Biology Commons^™

Physiological And Behavioral Effects Of High Fat Diet Removal And Wheel Running In C57bl/6j Mice, Aikaterini Hatzidis

Honors Program Theses and Projects

The possibility of developing Type 2 Diabetes Mellitus (T2DM) is determined by a combination of genetic factors and the lifestyle of the individual. Higher risks of T2DM diagnosis occur when individuals are exposed to lifestyle factors such as physical inactivity and high fat diet consumption. Animal models, including mice, are consistently used in laboratory studies to understand T2DM in humans due to genetic and physiological similarities. This study focuses on whether change of diet and increased exercise can reduce obesity and alleviate T2DM symptoms in C57BL/6J (B6) mice. Changes in weight, anxiety-like behaviors, leptin and insulin levels and glucose tolerance …

The Hv1 Proton Channel Of Lingulodinium Polyedrum Localizes To The Bioluminescent Scintillon, Juan D. Rodriguez

Master of Science in Integrative Biology Theses

In 1972, J. Woodland Hastings and colleagues predicted the existence of a proton selective channel that opens in response to depolarizing voltage (H_V1) across the vacuole membrane of bioluminescent dinoflagellates and conducts protons into specialized luminescence compartments (scintillons), thus causing the pH drop that triggers the light flash. RNA-Seq data from several luminescent dinoflagellate species provided candidate H_V1 genes. When expressed in mammalian cells, the predicted H_V1 from Lingulodinium polyedrum displays the hallmark properties of bona fide proton channels, including time-dependent opening with depolarization, perfect proton selectivity, and characteristic pH dependent gating. RT-PCR and …

Stoichiometry Of Microbial Carbon Useefficiency In Soils, R. L. Sinsabaugh, B. L. Turner, J. M. Talbot, Bonnie G. Waring, J. S. Powers, C. R. Kuske, D. L. Moorhead, Shah J. Follstad

Biology Faculty Publications

The carbon use efficiency (CUE) of microbial communities partitions the flow of C from primary producers to the atmosphere, decomposer food webs, and soil C stores. CUE, usually defined as the ratio of growth to assimilation, is a critical parameter in ecosystem models, but is seldom measured directly in soils because of the methodological difficulty of measuring in situ rates of microbial growth and respiration. Alternatively, CUE can be estimated indirectly from the elemental stoichiometry of organic matter and microbial biomass, and the ratios of C to nutrient-acquiring ecoenzymatic activities. We used this approach to estimate and compare microbial CUE …

Colwellia Psychrerythraea Strains From Distant Deep Sea Basins Show Adaptation To Local Conditions, Stephen Techtmann, Kathleen S. Fitgerald, Savannah C. Stelling, Dominique C. Joyner, Sagar M. Uttukar, Austin P. Harris, Et Al.

Michigan Tech Publications, Part 1

Many studies have shown that microbes, which share nearly identical 16S rRNA genes, can have highly divergent genomes. Microbes from distinct parts of the ocean also exhibit biogeographic patterning. Here we seek to better understand how certain microbes from the same species have adapted for growth under local conditions. The phenotypic and genomic heterogeneity of three strains of Colwellia psychrerythraea was investigated in order to understand adaptions to local environments. Colwellia are psychrophilic heterotrophic marine bacteria ubiquitous in cold marine ecosystems. We have recently isolated two Colwellia strains: ND2E from the Eastern Mediterranean and GAB14E from the Great Australian Bight. …

Embryonic And Post-Embryonic Hoxa13 Expression In The Four-Toed Salamander, Hemidactylium Scutatum., Breanna R. Lee

Senior Honors Projects, 2010-2019

The process of somitogenesis occurs during embryological development and results in the definition of persisting axial segments. The four toed salamander, Hemidactylium scutatum, exhibits post-embryonic segmentation while most other vertebrates stop segmentation at the end of embryological development. HoxA13, a transcription factor expressed along the developing anteroposterior axis, plays a role in specifying caudal segmental identity, cell ingression into the pre-somitic mesoderm (PSM), and PSM truncation. HoxA13’s responsibilities in influencing embryological development make it an interesting candidate for involvement in post-embryonic segment addition mechanisms. This study explores the role of HoxA13 in tail segmentation in H. scutatum embryonic, larval, …

