Digital Commons Network^™

Design And Synthesis Of N-Succinyl-L,L-2.6-Diaminopimelic Acid Desuccinylase Inhibitors As Potential Novel Antibiotics, Thomas Dipuma

Master's Theses

N-Succinyl-L,L-2,6-Diaminopimelic Acid Desuccinylase (DapE) is a bacterial enzyme located in the lysine biosynthetic pathway of all Gram-negative and most Gram-positive species of bacteria including the notorious ESKAPE pathogens, or pathogenic strains of bacteria that have developed significant levels of resistance to currently available antibiotics. As a means to combat this challenge of growing antimicrobial resistance, we have identified the bacterial enzyme DapE as a conserved, novel enzymate target within these resistant bacterial strains,as DapE is responsible for the production of m-DAP and lysine which are ultimately employed in bacterial cell wall synthesis. The overall aim of this research is to …

Biomarkers In Borrelia Burgdorferi Infected Triple-Negative Breast Cancer Cells, Sambuddha Paul

Master's Theses

Triple-negative breast cancer (TNBC) is an aggressive subtype of breast cancer with limited treatment options and a poor prognosis. Although some studies have attempted to identify new biomarkers and therapies, only a few have shown promise in clinical trials. In the context of cancer development, infectious agents rank as the third major risk factor, contributing to approximately 15-20% of cancer cases, according to the American Cancer Society. Hence, the identification of biomarkers associated with infection-originated cancer is crucial for enhancing cancer prevention, early detection, diagnosis, and treatment. Borrelia burgdorferi, the causative agent of Lyme disease, has been linked to TNBC …

Genetic Population Structure And Effective Number Of Breeders In Systems Across The Range Of The Gulf Sturgeon, Jacob Zona

Master's Theses

Gulf sturgeon (Acipenser oxyicnhus desotoi) are a large, anadromous fish belonging to an ancient lineage that diverged as early as 400 MYA. Overfishing for meat and caviar during the early 1900’s reduced their range and abundance and continued habitat destruction and mortality have limited their ability to recover, leading to their listing under the Endangered Species Act. This study uses genetic techniques to determine the effective number of breeders for multiple spawning groups of Gulf sturgeon in river systems across their range to set a baseline for tracking reproductive success of the species. Accompanying genetic information relevant to …

Development Of Wiskott-Aldrich Syndrome Knock Out Protocol For Drug Substance Assay Development, Julia C. Hanna

Master's Theses

Wiskott-Aldrich Syndrome (WAS) is a rare X-linked primary immunodeficiency affecting approximately 1 in 100,000 live XY births in North America and is caused by a mutation to the WAS gene which is expressed across hematopoietic lineages. The WAS protein (WASp) plays a role in regulating actin polymerization. On a cellular level, there are a variety of effects of a lack of WASp or expression of a dysfunctional WASp protein for patients including issues with migration, adhesion, chemotactic response, phagocytosis, activation, and proliferation across different cell types in addition to reduced platelet size and output. This can lead to several systematic …

The Association Between High Medical Costs & Migration In The United States, Zuriel Sanders

Master's Theses

In the United States, the current medical system has been controversial due to its non-universal design. Typically those who’re employed and middle or upper class have the most access to health care due to this design. Even among those with access to health insurance the amount of out-of-pocket medical expenses that families are exposed to after insurance can cause a burden in itself for staying financially afloat that year, especially when paired with the increasing cost of living in the U.S. from 2009-Present. For the purpose of this paper, we’ll be examining the relationship between migration & high medical expenses …

Implementation Of Methods For Cell Therapy Research And Assessment Of The Impact Of Cryopreservation, Samantha Lynes

Master's Theses

Cell therapy is the administration of living cells into a patient to prevent or treat a variety of diseases and illnesses. The cell therapy industry is rapidly expanding, and continued research is necessary for manufacturing safe and effective therapies. Although cell therapy manufacturing generally involves cryopreservation processes for storage, there are limited standards for cryopreservation processes and assays required to evaluate cell therapies post-thaw, and limited understanding exists about how a recovery period post-thaw could impact cell health. The overall goal of this thesis was to evaluate the effect of cryopreservation and potential subsequent recovery time on cell viability.

