Life Sciences Commons^™

Isolation And Analysis Of Single-Stranded Dna Aptamers For The Detection Of Ranavirus, Stephanie Zapata

Theses, Dissertations and Culminating Projects

The current molecular diagnostic methods for detection of deadly pathogens within a population can be time consuming and expensive. When surveying a population for the presence of a disease, time is a valuable resource. Therefore, a rapid pathogen test to use in the field will allow for faster detection of disease that can lead to determining a course of action for conservation of a species. Ranavirus is a double-stranded DNA virus that can cause mass mortality events in amphibian, reptile and fish populations. The disease can have the potential to wipe out entire populations or species if not controlled, having …

Characterization Of The Role Of The Replicase And Quasispecies Diversity In Flaviviral Evolution And Host Adaptation, Haley Caldwell

Legacy Theses & Dissertations (2009 - 2024)

Flaviviruses include several emerging and re-emerging arboviruses that cause millions of infections each year. Although relatively well-studied, much remains unknown regarding the mechanisms and means by which these viruses adapt to different hosts and rapidly alternate between hosts. Different aspects of flaviviral biology impact host switching, viral fitness, and the generation of viral diversity during genome replication by the NS3 and NS5 proteins. Together these factors may impact host plasticity.

An Interaction Between Centrosome Scaffold Proteins And A Retrotransposon Nucleocapsid Protein May Alter Asymmetric Centrosome Inheritance, Lanilei Doctora

Legacy Theses & Dissertations (2009 - 2024)

Nearly all eukaryotic genomes harbor mobile genetic elements known as retrotransposons. The mRNA ofthese elements undergo reverse transcription, yielding cDNA that is inserted in a new location in the host genome. We study Saccharomyces cerevisiae Ty1 elements, an active family of retrovirus-like retrotransposons, and the mechanism behind its regulation of spindle pole body (SPB) inheritance. Ty1 retromobility is activated during growth at 20˚C. In a manuscript that includes my work (Murphy et al., 2022, manuscript in preparation), we report that essential SPB proteins Nud1 and Spc42 are sequestered in the Ty1 retrosome, the site of Ty1 nucleocapsid assembly, in a …

Bioinformatics Analysis Of The Transcriptomic Profiles Of Duchenne Muscular Dystrophy Patients / Narrative Competence And Cognitive Mapping As A Culturally Sustaining Pedagogy In The Education Of Emergent Bilinguals, Bianca Gonzalez

Legacy Theses & Dissertations (2009 - 2024)

Duchenne Muscular Dystrophy (DMD) is a muscle-wasting disease that primarily affects boys characterized by loss of the dystrophin gene. Dystrophin is necessary for proper muscle growth, muscles that lack dystrophin are more prone to damage. In this thesis, a bioinformatics approach was used to evaluate the transcriptomic profiles of two datasets obtained from DMD patients. The two datasets were analyzed separately, as well as combined to identify differentially expressed genes. The first dataset, GSE6011, has 23 DMD samples and 14 controls. The second, GSE38417, consists of 16 DMD samples and six controls. Differential gene expression of both datasets combined found …

Translation Control Tunes Drosophila Oogenesis, Elliot T. Martin

Legacy Theses & Dissertations (2009 - 2024)

The decision of a stem cell to either self-renew or differentiate is controlled by specific cellularpathways that can act at the level of transcription, translation, or post-translation. To study the regulation of these pathways in-vivo, I have used the female Drosophila germline as a model system. Each of the steps from germline stem cell (GSC) to egg require changes in cellular pathways. These changes can occur at the level of transcription, post-transciption, translation, or post-translation . Decades of research has elucidated many of the changes to gene that occur during oogenesis, however, many players in this process still remain mysterious. …

Role Of H3k4 Methylation In Myogenesis, Regeneration, And Muscle Disease / Narrative Competence And Cognitive Mapping As A Culturally Sustaining Pedagogy In The Education Of Emergent Bilinguals, Hannah Emily Shippas

Legacy Theses & Dissertations (2009 - 2024)

Muscles are a crucial part of an organism’s wellbeing, as defects in distinct types of muscles can be lethal. Our voluntary muscles, skeletal muscles, go through distinct regeneration phases before reaching maturity. With its own pool of stem cells, muscles have a large potential for regeneration. This potential has led scientists into looking closely at the steps that lead a muscle stem cell into muscle fiber, also known as myogenesis. As a muscle cell moves through myogenesis, genes are led to be turned on/off with different epigenetic mechanisms, one being histone modifications. A methylation modification on the 4th Lysine on …

