Digital Commons Network^™

Targeting The Subacute Progression Of Hippocampal Cellular Senescence Following Repetitive Mild Traumatic Brain Injury, Jacob Edward Exline

Master's Theses

Repetitive mild traumatic brain injury (rmTBI) increases an individual’s risk for developing persistent deficits in recognition memory with symptoms experienced by up to 30% of rmTBI patients. Cellular senescence has been suggested as an underlying mechanism of persistent rmTBI symptoms; however, the subacute progression of cellular senescence following rmTBI has not been evaluated. Furthermore, the use of subacute testosterone administration to treat persistent recognition memory deficits and the cellular and molecular underpinnings has yet to be well characterized. Our lab utilizes a 5-hit closed-head rmTBI rat model to induce deficits in recognition memory and determine the effects of subacute testosterone …

Investigating Putative Toxin-Immunity Pairs From A New Class Of Rhs Proteins In Pseudomonas Aeruginosa, Syed Faieq Imam

Master's Theses

Pseudomonas aeruginosa is a gram-negative, opportunistic pathogen that is ubiquitous in nature, especially in human/animal impacted environments. One of the reasons for this is the arsenal of protein systems and toxins that P. aeruginosa utilizes to mold its environment to suit its needs. Recently, we discovered a novel locus in the P. aeruginosa genome, which resembles other loci that are known to mediate interbacterial competition. Our bioinformatic analysis found this locus to be enriched in a rearrangement hotspot (rhs) motif which led us to ad-interim term the three ORFs of the loci as rhsB, rhsC, and rhsI. Furthermore, we have …

Abortion, Medieval Christianity, And The Christian Far-Right: The Harms Of Rhetoric And Misconstruing The Past, Madison Givens

Master's Theses

This research explores the intersection of abortion, Medieval Christianity, and the Christian far-right, with a focus on the harms of rhetoric and the misconstruing of history. The study argues that a selective reading of history is being used by the Christian far-right to justify violence against reproductive rights activists, including police brutality and mass shootings, as well as to promote forced sterilization and other forms of reproductive control. This thesis examines the harms of rhetoric and misconstruing the past in the abortion and medieval Christianity debate. By analyzing the role of language, symbols, and history in shaping the abortion debate …

Effect Of Selenof Loss In Combination With A Western Diet On Tumorigenesis, Brenna Joy Flowers

Master's Theses

SELENOF is an understudied selenium-containing protein that has previously been postulated to behave as a tumor suppressor in the breast. Examination of patient databases showed that SELENOF levels were lowest in tumors from patients with aggressive late-stage breast cancers. Whether loss of SELENOF drives breast tumorigenesis remains to be determined. To address this question, we used juvenile female wild type or systemic Selenof knockout mice and exposed them to 7,12-Dimethylbenz[a]anthracene (DMBA), a carcinogen that replicates the multistep process of breast tumorigenesis. Previous reports have shown that loss of Selenof led to glucose and metabolic dysregulation in mice suggesting a link …

How To Build A Cortex: Coordinated Assembly Of Cortical Septins And Actomyosin In The Leader Bleb, Asia Marie Paguntalan

Master's Theses

In confined spaces, migrating cells can undergo mesenchymal-to-amoeboid transitions by altering their cortical dynamics and adhesion with the environment. Septins frequently associate with cortical actin and non-muscle myosin (NMII), but the functional nature of these interactions remains unclear. Upon non-adhesive confinement and NMII enrichment, fibroblasts can switch to a fast, leader bleb-based mode of motility, characterized by the absence of adhesions and stress fibers and formation of a single, elongated leader bleb. During this transition, cortical actin remodeling and polarized NMII contractility drive leader bleb stabilization by generating long-range cortical flows, in coordination with changes in septin localization and assembly …

Identification Of New Substrates From Pseudomonas Aeruginosa Exos, Adam V. Thota

Master's Theses

Pseudomonas aeruginosa is a gram-negative environmental bacterium that uses its intrinsic and acquired antibiotic resistance to infect patients with compromised epithelium, such as cystic fibrosis and burn wounds, and corneal keratitis. In order to cause disease, most strains of P. aeruginosa use the type three secretion system (T3SS) to disrupt cellular signaling and integrity. However, P. aeruginosa may also secrete exotoxins after invading host cells, which prolongs host cell death and maintains an intracellular niche. Of the T3 secreted effector toxins, ExoS, specifically the ADP-ribosyltransferase activity of ExoS, was shown to delay the death of invaded corneal cells, but it …