Because …

Lactobacillus Metabolite Nc As An Inflammation Inhibitor, Drew Hahnnah Landrowski

Master's Theses

The human body contains a diverse ecosystem of microbes. Commensal bacteria have numerous mutually-beneficial relationships with their host. Not only do they assist in digestion and gut homeostasis, they are critical for development and function of the immune system. As such, hosts and microbes alike have evolved mechanisms to foster symbiosis. Gut barrier function, toll-like receptor signaling, and metabolites are all examples of how hosts interact with microbes to promote this mutually-beneficial relationship. Metabolites from commensal bacteria promote the generation of regulatory T-cells, capable of ameliorating inflammation. A number of inflammatory, allergic, and autoimmune conditions are associated with dysbiosis. Therefore, …

Decolonizing A Settler Colonial State: How Canada And The United States Have Approached Investigations Into Indigenous Boarding And Residential Schools, Holly Jacobs

Master's Theses

Indigenous boarding and residential schools were in use for over 100 years in both Canada and the United States. Grown from numerous policies aimed at assimilation, dispossession, and genocide of the Indigenous peoples of North America, these residential schools had a particular aim: to wipe away all cultural and familial ties of every individual and to replace them with beliefs and values of white settlers. Though the schools are no longer in operation, their legacy of erasure and pain continues to affect survivors, their descendants, and Indigenous communities across both nations. This thesis looks at what the federal governments of …

Interrogating Antagonistic Differences Among Pseudomonas Aeruginosa Cdia Alleles, Haotian Yang

Master's Theses

Bacteria are complex social organisms that live within mixed communities where microorganisms compete for limited resources. We studied Contact-Dependent Growth Inhibition (CDI), a particular type of competition mediated by a type 5b, or two-partner, secretion system that is widely spread among Gram-negative bacteria. CdiB and CdiA make up the two-partner secretion system that mediates CDI. CdiB translocates CdiA to the cell surface, and CdiA delivers its C-terminal toxin domain to the target cell. The C-terminal toxin (Tox) domain of CdiA is highly diverse. We studied Tox domains of various Pseudomonas aeruginosa clinical isolates. We found different strains that contain unique …

Fragmentation Drives Dominant Plant Encroachment On A Horizontal Wastewater Treatment Levee, Joia S. Fishman

Master's Theses

Urban coastal wetlands protect humans from sea-level rise while providing valuable habitat for wildlife. Degradation and loss of these wetlands threaten urban infrastructure such as wastewater treatment facilities. Nature-based adaptive solutions with the combined purposes of bioremediation, coastal defense, and habitat creation are being tested to make communities safer and more resilient. The current research examines a 6-year-old experimental horizontal levee at the Oro Loma Sanitary District in San Lorenzo, California. Using horizontal transects and quadrat sampling, I compare the success of two planting strategies – a wet meadow and a riparian scrub community – on an ecotone slope. I …

My Generation Will Never Forget: Oral Histories Of Chinese American Students In “Separate But Equal” Oriental Schools, Kelsey Owyang

Master's Theses

Asian Americans occupy a contradictory position in the American educational landscape, at once glorified for their academic success and vilified for their “invasion” of White academic spaces. This narrative first took root in the 19^th century, when the California Supreme Court ruled in the 1885 case Tape v. Hurley that Chinese American youth had a right to public education. Simultaneously, the state legislature declared that Chinese Americans must be educated in separate facilities from Whites. The first segregated “Oriental school” opened in San Francisco Chinatown that year. This study explores the oft-erased history of Asian American school segregation in …

The Rhetoric Of Blame: A Rhetorical Framing Analysis Of Othering And Blame In Historical Health Crises, Colin G. Cameron

Master's Theses

The United States’ response to the COVID-19 pandemic was hallmarked by blame rhetoric and fluid social and political expedience. However, the pervasiveness of othering and blame in contemporary pandemic discourse is perhaps consistent with the blame rhetoric of health crises throughout history. Using a rhetorical framing analysis approach, this study aims to explore the various elements of blame rhetoric embedded in newsprint media frames regarding historic infectious disease outbreaks. In doing so, this study investigates three case studies: the San Francisco smallpox outbreak of 1876, the Spanish Flu pandemic of 1918, and the AIDS crisis of the 1980s – 1990s. …

Large Scale Disease Modeling, Walker Mattox

Master's Theses

In this we study large scale disease modeling. After understanding the mechanics behind the SIR disease model in an ODE sense, we will apply this knowledge to model disease spread in more and more increasing advanced cellular automata. Eventually, some of our cellular automata will include long distance travel. From this discrete data, we can then build an SIR model in the PDE sense to display large scale disease spread.