Nonlinear Dynamics Of Filaments In Free Space And Fluids, Victoria Kelley

Senior Honors Projects, 2010-2019

The purpose of this paper is to study a straight rod, held at both ends, with a known twist and tension or compression. We study the stability of this steady state when the system is dominated either by inertia or drag. In order to do this, we first replicate the work of Goriely and Tabor to look at the case with inertia, without drag. After conducting the analysis for that case, we then apply their framework to perform a linear stability analysis of a model that is without inertia, but with hydrodynamic drag. Our motivation is the study of locomotion …

The Role Of Oncogenic Kras In Initiation, Progression And Maintenance Of Pancreatic Cancer, Nirakar Rajbhandari

Theses & Dissertations

Pancreatic cancer is a lethal disease that is almost invariably associated with a KRAS gene mutation. Due to a very high frequency of gain-of-function mutations within the KRAS gene, and its proven role in initiation of pancreatic cancer in animal models, mutant KRAS is considered a rational therapeutic target. To determine the potential role of oncogenic KRAS in pancreatic tumor maintenance in vivo, we generated a mouse model with a Doxycycline regulated expression of oncogenic KRAS (KRAS^G12D) in pancreas. Using this reversible model, we demonstrated that the expression of oncogenic KRAS in a Cdkn2a deficient background was …

Role Of Ecdysoneless In Erbb2/Her2 Mediated Breast Oncogenesis, Shalis A. Ammons

Theses & Dissertations

Breast cancer is the second leading cause of cancer related deaths in women in the United States. The human Epidermal Growth Factor 2 (ErbB2) gene amplification and/or receptor overexpression subtype of breast cancer accounts for 25% of all breast cancers. A crucial regulator of the ErbB2 signaling pathway is the heat shock protein 90 (Hsp90) and its interacting protein complex. One such complex is the R2TP/Prefoldin-like complex that is composed of four proteins, RUVBL1, RUVBL2, PIH1D1, and RPAP3 and seven prefoldin-like proteins. This complex has been shown to be involved in telomere elongation, ribosome biogenesis, protein stability; etc. We and …

Population Projection And Habitat Preference Modeling Of The Endangered James Spinymussel (Pleurobema Collina), Marisa Draper

Senior Honors Projects, 2010-2019

The James Spinymussel (Pleurobema collina) is an endangered mussel species at the top of Virginia’s conservation list. The James Spinymussel plays a critical role in the environment by filtering and cleaning stream water while providing shelter and food for macroinvertebrates; however, conservation efforts are complicated by the mussels’ burrowing behavior, camouflage, and complex life cycle. The goals of the research conducted were to estimate detection probabilities that could be used to predict species presence and facilitate field work, and to track individually marked mussels to test for habitat preferences. Using existing literature and mark-recapture field data, these goals were accomplished …

Reverse Genetic Screening Of Innexin Gap Junction Proteins In Drosophila Neurons, Shannon P. Fox

Senior Honors Projects, 2010-2019

The reflexive response and perception of pain (nociception) is an evolutionarily conserved process in animals. Pain can be a major health concern and current treatments often prove insufficient, especially in regards to chronic pain. Greater understanding of the molecular processes underlying pain sensation could lead to new and more effective treatments. The aim of this study is to investigate the molecular mechanisms of cold nociception in Drosophila melanogaster. A specific subset of peripheral sensory neurons (Class III dendritic arborization (da) neurons), are implicated in Drosophila larvae’s response to noxious cold.

Previous literature has associated a family of gap junction protein, …

Beyond The Urban Stream Syndrome: Organic Matter Budget For Diagnostics And Restoration Of An Impaired Urban River, Dave M. Epstein, Julia E. Kelso, Michelle A. Baker

Biology Faculty Publications

In response to water quality standard violations linked to excessive organic matter (OM) and a lack of sampling data informing the Total Maximum Daily Load (TMDL), an organic matter budget was created to quantify and identify sources of OM in the lower Jordan River (Salt Lake City, UT). By sampling dissolved, fine and coarse particulate OM, as well as measuring ecosystem metabolism at seven different sites, the researchers aimed to identify the origin of excess OM, and understand pathways by which different size classes of the OM pool are generated. The dissolved fraction (DOM; 94 %) was found to be …

Changes In Oxidative Patterns During Dormancy Break By Warm And Cold Stratification In Seeds Of An Edible Fruit Tree, Dilinuer Shalimu, Jia Sun, Carol C. Baskin, Jerry M. Baskin, Liwei Sun, Yujun Liu