Exploring The Response To Arsenic Using Trna Modification Detection, Writer Mediated Protection And Codon Usage Analytics, Anwesha Sarkar

Legacy Theses & Dissertations (2009 - 2024)

Transfer ribonucleic acid (tRNA) is a non-coding RNA which interacts with the messenger RNA (mRNA) to facilitate protein synthesis. tRNA is also one of the most heavily modified RNAs with the collection of modifications, termed as the tRNA epitranscriptome, ranging from simple methylation to complex hypermodification catalyzed by RNA epitranscriptomic writers. Detecting tRNA modifications is an evolving field and the state-of-the-art technologies that include next generation sequencing and mass spectrometry of intact and derivatized RNAs is described in the chapter one. Liquid chromatography coupled with mass spectrometry has previously been used to show that arsenic promotes increases in the levels …

Environmental Factors And Human Health Interactions : Ultrafine Particles, Temperature Variability, And Proximity To Power Stations, Ian Ryan

Legacy Theses & Dissertations (2009 - 2024)

Background: Air pollution leads to more than four million premature deaths worldwide and nearly 200,000 in the US each year. While there is extensive research relating PM2.5 to hospital visits for various health outcomes, there is relatively little research on ultrafine particles (UFPs), a particularly small and dangerous air pollutant. Another important exposure is temperature due to its association with dehydration, heat stress, and cardiovascular-related hospital admissions. However, relatively little research has been conducted on diurnal temperature range (DTR), or the range of temperature within a single day, which is an important indicator of climate change. Importantly, the interaction between …

Megacity : A Reservoir Of Toxic Environmental Contaminants And Health Disease Burden, Omosehin Daniel Moyebi

Legacy Theses & Dissertations (2009 - 2024)

Ambient air pollution is a global environmental problem of concern with more than 95% of the world population living in areas with unhealthy air. World Health Organization (WHO) in 2019 stated that air pollution is a principal environmental risk to human health with about 7 million premature air pollution-related deaths annually. Several epidemiological studies have linked morbidity due to cardiovascular diseases (CVDs) to ambient air pollution exposure, especially in North America and Europe. However, the effect of air pollution in Karachi, Pakistan is understudied, which is the case for many urban centers in the developing countries. Karachi is a megacity …

Habitat Preference Of F. Notatus And F. Olivaceus From A Reversed Hybrid Zone, Elizabeth Hart Williams

Honors Theses

Understanding the mechanisms driving habitat preference throughout an organism’s life opens doors to the further understanding of the origins of diversity. Two species of minnow, Fundulus notatus and Fundulus olivaceus, are ideal for ecological research on habitat preference. Ordinarily, F. notatus and F. olivaceus display habitat preferences of downstream and upstream, respectively, with minimal coexistence at confluences. However, in some drainages, these preferences are flipped, like those in the Tombigbee River basin. Members of both species were collected from the Tombigbee River, tagged with species and sex specific colored elastomer marks, and placed in either a homogeneous control or …

Retrospective Reports Of Parental Feeding Practices And Current Emotional Eating Behaviors Among College Students, Mercedes Babin

Honors Theses

Emotional eating is a commonly reported eating behavior among United States adults; however, previous literature has indicated that the development of emotional eating is abnormal with regard to the body’s typical physiologic functioning. Although several studies have shown parental feeding practices correlate to the development of emotional eating in children, little research has been done to explore the association between parental feeding practices experienced in childhood and eating behaviors present in adulthood. The purpose of this study was to explore the relationship between parental feeding practices in childhood (i.e., food as a reward, monitoring, restriction, and pressure to eat) and …

Behavioral Effects And Neurobiological Mechanisms Of 3-Aminobenzimide In A Rodent Model Of Chronic Psychological Stress, Liza Wills

Electronic Theses and Dissertations

Major depressive disorder (MDD) is a leading cause of disability worldwide, with a lifetime prevalence rate of approximately 20%. Inadequate pharmacological treatment methods for MDD are a significant debilitating factor. Patient estimates suggest that the treatment resistance rate for pharmacological interventions is over 30%. Postmortem analyses of human tissue of individuals diagnosed with MDD have shown an increase in Poly (ADP-ribose) polymerase 1 (PARP-1) mRNA gene expression in prefrontal cortical white matter when compared to psychiatrically normal brain tissue. In order to further investigate this issue, the present study used the social defeat stress/chronic unpredictable stress (SDS + CUS) rodent …

Risk-Prone And Risk-Averse Foraging Strategies Enable Niche Partitioning By Two Diurnal Orb-Weaving Spider Species, Mitchell D. Long