Characterization Of The Full-Length Bag3 Protein And Stress Induced Formation Of Bag3-Z, Ahmed Gamal Abdalla Zied

Master's Theses

Bcl2-associated athanogene-3 (BAG3) is a pro-autophagy co-chaperone that we havepreviously shown localizes to the cardiac sarcomere and is critical for proteostasis and maintenance of normal sarcomeric function. Indeed, BAG3 loss in heart failure (HF) results in accumulation of ubiquitinated sarcomeric proteins, and depressed maximum force generating capacity (Fmax). However, how BAG3 is regulated in the cell is not well understood, with uncertainty about its structure and proteoforms. During our analysis of human heart tissue, BAG3 appears as a “doublet”, with one band at 74 kDa (BAG3-Z) and a second at a higher 85 kDa (BAG3-FL). Previous studies hypothesized the full-length …

Incorporating Sex Chromosomes In Transcriptome Prediction Models And Improving Cross-Population Prediction Performance, Daniel S. Araujo

Master's Theses

Transcriptome prediction models built with data from European-descent individuals are less accurate when applied to different populations because of differences in linkage disequilibrium patterns and allele frequencies. We hypothesized multivariate adaptive shrinkage may improve cross-population transcriptome prediction, as it leverages effect size estimates across different conditions - in this case, different populations. To test this hypothesis, we made transcriptome prediction models for use in transcriptome-wide association studies (TWAS) using different methods (Elastic Net, Matrix eQTL and Multivariate Adaptive Shrinkage in R (MASHR)) and tested their out-of-sample transcriptome prediction accuracy in population-matched and cross-population scenarios. Additionally, to evaluate model applicability in …

Comparison Of Taxonomy Assignment And Strain Detection In Urobiome Communities Using 16s Rrna Sequencing And Shotgun Metagenomic Sequencing, Delaney Sauer

Master's Theses

Advancements in sequencing technologies have enabled scientists to gain insight into the microbes that inhabit the human body, including the urinary tract. Cataloging the bacteria that inhabit the urinary tract has primarily relied on amplification and sequencing of specific variable regions of the 16S rRNA gene enabling genus-level taxonomic identification. Recently, shotgun metagenomic sequencing has been employed such that bacterial taxonomy as well as the functionality that they encode can be inferred. In this study, we compare taxonomies assigned by 16S sequencing and shotgun metagenomic sequencing of the urinary microbiota (urobiome) of females with and without a clinical diagnosis of …

Investigating The Viral Nature Of Neuronal Capsid Genes, Michael Manuel Long

Master's Theses

Memory formation is an essential part of everyday life. Neuronal communication is thought to be a key driver behind memory formation. There are two heavily studied methods of neuronal communication: chemical (neurotransmitter-mediated) and electrical (physically attached). When issues arise environmentally or genetically, people can experience one of many devastating memory disorders i.e. Alzheimer’s disease and other Dementias. Due to their prevalence, the treatments for disorders that hinder memory formation are a high priority for pharmaceutical companies. Currently, many of the treatments available focus on neurotransmitters or neuronal activity, and scientists are far from a cure. However, there may be an …

Characterizing The Dynamic Localization Of Cmi In Early Drosophila Development, Asra Habibullah

Master's Theses

The COMPASS-like family of lysine methyltransferases, MLR/MLX complexes, are epigenetic regulators that are essential for normal development through the methylation of the fourth lysine residue on histone 3 (H3K4), a universal epigenetic mark associated with active transcription. This family of complexes is highly conserved from yeast to mammals and the genes encoding the human MLR complexes have been associated with various developmental diseases and cancers (Dingwall and Fagan, 2019). In D. melanogaster, the enzymatic methyltransferase core of this complex is composed of two proteins: Cara Mitad (Cmi, also known as Lpt) and Trithorax-related (Trr). Although these proteins have been shown …

