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First Genomic Resource For An Endangered Neotropical Mega-Herbivore: The Complete Mitochondrial Genome Of The Forest-Dweller (Baird's) Tapir (Tapirus Bairdii), Caroline C. Ennis

Honors College Theses

Baird's tapir, or the Central American Tapir Tapirus bairdii (family Tapiridae), is one of the largest mammals native to the forests and wetlands of southern North America and Central America and is categorized as `endangered' on the 2014 IUCN Red List of Threatened Species. This study reports, for the first time, the complete mitochondrial genome of T. bairdii and examines the phylogenetic position of T. bairdii amongst closely related species in the same family and order to which it belongs using mitochondrial protein-coding genes (PCG's). The circular, double-stranded, A-T rich mitochondrial genome of T. bairdii is 16,697 bp in length …

Biochemical And Kinetic Analysis Of Phosphofructokinase In The Eukaryotic Human Pathogen Entamoeba Histolytica, Jin Cho

All Dissertations

Entamoeba histolytica is a water- and food-borne intestinal parasite that causes amoebiasis and liver abscess in ~100 million people each year leading to ~100,000 deaths. This amitochondriate parasite lacks many metabolic pathways including the tricarboxylic acid cycle and oxidative phosphorylation, and cannot synthesize purines, pyrimidines, or most amino acids. As a result, E. histolytica is presumed to rely on its modified pyrophosphate (PP_i)-dependent glycolytic pathway for ATP production during growth on glucose. This pathway relies on a PP_i-dependent rather than ATP-dependent phosphofructokinase (PFK) and thus has a net production of three ATP per glucose. However, in …

Impact Of Copper-Containing Products And Irrigation On Hybrid Bermudagrass (Cynodon Dactylon (L.) Pers X C. Transvaalensis Burtt-Davy), Adam Gore

All Dissertations

Copper (Cu) is an often-seen component in various turf industry products including fungicides, algaecides, and colorants. Though an essential micronutrient in plants, excessive levels of Cu has been shown in various plant commodities to cause phytotoxicity and plant death. With the increasing use of pigments on hybrid bermudagrass [Cynodon dactylon (L.) Pers x. C. transvaalensis Burtt-Davy] putting greens to replace overseeding practices during traditional dormant periods combined with regular applications of fungicide, algaecide and spray additives containing Cu, the objective of this study was to investigate the potential impact of individual and combined copper-containing treatments on hybrid bermudagrass and …

Developing Rapid Indicators To Detect Micropollutants In Coastal Blackwater Rivers In South Carolina, Lydia Winn

All Theses

Micropollutants in water sources are found in higher concentrations in areas with high levels of urban and agricultural land. These pollutants can be introduced into water sources during storms and rain events, through water treatment outputs, and commercial or residential waste. These events increase the levels of both nutrients and micropollutants in these water sources. With increasing levels of micropollutants in rivers, this study’s goal was to develop an alternative detection method or an indicator test for the levels of micropollutants in water. We first proposed the use of amicrobial fuel cell (MFCs) operating as a biosensor could be utilized …

Interpretable Mechanistic And Machine Learning Models For Pre-Dicting Cardiac Remodeling From Biochemical And Biomechanical Features, Anamul Haque

All Dissertations

Biochemical and biomechanical signals drive cardiac remodeling, resulting in altered heart physiology and the precursor for several cardiac diseases, the leading cause of death for most racial groups in the USA. Reversing cardiac remodeling requires medication and device-assisted treatment such as Cardiac Resynchronization Therapy (CRT), but current interventions produce highly variable responses from patient to patient. Mechanistic modeling and Machine learning (ML) approaches have the functionality to aid diagnosis and therapy selection using various input features. Moreover, 'Interpretable' machine learning methods have helped make machine learning models fairer and more suited for clinical application. The overarching objective of this doctoral …

Biochemical Analyses Of Udgx-A Crosslinking Uracil-Dna Glycosylase, Chuan Liang

All Dissertations

DNA base damage is common due to exposure to various endogenous and exogenous factors. To repair the base lesions, such as uracil from cytosine deamination, enzymes from the uracil-DNA glycosylase (UDG) superfamily are critical, which can recognize the damaged base and initiate the base excision repair (BER) pathway. There used to be six families of proteins identified in the UDG superfamily until a new member, UDGX, was found in Mycobacterium smegmatis, which is a unique DNA-crosslinking UDG. In this dissertation work, a series of biochemical analyses of the newly found UDGX are performed, including the analyses of structures, functions, …