Electronic Theses and Dissertations

Niche partitioning is a major component in understanding community ecology and how ecologically similar species coexist. Temporal and spatial partitioning and differences in foraging strategy, including sensitivity to risk (variance), likely contribute to partitioning as well. Here, we approach this partitioning with fine resolution to investigate differences in overall strategy between two species of diurnal, orb-weaving spiders, Verrucosa arenata and Micrathena gracilis (Araneae: Araneidae), that share similar spatial positioning, temporal foraging window, and prey. Through field observation, we found that V. arenata individuals appear to increase spatial and temporal sampling to compensate for an overall risk-prone strategy that depends on …

Hypocretin-Receptor Mrna Expression In The Central Amygdala Of Alcohol-Dependent And Non-Dependent Rats, Gabriel Aldridge

Electronic Theses and Dissertations

Hypocretin/Orexin (HCRT) neurotransmission facilitates drug-seeking behavior. HCRT neurotransmission at HCRT-receptors 1 and 2 (HCRT-R1 and -R2, respectively) is implicated in addiction. During the shift to alcohol-dependency, adaptations in neurotransmitter systems occur in reward- and stress-related brain regions. Specifically, neurotransmission systems in the central amygdala (CeA) are modulated by alcohol drinking/exposure. Therefore, this study investigated Hcrtr1 and Hcrtr2 mRNA expression in the CeA of alcohol-dependent rats and in non-dependent controls during acute alcohol withdrawal. Fos mRNA expression in the CeA of alcohol-dependent and non-dependent rats was also determined to assess adaptations in neuronal activation. To our knowledge, this is the first …

Characterizing The Interaction Between Candida Albicans And Two Enterobacter Species, Abigail Cornett

Electronic Theses and Dissertations

Candida albicans is the most common human fungal pathogen. The relationship between C. albicans and Enterobacter bacteria have yet to be explored. The hypothesis of this study is that C. albicans and both E. aerogenes and E. cloacae have a positive relationship and work together to infect the host. In this study, the physical cell-to-cell interaction, molecular components of said interaction, and the impact of the interaction on a live organism were explored. Results indicate that Enterobacter adheres to C. albicans and inhibits growth with unidentified secreted molecules. Als1p has potential involvement in the attachment of E. cloacae to C. …

Operatic Mysticisms: Mountains, Deserts, Waterscapes, Andrew Demczuk

Electronic Theses and Dissertations

Operatic Mysticisms: Mountains, Deserts, Waterscapes examines the ways we encounter environments as readers/viewers of operas, literature, film, and sound recordings, and how each medium requires different detail-gathering techniques. Respective to the previously mentioned mediums, Sun & Sea (2017), Mount Analogue (1952), El Mar La Mar (2017), and Energy Field (2010) are analyzed by engaging with environmental media studies and invention. Reflecting the nature of each landscape—summits of mountains, aporias of deserts, and mysteries of waterscapes—an elemental approach is taken in investigating how these spaces may be noticed, internalized, recorded, and traversed by both the artist and viewer. …

Community Structure Analysis Of Mammals Found At The Gray Fossil Site, Tn, Sarah Clark

Electronic Theses and Dissertations

The early Pliocene Gray Fossil Site (GFS) is a biodiverse site with a unique faunal assemblage that represents one of few sites of its age in eastern North America. A community structure analysis of the mammals at GFS was done to characterize species and better understand the paleoenvironment. Data and was gathered from twenty modern communities and five late Neogene sites to compare with GFS. Species from these 26 sites were categorized by body size, locomotor mode, cheek tooth crown height, and diet to characterize niches occupied. Descriptive statistics contrasted proportions of species within categories across communities. Discriminant function analyses …

2-Day Vs. 4-Day Training Cessation Following A Step Taper In Competitive And Recreational Powerlifters, Benjamin Burke

Electronic Theses and Dissertations

The purpose of this study was to compare differences in maximal strength, perceived recovery and stress state, and body composition alterations in powerlifters undergoing a 2-day or 4-day period of training cessation following a step taper. Ten participants completed a 6-week powerlifting specific training protocol. Body composition, perceived recovery and stress state, and maximal strength in the back squat (BS), bench press (BP), and deadlift (DL) were assessed prior to the overreach week (week 5) and either 2-days or 4-days after the taper. Alpha criterion was set at p≤0.05. There were statistically significant increases in BP (pp=0.03) …