Intermittent Standing And Prior Exercise As Strategies To Prevent Arterial Stiffening That Can Arise From Prolonged Sitting, Alexander Wright

Master's Theses

Prolonged sitting can cause adverse vascular responses, including elevations in aortic stiffness which might contribute to cardiovascular disease (CVD). Few studies have investigated the impact of intermittent standing and/or prior exercise as strategies to mitigate these deleterious vascular changes. Purpose: to explore vascular health responses to prolonged sitting, with and without intermittent standing and/or prior exercise. Methods: 15 males aged between 18 and 31 years were recruited. Participants completed a control condition (Sitting Only), and three randomized strategy conditions (Sitting Plus Standing, Exercise Plus Sitting, Exercise Plus Sitting Plus Standing). For all conditions, measurements of carotid-femoral PWV (cfPWV) were taken …

Subjective Observation Of Loss Of Subcutaneous Fat And Muscle Tissue – Is That The Answer To Pediatric Hospital Malnutrition Screening?, Grace C. Barcus

Master's Theses

Background: Hospital malnutrition is a prevalent issue with critically ill pediatric patients being at increased risk for nutritional loss. Nutritional risk screening has been associated with increased documentation of nutrition diagnosis and positive clinical outcomes, however, is not mandatory in developing countries. A nutrition screening tool that uses subjective examination of loss of subcutaneous fat and muscle tissue may be an efficient way to identify nutritional risk in hospitalized critical care pediatric patients.

Objective: To determine whether loss of subcutaneous fat and muscle tissue in specific body locations was associated with moderate or severe malnutrition determined by SGA in pediatric …

Sensitivity Of A Lamp Assay For Detection Of The Dinoflagellate Amyloodinium Ocellatum In Simulated Field Conditions And Freeze Tolerance Of The Parasite, Robert Gonzales

Master's Theses

The obligate parasitic dinoflagellate Amyloodinium ocellatum causes amyloodiniosis in warm water marine fishes. The prolific parasite, which has a direct, three-stage life cycle, is highly infectious and can cause heavy losses in aquaculture. Prevention, biosecurity, and early detection are vital for control. In this work, microscopy and a loop-mediated isothermal amplification (LAMP) assay were compared for early diagnosis of A. ocellatum in cultured stocks, and the freeze tolerance of tomonts was assessed to determine if frozen wild fish used as fish food can serve as a potential vector for the parasite.

The lowest dinospore concentration that could be detected by …

The Role Of Ly49 Receptors In Maintaining Healthy Murine Pregnancy, Michelle Belmont

Master's Theses

Natural Killer (NK) cells are abundant in pregnancy and contribute to the health of the fetus. Uterine NK (uNK) cells provide less cytotoxic function than their conventional NK (cNK) cell counterparts. Various combinations of Killer Immunoglobulin Receptor (KIR)- Human Leukocyte Antigen (HLA) on maternal NK and fetally derived cells, respectively, can have different effects on the health of pregnancy in humans. Murine NK cells contain Ly49 receptors, an equivalent to KIRs. Therefore, Ly49 receptor interactions with fetally-derived MHC-I molecules can be a valuable model for studying the role of NK cells in pregnancy. The process of spiral artery remodeling can …

Phenotypic Analysis Of Murine Gut Associated Lymphocytes, Madison Flood

Master's Theses

γδ T cells are important in the role of immune homeostasis, especially in relation to the gut. It has been shown that there is a higher proportion of γδ T cells in the intestines than in circulation. With this knowledge, our lab focused on understanding the mechanisms of these cells, specifically regarding immune tolerance. In our preliminary research, we identified a subset of γδ T cells that express Foxp3, a transcription factor essential for the functioning of regulatory T cells, in the neonatal (5 day old) intestine. We hypothesized that these Foxp3+ γδ T cells have immunosuppressive functions upon exposure …