Biology Faculty Publications

The transition from seed dormancy to germination is triggered by environmental factors, and in pomegranate (Punica granatum) seeds higher germination percentages are achieved by warm + cold stratification rather than by cold stratification alone. Our objective was to define the pattern of internal oxidative changes in pomegranate seeds as dormancy was being broken by warm + cold stratification and by cold stratification alone. Embryos isolated from seeds after 1–42 days of warm stratification, after 56 days of warm stratification + 7, 28 or 56 days of cold stratification, and after 1–84 days of cold stratification alone, were used …

Quantitative Perturbation-Based Analysis Of Gene Expression Predicts Enhancer Activity In Early Drosophila Embryo, Rupinder Sayal, Jacqueline M. Dresch, Irina Pushel, Benjamin R. Taylor, David N. Arnosti

Biology

Enhancers constitute one of the major components of regulatory machinery of metazoans. Although several genome-wide studies have focused on finding and locating enhancers in the genomes, the fundamental principles governing their internal architecture and cis-regulatory grammar remain elusive. Here, we describe an extensive, quantitative perturbation analysis targeting the dorsal-ventral patterning gene regulatory network (GRN) controlled by Drosophila NF-kB homolog Dorsal. To understand transcription factor interactions on enhancers, we employed an ensemble of mathematical models, testing effects of cooperativity, repression, and factor potency. Models trained on the dataset correctly predict activity of evolutionarily divergent regulatory regions, providing insights into spatial relationships …

Design Proposal: Peer Mentoring Program In Schc, Kylie Anna Stevens

Senior Theses

Peer mentoring programs have been shown to be successful at universities across the country. This present paper proposes the creation of a peer mentoring program within the South Carolina Honors College. This program has been designed to enhance the first-year experience for incoming Honors College freshmen by pairing them with an upperclassmen student mentor that can help guide them through their first year and beyond. The role of these mentors would be to provide valuable guidance for students on how to be successful as a student of the Honors College and the University of South Carolina. This mentoring program aims …

The Vascular Flora Of The Gills Creek Watershed, Austin Corbett Williams

Senior Theses

This is a floral inventory of the Gills creek watershed. It was conducted from fall 2014 through spring 2016. The final product is a list of plants that are known to presently or historically exist in the watershed. The list is comprised of 250 native species and 36 introduced and invasive species. The results indicate that Gills creek watershed’s plant diversity is severely threatened by introduced and invasive species, but still retains sizable native diversity.

Germline Defects Caused By Smed-Boule Rna-Interference Reveal That Egg Capsule Deposition Occurs Independently Of Fertilization, Ovulation, Mating, Or The Presence Of Gametes In Planarian Flatworms, Jessica Kathryne Steiner, Junichi Tasaki, Labib Rouhana

Biological Sciences Faculty Publications

Few animals are known to lay eggs in the absence of ovulation or copulation, as it is presumably energetically wasteful and subjected to negative selection. Characterization of Smed-boule, a member of the DAZ family of germline RNA-binding proteins, revealed that egg capsule (or capsule) production and deposition occurs independently of the presence of gametes in the planarian flatworm Schmidtea mediterranea. Reduction of Smed-boule expression by RNA-interference (RNAi) causes ablation of spermatogonial stem cells and the inability of ovarian germline stem cells to undergo oogenesis. Although animals subjected to Smed-boule RNAi lose their gametes and become sterile, they continue …

The Effects Of Β2 Adrenergic Receptor Activation On Macrophage Cholesterol Accumulation And Inflammatory Responses, Crystal Alece Wood

Senior Theses

With the number of cases of cardiovascular diseases, which are most commonly caused by atherosclerosis, continuously rising, it is important to see how different lifestyle factors can contribute to one’s health. If limiting the amount of social stress an individual experiences can cause a decrease in the prevalence of these diseases, it will be important for physicians to encourage patients to avoid possible stressors or determine ways to cope with psychosocial stress in order to decrease their risks for such diseases. In this study, Clenbuterol, a β2 adrenergic agonist, was used to activate the β2 adrenergic receptor on macrophages in …

Tales Of The Atom!: An Analysis Of Nuclear Discourage In Early Marvel Comics, Kelly Elizabeth Shepherd

