The Impact Of Air Pollution On The Cardiovascular System In American Robins: No2 Levels' And Ultrafine Particulate Levels' Correlation To The Ratio Of Immature To Mature Erythrocytes, Lauren A. Stine, Mikus Abolins-Abols

The Cardinal Edge

Abstract

Humans and animals, especially in an urban environment, are constantly ingesting air pollution. Since the industrial lifestyle is preferred or simply mandatory for many, the exact impacts of concentrated air pollution ingestion, especially on the cardiovascular system, needs to be unambiguous. It has already been seen that high levels of exposure to air pollution are correlated with increased rates of anemia in humans (Honda et al., 2017), (Morales-Ancajima et al., 2019), (Elbarbary et al., 2020), (Mehta et al., 2021). Further data indicates that air pollution ingestion may even directly cause some detrimental pro-inflammatory and oxidant-inducing effects on the cardiovascular …

Effects Of Sex, Cadmium, And High-Fat Diet On Accumulation Of Essential Metals In Mouse Kidneys., Justin Y. Xu, Adam Gaweda, Michelle Barati, Micheal Merchant, Jun Cai, Lu Cai, Madhavi J. Rane

The Cardinal Edge

Effects of cadmium and obesity on accumulation of essential metals in mouse kidney were evaluated. Starting in utero and continuing until 24 weeks postweaning, male/female mice were exposed to cadmium (0, 0.5, or 5 ppm) and were fed on Normal Diet (ND)/High-Fat Diet (HFD) post weaning. ICP-MS analysis was performed to evaluate cadmium and essential metals absorbed in the kidneys of aforementioned mice. Metals data obtained was analyzed using MANOVA with multiple comparisons (Bonferroni correction with p

Old Vs. New: An Experiment On The Efficacy Of Complexity-Focused Reproductive Biology Lectures For Undergraduate Biology Students, Ive N. Muse, Shraddha Patel, Linda Fuselier

The Cardinal Edge

Old vs. New: An Experiment on the Efficacy of Complexity-focused Reproductive Biology Lectures for Undergraduate Biology Students

Muse, Ive N.; Patel, Shraddha; Fuselier, Linda

Abstract

Undergraduate reproductive biology courses are traditionally taught in a reductive manner, prioritizing a binary understanding of sex which oversimplifies reproductive behaviors and reproductive system development across diverse taxa. Although this binary approach to lessons on reproduction is intended to benefit students in learning foundational human reproductive concepts, it does not teach the most recent research in reproductive biology, which identifies reproductive variation as the norm. The current study designed and implemented a lesson on reproductive …

North American Sucker Fish Diets In The Face Of Ecological Challenges (Catostomidae), Anesa Hozdic, Matthew Kolmann

The Cardinal Edge

Basic biological information, like fecundity, age at maturity, habitat occupation and range size, are critically important for conserving species under threat. However, funding for this sort of research is limited, especially for aquatic vertebrates like fishes, which have restricted ranges and are under threat from changes in land-use and watershed alteration. The suckers (Family Catostomidae) are freshwater fishes native to North America (and one species from China). Most species are presumed to be detritivorous, that is, feed on decaying plant and animal matter; however, the diet diversity of this family has never been analyzed at an evolutionary scale. Suckers are …

The Anti-Diabetic Drug Metformin Disrupts Feeding And Sleeping Behaviors In Drosophila Melanogaster, Lucas Fitzgerald

The Cardinal Edge

Dimethylbiguanide, also known as metformin, is the single most prescribed oral treatment for non-insulin dependent diabetes mellitus, or type 2 diabetes, in western countries. The primary mechanism of action that metformin acts through is the activation of AMP kinase, an important regulator of energy homeostasis. While the anti-diabetic effects of metformin are well documented, its effects on feeding and sleeping behaviors are not well characterized. Using the model organism Drosophila melanogaster, the mean daily quantity of food consumed was measured and compared between groups treated with several dosages of metformin. Feeding interactions such as meal frequency and length were …

Restoring History: Evaluating The Rehydration Potential Of Fish Specimens From A Forgotten Ichthyology Collection, Joseph Donohue, Matthew Kolmann, Emmy Delekta

The Cardinal Edge

Natural history collections are invaluable resources that document the record of Earth’s biodiversity. Such collections house physical specimens that can often be used in research and education (e.g., teaching tools for classes and public outreach events). The William Clay Ichthyology Collection at the University of Louisville contains thousands of fish specimens collected over the past century from locations in and around Kentucky, North America, Central and South America, and even Lake Malawi in Africa. Despite the incredible assortment of specimens present, this collection fell into disarray as departmental interests shifted over the last twenty-five years. This led to the desiccation …