Cellular Mechanism Of Pentagalloyl Gucose-Mediated Prevention And Reversal Of Abdominal Aortic Aneurysms, Greg Halsey

All Dissertations

Abdominal aortic aneurysm (AAA) has been the 15th leading cause of death in persons older than 55 for the past ten years in several Western countries, with rupture resulting in an almost 100% mortality rate. AAA is a focal dilation of the aorta characterized by progressive loss of elastin and vascular smooth muscle cells (SMCs), as well as persistent inflammatory response [1]. The only treatment for AAA is surgery; however, the mortality post-procedure is still 1-4%, with a 15-30% chance of morbidity [2].

Pentagalloyl glucose (PGG) treatment is effective in the reversal of AAA. While its stabilizing interactions with extracellular …

An Integrative Approach To Managing A Species Of Conservation Concern: Resource Selection, Spatial Ecology, And Population Genetics Of The Green Salamander (Aneides Aeneus), Megan Novak

All Dissertations

The relationship between wildlife and the environment they inhabit is dependent on both spatial and temporal scales. It is therefore crucial that biological investigations account for ecological scale when analyzing patterns and processes established, particularly when such investigations inform conservation management plans. This dissertation provides extensive insight into the conservation biology of the green salamander (Aneides aeneus), a critically imperiled species in South Carolina. The green salamander is a species that exists in a patchy network of rock outcrops within mountainous forest landscapes, and most studies on habitat suitability for green salamanders have been conducted on the macrohabitat, …

Novel Protected Gelatin Capsules Containing Fish Oil Mitigated The Effect Of Milk Fat Depression And Reduced Rumen Degradation Compared To Untreated Capsules, Omar Manuel Pena Pena

All Theses

The objective of this study was to assess the effects of feeding gelatin capsules treated with alcoholic solutions of flavoring agents followed by drying containing fish oil on lactation performance, rumen fatty acids content and milk enrichment of fatty acids. In Trial 1, four multiparous ruminally-fistulated Holstein cows were randomly assigned to one of four dietary treatment sequences in a 4 x 4 Latin square design. Treatments consisted of 1) Control with no capsules, 2) Control plus 200 untreated capsules per cow/day, mixed with the TMR; 3) Control plus 200 treated capsules per cow/day placed directly into the rumen, 4) …

Characterization Of The Effects Of The Pyrazolopyrimidine Inhibitor Grassofermata (Nav-2729) In The Eukaryotic Pathogen Trypanosoma Brucei, Kristina Marie Parman

All Dissertations

The protozoan pathogen, Trypanosoma brucei, is the causative agent of sleeping sickness in humans and nagana in livestock in sub-Saharan Africa. T. brucei cycles between tsetse fly and mammalian hosts, and it is adapted to survive in diverse host tissues. Variant Surface Glycoprotein (VSG) plays a key role in immune evasion in the mammalian host. The VSG membrane anchor requires two myristates, 14-carbon saturated fatty acids (FAs) that are scarce in the host. T. brucei can synthesize FAs de novo, but also readily takes up exogenous FAs, despite lacking homologs to fatty acid uptake proteins found in other …

The Floral Thermal Environment: Physical, Morphological, And Environmental Determinants, And Their Impact On Plant-Pollinator Interactions, Jennifer Apland

All Theses

Anthropogenic climate change is driving major shifts in global temperatures and increases in extreme temperature events that contribute to reduced survival and species loss. To counteract extreme temperatures, many organisms can undergo geographic range shifts or engage in behavioral thermoregulation (e.g., movement to suitable microhabitats). While plants are sessile and thus subject to highly variable ambient temperatures, they have evolved mechanisms to regulate internal floral temperature. Floral thermoregulation may mitigate thermal stress on pollen and ovules and impact plant-pollinator interactions. These mechanisms for thermoregulation are often highly dependent on ambient temperature and solar radiation as most plants are not endothermic. …

The Effects Of Sous Vide Cooking And Cysteine Proteases On Instrumental And Sensory Textural Properties Of Lower Value Cuts Of Beef, Ian Smith

All Theses

Sous vide cooking has the potential to increase the value of lower quality cuts of beef. Understanding the textural properties following a cook-chill sous vide process is crucial to maximizing this potential. The use of enzymes may further increase the value of these products if able to positively alter the texture of the final product.