Paul's Attitude Towards Empire, Matthew Kwabena Appiah

Master's Theses

The concept of imperialism has come to stay in the study of Paul and his letters. However, does contextual analysis of his selected texts support such claims of him being anti-imperial? Various arguments arise to challenge Paul to have used hidden codes and imperial ideology to counter the imperial propaganda of the Roman empire of his day. However, contextual analysis of Paul and his letters suggest otherwise. His pastoral care duties, coupled with a desire to win his natives, namely, the Jews, to accept Jesus Christ as the messiah prophesied in the Old Testament is key in his letters. Proponents …

The Influence Of Spatialheterogeneity On Ocean Quahog (Arctica Islandica) Population Dynamics Along The Mid-Atlantic Bight, Jillian Sower

Master's Theses

The ocean quahog (Arctica islandica) support an economically important fishery in the US, though little is known about their life history traits. To determine how these traits vary geographically, the age frequencies and growth rates from two New Jersey sites (NJ1 & NJ2) as well as Georges Bank (GB) and Long Island (LI) were analyzed. Though sexual dimorphism in bivalves is rare, recent research has shown that A. islandica display distinct differences in sizes between males and females, with females reaching larger sizes than those of males. To determine when this difference in size occurs, the growth rates …

Motives For (In)Effective Giving: Comparing Rural And Urban Groups In South Africa., Luvuyo Bulelani Magwaza

Master's Theses

Different cultures have their own set of norms and values that not only shape people’s motives but also influences their decision making. What may be viewed as logical and ethical in one culture, may be seen as illogical or unethical in another. One area that is consistently affected by cross-cultural differences in motives is charitable giving. Recently, there has been an increase in interest around effective altruism— a social movement and philosophy that argues, people should give to charities that do the most good. Prior research that has found that people do not give based on efficiency; instead, people give …

Investigating The Contribution Of Marine Viruses To Optical Backscatter In The <0.2 Μm Fraction Of Seawater, Kacey Mae Lange

Master's Theses

Marine viruses are the smallest and most abundant biological entities in the ocean. Marine viruses play a significant role in carbon and nutrient cycles through the liberation of dissolved organic matter (DOM) through the lysis of their numerically dominant hosts (i.e. bacteria and phytoplankton). Despite their importance, little is known about how viruses contribute to seawaters inherent optical properties (IOP) of seawater, specifically backscatter. All particles produce backscatter, with their contribution dependent on particle size, concentration, and composition. Living particles contribute 10-20% of the total backscatter with the remaining 80% of unclassified backscatter, “missing backscatter”, contributed by submicron particles ( …

Impacts Of The Poultry Industry In Mississippi, Sara Watts

Master's Theses

This thesis examines the impacts of the poultry industry in seven counties in the Piney Woods region of South Mississippi: Wayne, Jones, Forrest, Lamar, Jefferson Davis, Marion, and Pike. Current research indicates that the poultry industry has a significant impact on the cultures and economies of rural towns throughout the United States. There is no current research that examines the effects of the poultry industry on residents of the Piney Woods. This thesis addresses that gap in the research and contributes to current understanding of how the industry molds and impacts the lives of those intimately associated with it.

I …

Plant Productivity And Diversity In Coastal Wetlands In Mississippi – Impact Of Hydrological Extremes, Kodi Feldpausch

Master's Theses

Wetlands are highly productive ecosystems that provide important ecosystem services and are threatened by extreme hydrological events. I evaluated how diversion of freshwater like Bonnet Carré Spillway openings in Louisiana, US, affected vegetation productivity and diversity in salt marshes on the neighboring Mississippi Gulf Coast, US. My study area is two estuarine systems that differ in their proximity to the Bonnet Carré Spillway, elevation, and salinity including Hancock County Marshes on the west, and Grand Bay National Estuarine Research Reserve (NERR) on the east in Mississippi. I collected above- and belowground biomass samples in 2020 and 2021, developed linear mixed-effects …

Post Pandemic Cyberbiosecurity Threats From Terrorist Groups, Haley D. Dodge

Master's Theses

The research in this thesis explored the research question: Are United States (US) health systems accessible to cyber-bio terrorist attacks post-pandemic, within the context of the emerging discipline of cyberbiosecurity? Key findings of the analysis demonstrated how US health systems are more accessible to cyber-bio terrorist attacks specifically from cyber hacking groups based on the increasing sophistication of their cyber capabilities and the lack of cyber protection for biological systems. The concept of cyberbiosecurity was first introduced in 2018 by researchers exploring the converging threat landscape of the cyber and biology domains. As biology is growing more dependent upon vulnerable …