Early Detection Of Atypical Motor And Neurobehavior Of Infants At Risk Secondary To Opioid Exposure: A Prospective Study, Kara Boynewicz

Electronic Theses and Dissertations

Prenatal opioid exposure has been studied in relation to infants' medical outcomes. However, large gaps exist in the literature supporting early identification of atypical neurobehavior and motor development of infants with prenatal opioid exposure. The purpose of the study was to investigate whether prenatal opioid exposure has a negative influence on a newborn infant’s neurobehavior and motor development to aid in the early identification of potential delays. Using a prospective quasi experimental design, infants motor development using the Test of Infant Motor Performance (TIMP) and neurobehavior using the NICU Neonatal Network Scale (NNNS) was assessed on 58 infants in a …

Expression And Functional Characterization Of Avocado Dgat1 And Pdat1 In Arabidopsis And Camelina, Josphat Kiunga

Electronic Theses and Dissertations

The study is aimed to determine the role of avocado DGAT1 and PDAT1 in seed oil synthesis. Triacylglycerol (TAG) has a nutritional and industrial value and is essential for plant growth. DGAT1 and PDAT1 catalyze the final step of TAG Assembly. We hypothesized that both PaPDAT1 and PaDGAT1, although predominantly expressed in non-seed tissues, could contribute to oil accumulation in seeds. Agrobacterium transformants with PaPDAT1 and PaDGAT1 cloned in pCAMBIA were generated to test this. Subsequently, the Agrobacterium-mediated transformation of Arabidopsis mutant lines and camelina was carried out by floral dipping. The T₁ camelina seeds …

Using Macroinvertebrates To Assess The Effects Of Nutrient Input Between The Nolichucky And Pigeon Rivers, Anna Grizzard

Electronic Theses and Dissertations

Previous work found significant differences in growth rates of native mussels at locations downstream from the regulated Walter’s Dam and the out-of-service, free-flowing Davy Crockett Dam. The purpose of this study is to investigate differences within the macroinvertebrate communities related to factors driving the differences in mussel growth between rivers. Macroinvertebrate samples were collected following the Tennessee Department of Environment and Conservation protocol for SQKICK collection and analyzed using the Tennessee Macroinvertebrate Index (TMI). There were no significant differences in TMI scores between the downstream sites of the rivers, but there were significant increases in chlorophyll_a, dissolved oxygen, …

Headcase Regulates Growth In Response To Nutritional Status Downstream Of Insulin Signaling, Thomas George

Honors Scholar Theses

Cancer cells are notorious for growing in an unrestricted manner without regard for environmental cues. Recently, Li et al. (2019) discovered headcase (hdc) functions by binding to the mTORC1 complex in the mTOR signaling pathway and preventing further signaling. Interestingly, under nutrient restricted (NR) conditions, cells with mutated hdc proteins proliferated more than cells with normal functioning hdc. It is well known that insulin signaling is downregulated under NR conditions, so a potential signaling pathway with insulin, PI3K, PDK1, Akt, PTEN, and hdc was created as a way to explain the link between hdc function and nutritional status. A Drosophila …

Identification Of Translesion Synthesis Inhibitors That Target Rev7/Rev3 Protein-Protein Interactions, Seema Patel

Honors Scholar Theses

Translesion synthesis (TLS) is a cellular mechanism utilized by cancer cells to tolerate DNA damage caused by chemotherapeutics, like cisplatin, by replicating past unrepaired lesions. This increases the rate of mutations, which leads to the emergence of drug-resistant cancer cells. Preliminary studies have shown that disrupting the protein-protein interactions (PPI) in the TLS heteroprotein complex increases cells’ sensitivity to first-line genotoxic chemotherapy, illustrating how inhibiting TLS assembly and function can significantly increase cancer cell death. These results underscore the therapeutic potential of targeting TLS PPI. Our current work in this area is focusing on inhibitors capable of disrupting the Rev7/Rev3 …

The Effects Of A Plant-Based Diet With Eggs On The Parameters Of Metabolic Syndrome, Insulin Resistance, And Dietary Choline And Carotenoids, Lindsey Huang

Honors Scholar Theses

Objective: Plant-based (PB) diets have been shown to positively affect the parameters of Metabolic Syndrome (MetS). The addition of eggs, which are rich in choline and carotenoids, could also complement the beneficial effects of PB diets by increasing HDL-C and improving the other parameters of MetS. Methods: Twenty-four subjects with MetS completed this 13-week randomized, controlled, crossover clinical trial. Following a 2-week run-in period where subjects followed a lacto-vegetarian diet, subjects were randomly allocated to consume 70g of spinach with either 2 whole eggs or the equivalent amount of egg substitute. At the end of 4 weeks, subjects underwent a …