The first research objective was to use instrumental texture analysis to evaluate potential relationships between enzymatic treatments and sous vide processing time of lower value cuts of beef. Three cuts were evaluated: infraspinatus (top blade), semitendinosus (eye of round), and beef tongue. Infraspinatus and semitendinosus …

Development Of A User-Friendly Shelf-Life Model To Evaluate The Suitability Of Sustainable Materials In Roasted And Ground Coffee Fractional Packs, Matthew Baxley

All Theses

Roasted and ground coffee is a shelf stable product yet quite sensitive to oxidative staling. A consumer acceptance-based shelf-life modeling system was proposed with intent for the rapid determination of suitable coffee packages. This model requires as input the oxygen consumption rate (OCR) of the coffee, barrier values of packages, and the size of the packaging. Within the time period tested, it was shown that this model accurately predicted the oxygen uptake of coffee over time. Four bio-based packaging systems with barrier layers including mPLA, mPE, mcellophane, and paper were compared against a control (mPET). These materials displayed a range …

Developing Disinfection Strategies For Controlling Human Norovirus, Sars-Cov-2, And Clostridioides Difficile Endospores In Long-Term Care Facilities, Jinge Huang

All Dissertations

Long-term care facilities (LTCFs) provide an environment favorable for the transmission of three critical human pathogens: human norovirus (HuNoV), severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), and Clostridioides difficile. Given residents in LTCFs are susceptible to infections due to their advanced ages and compromised immune systems, effective environmental surface disinfection plays a crucial role in controlling the spread of human pathogens within these settings and, therefore, mitigates the risk of infections caused by these pathogens. This dissertation aimed to assess the efficacy of various types of disinfectants against two HuNoV surrogates [feline calicivirus (FCV) and Tulane virus (TuV)], two …

The Chemical And Physical Analysis Of Hiveless Tm A Plant Based Honey Alternative, Javin Goodine

All Theses

Honey is perhaps the oldest and one of the world's most widely used natural sweeteners. It is a viscous, sweet, golden substance bees produce via natural enzymatic and physical modification of flower nectar. It has long been prized for its unique flavor and medicinal properties. It can be incorporated into many applications, such as bread, cured meats, alcohol, condiments, candy, pharmaceuticals, and skin care products. In 2022 alone, America consumed over 600 million pounds of honey (Board Reports, 2023), but less than a fifth of that was produced domestically, the rest imported from other countries. The international honey trade can …

A Genome Wide Association Study Of Heat Tolerance In Snap Bean (Phaseolus Vulgaris), Morgan Stone

All Theses

Bean production in the United States has decreased while the temperatures have been steadily increasing, reaching new highs each year. Heat stress is detrimental to common bean (also known as snap bean) production. Symptoms of heat stress include decrease in pollen viability, shriveling of pods, and pod abortion making them unmarketable. Pod production of 323 snap bean accessions from a large diversity panel was assessed in a randomized complete block design with field trials at two different times in the spring season. The results show a significant decrease in the number of pods produced per plant and weight of pods …

Enabling Breeding For Fruitlet Freeze Tolerance In Peach, Ufuk Caglar

All Theses

Climate change is affecting the production of temperate fruit crops, with cold temperatures emerging as a critical abiotic stressor that limits plant growth and performance. Freeze damage, particularly in spring, has resulted in significant economic losses in peach production in the southeastern United States. Research efforts in peach and other Prunus species have primarily focused on studying dormancy-related traits associated with bloom time, such as chill and heat requirement, with fruitlet freeze tolerance not equally represented. Breeding for climate resilience in peach requires a combination of these traits to allow for late bloom via targeted chill requirement and high heat …

Germination Trends Of American Chaffseed, Schwalbea Americana L., And Factors Affecting First-Year Seedling Development, Trenton Miller

All Theses

Following centuries of exploitation and fire suppression, longleaf pine systems are now the focus of many conservation efforts. Efforts to restore populations of Schwalbea americana L. in longleaf pine savannas have been met with frustratingly low recruitment. While past studies have briefly quantified germination rates for Schwalbea, there have not been any studies yet that truly investigate this plant’s germination requirements. Additionally, there has been little research into characterizing the parasitic relationship between Schwalbea and its various host species. We conducted a germination study in a growth chamber that investigated Schwalbea’s germination rate and time to germinates as …