Identifying And Minimizing Underspecification In Breast Cancer Subtyping, Jonathan Cheuk-Kiu Tang

Master's Theses

In the realm of biomedical technology, both accuracy and consistency are crucial to the development and deployment of these tools. While accuracy is easy to measure, consistency metrics are not so simple to measure, especially in the scope of biomedicine where prediction consistency can be difficult to achieve. Typically, biomedical datasets contain a significantly larger amount of features compared to the amount of samples, which goes against ordinary data mining practices. As a result, predictive models may fail to find valid pathways for prediction during training on such datasets. This concept is known as underspecification.

Underspecification has been more accepted …

A Design Of A Digital Lockout Tagout System With Machine Learning, Brandon H. Chen

Master's Theses

Lockout Tagout (LOTO) is a safety procedure instated by the Occupational Safety and Health Administration (OSHA) when doing maintenance on dangerous machinery and hazardous power sources. In this procedure, authorized workers shut off the machinery and use physical locks and tags to prevent operation during maintenance. LOTO has been the industry standard for 32 years since it was instantiated, being used in many different industries such as industrial work, mining, and agriculture. However, LOTO is not without its issues. The LOTO procedure requires employees to be trained and is prone to human error. As well, there is a clash between …

A Study On The Effects Of Cementless Total Knee Arthroscopy Implants' Surface Morphology With Finite Element Analysis, Peter Hunt

Master's Theses

Total knee arthroscopy is one of the most performed and most successful orthopedic surgeries, with nearly a million procedures performed in 2020 in the United States alone. Due to changing patient demographics, the use of cementless fixation for implant stability is becoming more prevalent amongst recipients. Cementless implants rely on the surface morphology of a porous coating to bond implant to bone; the quality of this bond is dependent on an interference fit and the roughness, or coefficient of friction, between implant and bone. Stress shielding is a comparison of the properties in implanted bone to natural bone; it is …

Biodegradation Of Methyl Tert-Butyl Ether And Tert-Butyl Alcohol Using Bioaugmentation With Biowish® Aqua, Elizabeth Villanueva

Master's Theses

Aqua, a commercial product manufactured by BiOWiSH® Technologies, was utilized in this research to study its effectiveness to biodegrade methyl tert-butyl ether (MTBE) and tert-butyl alcohol (TBA). Microcosms containing varying concentrations of MTBE and TBA as well as a growth media and mineral salt solution were examined. Analytical instrumentation used in this study included the use of a gas chromatograph-mass spectrometer (GC/MS) to determine concentrations of MTBE and TBA and a spectrophotometer to extrapolate approximate active biomass concentrations in each experiment. Four different environmental conditions were tested for both MTBE and TBA. The environmental conditions tested for each contaminant included: …

The Rise Of Terrorism In Africa And What It Means For U.S. Policymakers, Bridget Mary Hughes

Master's Theses

This thesis utilizes three case studies to measure the rise of terrorism in Africa. This qualitative data leads the reader to one ultimate question: what does the rise in terrorism in Africa mean for the United States (U.S.) and U.S. policymakers, National Security academia, students in National Security, if anything at all? The answer is: if civilian and military compounds are being targeted by these violent extremists, as these three case studies demonstrate, it is my recommendation that U.S. policymakers cease sending troops to the African theater and, instead, allocate funding to the citizens and nonprofits of the countries whom …

Mechanisms Behind The Luteoprotective Effects Of Fish Meal Supplementation In Bovine: Cytokine Sensitivity And Luteal Blood Flow, Anika Shelrud

Master's Theses

Early pregnancy loss continues to be problematic in the cattle industry. A large proportion of the pregnancy loss occurs during the maternal recognition of pregnancy (MRP) phase of gestation. During the MRP, a developing conceptus must secrete sufficient interferon tau to inhibit release of the uterine- derived and luteolytic mediator, prostaglandin F2 alpha (PGF2��). If successful, the progesterone- secreting corpus luteum (CL) will be maintained, which is necessary for establishment and maintenance of pregnancy. Pregnancy loss at the point of MRP may be due to a slow developing conceptus that does not effectively block PGF2��. Therefore, reducing the influence of …