Senior Theses

In 1961 the editor of Atlas Comics, Martin Goodman, approached his nephew and staff writer Stan Lee with a pitch. Goodman wanted Lee to create a super hero team to rival DC Comics’, Justice League of America. Lee came up with the Fantastic Four who debuted in November of 1961. The super hero team led by physicist Bruce Banner was the first of many successful titles from Marvel Comics. Much of the popularity of Marvel Comics stemmed from the company’s focus on the characters rather than only action like other superhero comics at the time. Lee developed characters that …

Challenging Authoritative Perceptions: The Story Of Philip James Evans, Michael Nicklas Goyda

Senior Theses

This senior thesis is an extension on a previous work I have done for Honors Creative Writing (ENGL 360). The story takes you through the early life of Philip James Evans, a young man born in 1976 in Pittsburgh, PA. An alcoholic in remission, he is killed one day and wakes up in a mysterious building which is actually the headquarters of The Illuminati in Purgatory. Philip faces a tough decision: remain dead and await judgment for his wrongdoings and risk being sent to Hell, or work for The Illuminati to pay off the debt of his sins and receive …

The Effect Of The Elevated Circulating Levels Of Il-33 On Metastasis Of Colorectal Cancer, Christina-Lin Marie Brown

Senior Theses

In the United States, colorectal cancer is the third leading cause of cancer-related deaths in both men and women¹. The pathogenesis of colorectal cancer begins with the development of polyps in the innermost colorectal lining and progresses to the final stage when metastasis occurs². Metastasis is the spread of cancer cells to other organs, and has been shown to be organ specific rather than a random process. Genes that direct tumor cells to target specific organs have been identified. The primary tumor is thought to secrete molecules that promote the establishment of liver metastasis even before …

The Effect Of Stimulus Location And Initial Posture On The Kinematics Of The Nociceptive Withdrawal Reflex Of The Tail In Intact And Unanaesthetized Rats, Yulhea Kim

Masters Theses, 2010-2019

The nociceptive withdrawal reflex (NWR) is a protective reflex that allows mammals to avoid noxious stimuli by withdrawing the affected area of the body away from the stimulus. Although previous studies on non-human mammals showed that the NWR depends on stimulus location and initial posture, these studies were performed on spinalized or anaesthetized animals, which may yield results differing from intact animals. Therefore, the purpose of this study was to determine whether the kinematics of the NWR of the tail depends on stimulus location and initial posture in intact and unanesthetized animals. The NWR was evoked by heat applied to …

Photosynthetic Characterization Of Invasive Plant Diversity In Los Angeles County From 1830-2010, Lauren E. Pangburn, Erich Eberts, Victor Carmona-Galindo

Honors Thesis

The increase in atmospheric CO₂ levels due to climate change may greatly impact invasive plant species, which are non-native organisms that spread unchecked in space and negatively impact native organisms. The success of these invasives may be related to specific traits, such as their photosynthetic pathway. We acquired the specimen information for invasive species registered in the Consortium for California Herbaria of the University of California Berkeley to evaluate the community dynamics of 1,000 invasive species in Los Angeles County. We found that both diversity and richness of invasive plant species has increased over a period of 180 years. …

Foodshare Columbia: Fostering A Healthier Community, Mavinder Kaur Guram

Senior Theses

For my thesis project, I developed a wholesale produce co-op to provide fresh produce to low-income families in Columbia with Dr. Gregg Talente and Ms. Beverly Wilson at the USC School of Medicine. Low-income populations lack access to healthy foods due not only to cost, but also limited proficiencies in skills required to prepare healthy foods. In an effort to address these issues, FoodShare Columbia was created. A community-based co-op, FoodShare was formed to foster a healthier community by improving access to nutritious, affordable foods. The program functions through the use of a Fresh Food Box (box of fresh produce …

Plastic Pollution And The Global Throwaway Culture: Environmental Injustices Of Single-Use Plastic, Kristin L. Mcdermott

ENV 434 Environmental Justice

The global throwaway culture has created a cross-ecosystem plastic pollution injustice. The first to suffer this injustice will be the most vulnerable. Our oceans have become our dumpsters. The throwaway culture has created a disrespect of material goods that has turned the earth’s resources into rubbish after a single use. Eighty percent of the yearly 8 million tons of plastic that enter the ocean is single use plastic, such as plastic bottles, plastic shopping bags, or cigarette lighters.[1] Plastic has destroyed ecosystems, robbing impoverished communities of natural resources and of a healthy and safe living environment. First to suffer …