Rapid Leaf Senescence Symptoms Are Related To Carbohydrate Depletion In Cut Chrysanthemums, And Strategies For The Symptoms Reduction, Shara Ortiz Carvajal

All Theses

Chrysanthemum (Chrysanthemum ×morifolium) is the second-largest exported cut flower worldwide; however, some cultivars exhibit rapid leaf senescence during their first week of vase life. This phenomenon negatively impacts consumer perception of plant quality, and its cause has been unknown. Experiments were performed in Colombia on cut chrysanthemums shipped to the U.S. for vase-life evaluation. After 10 d, the severity of leaf senescence symptoms was recorded. Experiments examined the effect of flower form [disbud (one flower per stem) versus spray (5-10 flowers per stem)], the effect of time of harvest (A.M. versus P.M.), and sugar sources (dextrose, fructose, mannitol, and sucrose) …

Logging In The Southeastern Us: Facing Challenges, Finding Opportunities, Shubhechchha Khadka

All Theses

The logging businesses, a crucial component of the wood supply chain, face shifting dynamics with various challenges and opportunities. Focusing on North and South Carolina, this study analyzes surveys and interviews to explore the logging business challenges and pathways to sustainable growth in the Southeastern United States.

In South Carolina, our findings indicate a shift towards more medium-sized businesses with a decrease in small and large logger, the entry of some younger loggers in the industry, and a notable rise in educational qualifications among loggers. Simultaneously, there is a decrease in the intergenerational transfer of logging businesses, coupled with escalated …

Phenology Of Asian Longhorned Beetle (Anoplophora Glabripennis, Coleoptera: Cerambycidae) In South Carolina, U.S.A., Lena Schmitt

All Theses

A new population of the Asian longhorned beetle (Anoplophora glabripennis Motschulsky, hereafter ALB), an invasive species in the United States since 1996, was discovered in Charleston County, South Carolina in 2020. This population is the furthest south ALB has been found in North America and provides an opportunity to examine the phenology of this beetle in a novel climate. I collected 1009 eggs, larvae, pupae, and adult beetles from the federal quarantine zone in South Carolina and used larval head capsule widths to determine the rate of development and voltinism of ALB in South Carolina’s coastal climate. With this …

Thawing And Storage Effects On Quality Of Plant-Based Sausage Patties, Dakota Cook

All Theses

Maintaining sausage analogue quality during a thawing process and storage is important for increasing consumer satisfaction. Following new trends and prevalence of plant-based meats and a flexitarian diet, two experiments were conducted to test how thawing methods (experiment 1) and storage temperatures (experiment 2) affect meat analogue quality. For Experiment 1, Jimmy Dean Original Sausage Patties Made with Pork & Turkey, Morningstar Veggie Original Patties and Beyond Sausage Original Patties were purchased pre-frozen and subsequently thawed in one of three ways: 1. thawed at 4°C for 24 hours, 2. thawed at room temperature (22°C±2°C) for 4 hours and 3. thawed …

Effect Of Storage Temperatures And Home Refrigeration Systems On The Shelf Life Of Frozen Desserts, Natalie Sinclair

All Theses

The effect of storage temperature over 12 weeks was studied using dairy and non-dairy frozen desserts. Research was conducted to determine if higher freezer temperatures affect frozen dessert quality to reduce energy use associated with lower freezer temperatures. Samples were analyzed for ice crystal pore size using micrographs, grittiness by a trained sensory panel and weight loss during storage. Ice crystal size was determined using scanning electron microscopy and grittiness was measured on a 5-point ranking scale, with 1 being least gritty and 5 being most gritty. Weight loss was determined by measuring sample weights before and after the 12-week …

Fatty Acids And Parasitism: Towards A Better Understanding Of Lipid Metabolism In Trypanosoma Brucei, Joshua Saliutama

All Dissertations

Trypanosoma brucei is an extracellular eukaryotic parasite that causes sleeping sickness in humans and cattle. As an extracellular parasite, T. brucei relies on the host’s nutrients to satisfy its growth requirements. The parasite is unusual because it does not uptake most of the host’s lipid species. Instead, T. brucei prefers to perform de novo synthesis of most lipid species. One of the lipid species that T. brucei can both uptake and synthesize is fatty acids. In my thesis work, I investigated the dynamics of fatty acid uptake, metabolism, and utilization of T. brucei. My work starts by determining the …

Salinity In Propagation: Germination And Juvenile Acclimatization Of Wetland Halophytes Using Saline Irrigation, Morgan Tomlin

All Theses

The introduction of poor water quality into commercial nursery crop production is predicated on optimized methods that apply saline irrigation without compromising plant success and health. Halophytes have many mechanisms of salt tolerance; however, these are greatly tied to physiological and developmental maturity. Thus, evaluating salt tolerance of halophytic crops (Hibiscus moscheutos and Kosteletzkya virginica) during seed germination and juvenile phases of life may provide insight into the efficacy of integrating poor quality water in horticultural operations.