Immunological Effects Of Berberine And Physical Activity In A Murine Breast Cancer Model, Janae Mudge

Master's Theses

Berberine (BBR) is a plant-derived alkaloid popularly used in a complementary context to treat splenomegaly and chronic disease states such as rheumatoid arthritis, diabetes, and cancer. Recent research has examined BBR as a regulator of lipid and glucose metabolism in association with the AMPK pathway; but little is known concerning its immunological impacts. It is also known that exercise is a potent AMPK activator exhibiting immunological benefits, but nothing is known about the combination of these complementary approaches for treating breast cancer. The purpose of this study is to determine if oral consumption of BBR when paired with physical activity …

Ectotherm Thermoregulation At Fine Scales: Novel Methods Reveal A Link Between The Spatial Distribution Of Temperature And Habitat Quality, Ian Axsom

Master's Theses

Investigating ecological questions at the scale of individual organisms is necessary to understand and predict the biological consequences of environmental conditions. For small organisms this can be challenging because we need tools with the appropriate accuracy and resolution to record and quantify their ecological interactions. Unfortunately, many of our existing tools are only appropriate for medium to large organisms or those that are wide ranging, inhibiting our ability to investigate the ecology of small organisms at fine scales.

In Chapter 1, I tested a novel workflow for recording animal movements at very fine spatial and temporal scales. The workflow combined …

Conservation Genomics: Utilizing Genetic And Transcriptomic Sequencing For Effective Conservation Management Of Astragalus Osterhoutii, Christine Mowad

Master's Theses

Astragalus osterhoutii M.E. Jones (Fabaceae) is a federally listed, rare, endemic species restricted to seleniferous soils in Grand County, CO (Anderson, 1989). This research utilized both RADseq and RNAseq to generate neutral and adaptive genomic datasets. Neutral data analysis aimed to determine i) the genetic diversity of A. osterhoutii and each of its populations level, ii) how genetic structure is partitioned across the species range, and iii) the closest relative to A. osterhoutii. Analysis of adaptive, RNAseq data aimed to identify i) differentially expressed genes, ii) if patterns of expression are similar to neutral data, and iii) differences in Se …

Metabolic Changes Associated With Gestational Diabetes And Weight Loss, Marykate Smith

Master's Theses

Introduction: Gestational Diabetes Mellitus (GDM) is diabetes diagnosed for the first time during pregnancy and negatively affects the mother and her child. Research suggests a multidisciplinary lifestyle intervention may aid in the reduction of GDM and its complications. Further, the use of metabolomics is needed to understand the alterations that happen prior to GDM diagnosis to reduce its recurrence.

Objective: Metabolomics analysis was conducted at baseline and 16-weeks post-intervention for women enrolled in a pre-pregnancy lifestyle intervention study to observe metabolic changes associated with GDM occurrence and weight loss.

Methodology: Sixteen samples from the parent Gestational Diabetes Prevention trial were …

Alzheimer’S Detection With The Discrete Wavelet Transform And Convolutional Neural Networks, Melissa N. Nardone

Master's Theses

Alzheimer’s disease slowly destroys an individual’s memory, and it is estimated to impact more than 5.5 million Americans. Over time, Alzheimer’s disease can cause behavior and personality changes. Current diagnosis techniques are challenging because individuals may show no clinical signs of the disease in the initial stages. As of today, there is no cure for Alzheimer’s. Therefore, symptom management is key, and it is critical that Alzheimer’s is detected early before major cognitive damage.

The approach implemented in this thesis explores the idea of using the Discrete Wavelet Transform (DWT) and Convolutional Neural Networks (CNN) for Alzheimer’s detection. The neural …

Detection Methods, Occupancy Rates, Management And Conservation For Rodents, Jaran Hopkins

Master's Theses

Chapter 1. Species’ occurrences are dependent on a variety of habitat characteristics, including physical landscape factors and anthropogenic land use and change. Understanding the influence of habitat attributes on species occurrence is essential to successful wildlife and habitat management, specifically in areas with active human use. We tested the influence of vegetation alliance, fragmentation, and human recreation in the form of off-highway vehicles (OHV) in an area of active land management in coastal California, with a focus on the occurrences of six small mammal species. The area is composed of sand dunes subject to natural habitat fragmentation. OHV recreation occurs …