Using Koch’S Postulate To Identify The Causative Agent Of Dieback In Malosma Laurina During Historic Drought In California, Adriana J. Borges, Emily R. Pierce, Mariah K. Taylor, Frida J. Morales

Featured Research

Coastal Southern California has a Mediterranean-type climate, meaning that it experiences warm, dry summers and cool, wet winters. Recently, California has been experiencing an unprecedented drought, possibly as a result of climate change. Malosma laurina is a typically hearty chaparral plant is known for being resistant to drought due to its deep rooting depth, but even it is being negatively affected by drought and is experiencing dieback. Some of this dieback is caused by a Botryospharae fungal infection, which blocks xylem conduits and stops water flow through the plant. With a looming El Niño, this study seeks to understand the …

Seasonal Changes In Atmospheric Noise Levels And The Annual Variation In Pigeon Homing Performance, Jonathan T. Hagstrum, Hugh P. Mcisaac, Douglas P. Drob

Biological Sciences: Faculty Scholarship

Repeated releases of experienced homing pigeons from single sites were conducted between 1972 and 1974 near Cornell University in upstate New York and between 1982 and 1983 near the University of Pittsburgh in western Pennsylvania, USA. No annual variation in homing performance was observed at these sites in eastern North America, in contrast to results from a number of similar experiments in Europe. Assuming pigeons home using low-frequency infrasonic signals (~0.1–0.3 Hz), as has been previously proposed, the annual and geographic variability in homing performance within the northern hemisphere might be explained, to a first order, by seasonal changes in …

Effect Of Bisphenol-A On Neurodevelopment In Drosophila Melanogaster Larvae, Alexandra M. Streifel

All College Thesis Program, 2016-2019

This paper examines the effects of the chemical preservative bisphenol-A on the developing nervous systems of Drosophila melanogaster, or fruit fly, larvae. This study examines the effects of bisphenol-A using both behavioral as well as morphological paradigms. It was determined that bisphenol-A significantly increased the amount of time larvae spent in seeking behavior, the number of peristaltic contractions, and the distance traveled in a linear fashion. In the morphological analysis, indications of increased dendritic area in experimental larvae existed, but there was not enough data to determine significance. For future research, it is recommended that more data be gathered to …

Limestone Flora Of The Simonton Corner Quarry Preserve, Rockport, Maine, Usa, Margaret Stern, Ian D. Medeiros, Luka Negoita, N. Rajakaruna

Biological Sciences

Limestone is a distinctive substrate that has significant effects on soils and plants. The present study characterizes the diversity of vascular plants, bryophytes, and lichens at the Simonton Corner Quarry Preserve, an abandoned limestone quarry in Rockport, Maine, USA, which was in operation in the late 1800s. We document vascular plant diversity and associated edaphic features (i.e., soil pH and elemental chemistry) using 30 535 meter plots spread throughout the site. For vascular plants, 114 species in 96 genera and 50 families were observed; few of these species are known to prefer calcareous environments, and 38% are nonnative. Conversely, the …

Comparison Of Commercial Gecko Food On Growth Of Rhacodactylus Geckos, Kaitlin Leigh Richard

Honors Projects

Available food sources can provide a different effect on the growth rates of Rhacodactylus auriculatus. In this study three food sources were compared, Repashy MRP, Pangea super foods, and GeckoPro New Caledonian blend. These are composed of similar nutrients but tend to have some points where they vary. Thirty-six gargoyle geckos were put through a trial over a 14 week period to determine which commercially available food source provides the best nutrients for growth, as measured by weight gain. Three groups of twelve were chosen based on a variety of ages and sizes to be given three different foods …

An Industrial Chemical Used In Coal-Washing Influences Plankton Communities In Freshwater Microcosms, Danielle Turner

Honors College Theses

In 2014, 4-methylcyclohexane methanol (MCHM), an industrial chemical used to wash coal, contaminated drinking water in 300,000 homes in West Virginia, USA and raised concerns about toxicity to humans and freshwater ecosystems. The Centers for Disease Control and Prevention determined that a concentration of 1 ppm was safe for human exposure. Despite the concern for human consumption, it is important to determine if MCHM has negative effects on aquatic organisms in contaminated water, particularly plankton communities that comprise the base of freshwater food webs. I exposed freshwater plankton communities in microcosms to 0, 0.5, 1 or 3 ppm MCHM under …