Four seed priming methods (hydropriming, proline priming, low concentration halopriming, and high concentration halopriming) were evaluated as pre-sowing techniques to ameliorate …

Biology And Herbicide Resistance Characteristics Of Various Annual Bluegrass (Poa Annua L.) Biotypes From Across The United States, Jacob William Taylor

All Dissertations

Annual bluegrass (Poa annua L.) is one of the most problematic winter annual weeds in managed turfgrass systems, having rapidly adapted to different climates and management practices. Characteristics such as prolific seedhead production, clumped bunch-type growth habit, and lack of stress tolerance negatively impact turfgrass quality. Achieving adequate control can be difficult because annual bluegrass exhibits high levels of genetic diversity, the ability to germinate year-round, and has a high tendency for evolving herbicide resistance, currently resistant to at least nine different herbicide sites of action. Current management programs rely heavily on herbicides for control; however, frequent use without implementing …

Development Of New Cotton Defoliation Sprayer Using Unmanned Ground Vehicle And Pulse Width Modulation Technology, Jyoti Neupane

All Theses

Chemical spraying is one of the most important and frequently performed intercultural agriculture operations. It is imperative to utilize appropriate spraying technology as a selection of ineffective one leads to waste of agrochemicals to the non‐target area. Several precision technologies have been developed in the past few decades, such as image processing based on real‐time variable‐rate chemical spraying systems, autonomous chemical sprayers using machine vision and nozzle control, and use of unmanned aerial and ground vehicles. Cotton (Gossypium hirsutum L.) is an important industrial crop. It is a perennial crop with indeterminate growth habit; however, in most parts of the …

Photodynamic Therapy To Treat Triple Negative Breast Cancer In Vitro, Hunter S. Warren

All Theses

Triple negative breast cancer (TNBC) is the most resilient form of breast cancer, being one of the leading causes of death for women and making up 7% of all cancer deaths. Photodynamic therapy (PDT) offers a minimally invasive solution to TNBC as a passive-targeting treatment that reduces the need for other well established yet harsh treatments that can be taxing on the patient. PDT involves the use of a high-energy red light on the area of a tumor injected with photosensitizers (PS) that generate reactive oxygen species (ROS) in the tumor, triggering cell death. The PS tetra(hydroxyphenyl)chlorin (m-THPC) was used …

Evaluation Of Bone And Muscle Quality In Laying Hens Using Quantitative, Radiographic, Computed Tomographic, Biomechanical, And Tissue Level Measures, Cerano Harrison

All Dissertations

Bone quality is an important measure of welfare in laying hens for researchers, veterinarians, and commercial producers who bear the responsibility of providing them with care. Breeding practices that have resulted in high egg productivity of laying hen strains have resulted in an increased susceptibility to developing osteoporosis. Osteoporosis, a decrease in mineralized bone, is accompanied by increased bone fragility that can lead to potentially painful bone fractures that can inhibit some aspects of the birds natural living, respiration and flight being two examples. Current methods of examining laying hen bone quality involve the implementation of diagnostic imaging and biomechanical …

Investigating The Potential Of A Cell-Based Gene Editing Therapy For Inherited Metabolic Liver Disease, Ilayda Ates

All Dissertations

Inherited metabolic diseases (IMDs) affecting the liver are relatively rare but collectively have a prevalence of 1 in 800 live births. These diseases result from autosomal recessive single-gene mutations, leading to organ dysfunction and potentially fatal consequences if left untreated. One potential therapeutic strategy for IMDs of the liver involves using CRISPR-Cas9-induced loss of function mutations. However, translating this approach into the clinic is limited by the need for safe and effective CRISPR delivery methods. Adeno-associated viral vectors (AAVs), commonly used for CRISPR delivery, are associated with significant safety and efficacy concerns, including risks for immunogenicity, off-target mutagenesis, and genotoxicity …