Bisacodyl Limits Chikungunya Virus In Vitro And Is Broadly Antiviral, Natalie June Lomascolo

Master's Theses

Identifying novel antivirals requires significant time and resource investment, and the continuous threat of viruses to human health necessitates commitment to antiviral identification and development. Developing antivirals requires years of research and validation, and recent outbreaks have highlighted the need for preparedness in counteracting pandemics. One way to facilitate development is to repurpose molecules already used clinically. By screening such compounds, we can accelerate antiviral development. Here, we screened compounds from the National Institutes of Health’s Developmental Therapeutic Program for activity against chikungunya virus, an alphavirus that is responsible for a significant outbreak in the Americas in 2013. Using this …

The World Health Organization, The Trump Administration, American Public Opinion, And China: A Principal-Agent Problem, Megan Patrice Larson

Master's Theses

Why did the United States perceive the World Health Organization as ineffective during the COVID-19 pandemic? To answer this question, this research delves into current principal-agent model literature to reproduce mechanisms present by the WHO and the United States. Current research fails to explain the WHO's effectiveness. By borrowing from realist theory and political psychology and analyzing various declarations made by the United States, this analysis found preliminary evidence that the idea of WHO's ineffectiveness was primarily shaped by the Trump Administration and American public opinion. Moreover, because of the disinformation and misinformation spread by the Trump Administration, the WHO …

Effect Of Borrelia Burgdorferi On The Amyloid-Beta And Phospho-Tau Markers And Oxidative Stress Response Of Neuroblastoma Cells, Dina Elzohiry

Master's Theses

In Alzheimer's disease (AD), the neurons are injured and mostly subjected to death throughout the brain, interconnections between neural networks may detach, and several regions of the brain begin to shrink in size. Amyloid-Beta (Aβ) and phospho-tau (p-Tau) are considered as main hallmarks of AD. Lyme-causing bacteria Borrelia burgdorferi can invade central nervous system resulting in neurological disorders. To evaluate how B. burgdorferi bacteria can contribute to the development and/or progress of AD, protein expression of Amyloid-Beta aggregates and p-Tau protein tangles were assessed before and after infection with B. burgdorferi in BE2C and Kelly neuroblastoma cell lines. To assess …

Multi-Assay Nutritional Metabolomics Profiling Of Low Vitamin A Status Versus Adequacy Is Characterized By Reduced Plasma Lipid Mediators Among Lactating Women In The Philippines: A Pilot Study, Catherine M. Johnson

Master's Theses

Background: A significant portion of lactating women in less developed countries have vitamin A (VA) deficiency. Lactation has substantial effects on a mother’s metabolism and VA is known to be needed in multiple biological processes, including growth, vision, immunity, and reproduction.

Objective: The objective of this pilot study was to utilize metabolomics profiling to conduct a broad, exploratory assessment of differences in plasma metabolites associated with low VA status versus adequacy in lactating women.

Methods: Plasma samples from lactating women who participated in a survey in Samar, Philippines, were selected from a cross-sectional study based on plasma retinol concentrations indicating …

Analyzing The Consistency Of Scoring Porotic Hyperostosis From 3d Scans, Carson Rouse

Master's Theses

The use of 3D scans is becoming more and more common in the field of bioarchaeology. They alleviate the need to travel, allow for larger sample sizes, and can help preserve bones with pathologies on them which make them more fragile. Though there are major benefits with using 3D scanning of human remains, there is a lack of studies which examine whether or not traditional pathology scoring methods can be used to consistently gather the same data from these 3D scans. This project examines how consistently six researchers of varying experience levels scored porotic hyperostosis from 25 3D scans on …

On A Stochastic Model Of Epidemics, Rachel Prather

Master's Theses

This thesis examines a stochastic model of epidemics initially proposed and studied by Norman T.J. Bailey [1]. We discuss some issues with Bailey's stochastic model and argue that it may not be a viable theoretical platform for a more general epidemic model. A possible alternative approach to the solution of Bailey's stochastic model and stochastic modeling is proposed as well. Regrettably, any further study on those proposals will have to be discussed elsewhere due to a time constraint.