Comparative Analyses Of De Novo Transcriptome Assembly Pipelines For Diploid Wheat, Natasha Pavlovikj

School of Computing: Dissertations, Theses, and Student Research

Gene expression and transcriptome analysis are currently one of the main focuses of research for a great number of scientists. However, the assembly of raw sequence data to obtain a draft transcriptome of an organism is a complex multi-stage process usually composed of pre-processing, assembling, and post-processing. Each of these stages includes multiple steps such as data cleaning, error correction and assembly validation. Different combinations of steps, as well as different computational methods for the same step, generate transcriptome assemblies with different accuracy. Thus, using a combination that generates more accurate assemblies is crucial for any novel biological discoveries. Implementing …

Evidence That The Transcriptional Repressor Icer Is Regulated Via The N-End Rule For Ubiquitination, Angelo Cirinelli, Justin Wheelan, Christopher Grieg, Carlos A. Molina

Department of Biology Faculty Scholarship and Creative Works

ICER is a transcriptional repressor that is mono- or poly-ubiquitinated. This either causes ICER to be translocated from the nucleus, or degraded via the proteasome, respectively. In order to further studies the proteins involved in ICER regulation mass spectrometry analysis was performed to identify potential candidates. We identified twenty eight ICER-interacting proteins in human melanoma cells, Sk-Mel-24. In this study we focus on two proteins with potential roles in ICER proteasomal degradation in response to the N-end rule for ubiquitination: the N-alpha-acetyltransferase 15 (NAA15) and the E3 ubiquitin-protein ligase UBR4. Using an HA-tag on the N- or C-terminus of ICER …

Influences Of Drosophila Circadian Clock On Sugar-Mediated Physiological Changes, Erica E Hassoun

College of Arts & Sciences Senior Theses

It is widely known that high sugar consumption and poor sleep are detrimental to human health. Both are risk factors for obesity, which can lead to conditions such as heart disease. Despite this connection between sugar and sleep, little is known about how circadian clock dysfunction affects the physiological changes caused by increased sugar consumption. In this thesis, a mutant line of the model organism Drosophila melanogaster (Clk^Jrk, which contains a nonfunctional circadian rhythm gene known as Clk) that leads to circadian dysfunction, was exposed to a high sugar diet to observe how Clk affects sugar-related changes to …

Using Fluorescent Microscopy To Follow Mitochondrial Inheritance Through Tagged Alternative Oxidase In Sporisorium Reilianum., Luke Schroeder

College of Arts & Sciences Senior Theses

Sporisorium reilianum is a dimorphic fungus that inhabits and infects a host corn plant (Zea mays). In order for the fungus to reproduce sexually, compatible haploid mating types must form a dikaryon that goes on to cause infection in the host. This infection causes leaf chlorosis and gall formation, while ultimately allowing for the dispersal of fungal teliospores in the later stages of infection. To grow, the fungus requires energy production in the form of ATP from its mitochondria. As a countermeasure to infection, host plants release harsh reactive oxygen species that may damage DNA, lead to apoptosis, …

Effects Of One-Pass Microwave Drying On Rice’S Utilization In The Brewing Process., Christopher Stuckey

Food Science Undergraduate Honors Theses

Rice is utilized as an adjunct grain by the beer manufacturing industry. Before utilization, the rice has to be dried to a desired moisture content. The drying process employed may have an impact on the rice’s physicochemical properties which influence the rice’s performance in the brewing process. This study focused on investigating the impact of microwave drying on rice’s physicochemical properties and utilization in the brewing process. Rough rice samples at an initial moisture content of 19.7% wet basis were exposed to microwave dryer set to deliver 525 kJ/kg of energy in a single drying pass. The effects of the …

Recipe Modification For Cardiovascular Health, Meg Tolbert

Human Nutrition and Hospitality Management Undergraduate Honors Theses

Cardiovascular disease (CVD) is the leading cause of death globally. CVDs affect the heart and blood vessels. The most prominent CVDs are coronary artery disease, cerebrovascular disease, rheumatic heart disease, and other conditions. More than four out of five CVD deaths are due to heart attacks and strokes.

The most important behavioral risk factors of heart disease and stroke are unhealthy diet and physical inactivity, but also include harmful abuse of tobacco and alcohol. These lifestyle factors display themselves as phenotypes like high blood pressure, high blood glucose and blood lipids, diabetes, and obesity. These risk factors, outside of genotype …