Modeling Covid-19 Spread Using An Agent-Based Network, Stephen Yh Hung

Master's Theses

Beginning in 2019 and quickly spreading internationally, the Coronavirus disease Covid-19 became the first pandemic that many people have witnessed firsthand along with the severe disruption to their daily lives. A key field of research for Covid-19 that is studied by epidemiologists, biologists, and computer scientists alike is modeling the spread of Covid-19 in order to better predict future outbreaks of the pandemic and evaluate potential strategies to reduce infections, hospitalizations, and deaths.

This thesis proposes a method of modeling Covid-19 spread and interventions for local environments based on different levels of perspective. The goal for this thesis is to …

Modeling The Spread Of Covid-19 Over Varied Contact Networks, Ryan L. Solorzano

Master's Theses

When attempting to mitigate the spread of an epidemic without the use of a vaccine, many measures may be made to dampen the spread of the disease such as physically distancing and wearing masks. The implementation of an effective test and quarantine strategy on a population has the potential to make a large impact on the spread of the disease as well. Testing and quarantining strategies become difficult when a portion of the population are asymptomatic spreaders of the disease. Additionally, a study has shown that randomly testing a portion of a population for asymptomatic individuals makes a small impact …

Hey Google: How Can We Build Critical Media Literacy?, Wilson Wang

Master's Theses

The year 2020 spotlighted problematic media coverage of the global coronavirus pandemic. Conflicting narratives of the origin of the “China virus” (Campbell & Park, 2020), the silenced journalistic freedoms (Davidson, 2020), and the impact on communities of color (Williams, 2021) created mass confusion during the global pandemic. To help address our understanding of media, teaching civic online reasoning (Wineburg & McGrew, 2017) and critical media literacy are two potential points of emphasis. Building critical media literacy helps resist the echo chamber effect of social media and cable news, which results in polarization and difficult mediation between parties (Bexley & Tchailoro, …

Temperature Effects On Prevalence Of Sexually Transmitted Infections Among At-Risk Female Sex Workers In India, Rajshri Suresh

Master's Theses

Vulnerability to climate change varies depending on the baseline climate, sensitivity to given exposure, and the presence of social, political, cultural, and institutional inequalities that influence access to essential resources of livelihood, particularly among informal labor market participants. Within the risky informal labor market, the transient nature of sex work implies that sex workers suffer disproportional losses in health, income, protection, and other aspects of general well-being as a result of the effects of climate anomalies. In this paper, I investigate the effect of temperature on the prevalence of sexually transmitted infections in a high-risk population of female sex workers …

Wicked Problems: Understanding How Cities And Counties In California Are Tackling Climate Change And Homelessness, Guadalupe Michelle Franco

Master's Theses

California continues to endure the detrimental effects of climate change, such as poor air quality, flooding, and heatwaves. Concurrently, the state has seen an increase in the number of unhoused communities due to various ramifications such as rapid urbanization, failed political leadership, and restricted housing policies. While unhoused communities fight to access basic services, they must also now adapt to the looming impacts of climate change. Unhoused populations are especially vulnerable to climate change as they have limited access to shelter, spend the majority of their time outdoors, and lack the economic ability to adapt. While cities and counties are …

An Evaluation Of Activity In A Colonial Maya Cemetery Using Femoral Cross-Sectional Analysis, Casey Lejeune

Master's Theses

Cortical bone formation in the population of Tipu, a colonial visita site in Belize, was examined here to reveal factors of their activity and address the possibility of a status-based burial plan. To answer this question, this research examined the endosteal surface of the midshaft femur using digital imaging methods. The femora from 70 individuals were photographed and examined using the BoneJ plugin in ImageJ software. The cortical bone area was compared to additional variables, including sex, age, stature, pilastric index, and burial location. It was hypothesized that sex, age, and stature would correlate with cortical bone area similarly across …