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Physiological Characterization Of Prochlorococcus Under Abiotic Stressors Temperature And Hydrogen Peroxide, Lanying Ma

Doctoral Dissertations

Cyanobacteria of the genus Prochlorococcus are the smallest and most abundant phytoplankters in the ocean. Temperature is a major influence on Prochlorococcus abundance and distribution in the ocean, but the physiological basis for this relationship is not well understood. In other microbes, lipid and fatty acid composition have been shown to be influenced by temperature, and temperature has also been proposed as a relevant factor for setting the elemental allocation in marine phytoplankton. In this study, we found that percentage of fatty acids unsaturation was negatively related with temperature in some Prochlorococcus strains, but this was not universal. Temperature had …

Health Assessment Of Two Reintroduced Populations Of American Martens (Martes Americana) In Michigan, Maria Catherine Spriggs

Doctoral Dissertations

The American marten (Martes americana) was extirpated from Michigan during the early-20th century due to loss of vast areas of mature conifer forest and unregulated trapping. The species was reintroduced into the Upper Peninsula (UP) and Northern Lower Peninsula (NLP) during the mid-20th century. While the American marten population in the UP has grown and is doing well, the population in the NLP has been less successful. The reasons for the limited success of the NLP population are unknown, but may include lack of suitable habitat, limited reproductive success, poor genetic diversity, disease, or negative environmental impacts. American …

Systematics And Diversification Patterns Of Morphologically And Ecologically Diverse Lineages Of Agaricomycetes: Clavariaceae And Cantharellales, Joshua Mark Birkebak

Doctoral Dissertations

The recent advent of molecular tools and methods to understand the diversity of living organisms allows for exploration of former untestable theories concerning the diversity of fungi. Here we assess the morphologically based classification of the family Clavariaceae in light of molecular phylogenetic reconstruction and propose a revised classification base on natural assemblages. We used stable isotope ratios to uncover a biotrophic nutritional mode for much of the family, which had not been well understood historically. We also investigate several enigmatic lineages of agaricoid or cantharelloid fruiting body producing fungi within a clade of otherwise clavarioid fruiting bodies. We provide …

Linking Physiology And Biogeography: Disentangling The Constraints On The Distributions Of Ant Species, Lacy Danikas Chick

Doctoral Dissertations

Understanding the factors that limit the distribution of species is at the core of ecological and biogeographical research, and is critical if we are to predict the responses of key ecosystem components to ongoing climatic changes. My doctoral research seeks to provide an understanding of how thermal physiology influences species’ distributions and better define the mechanisms underlying geographic variation in biodiversity. By using natural temperature gradients (both elevational and latitudinal) and coupling controlled laboratory experiments with field observations and null modeling approaches, I was able to document the role of inter-specific variation in thermal physiology and, more interesting, inter-population variation …

Molecular Breeding Strategies For Improvement Of Complex Traits In Soybean, Christopher Joseph Smallwood

Doctoral Dissertations

Soybean [Glycine max (L.) Merrill] is the leading oilseed crop grown in the world. Yield, fatty acids, protein, and oil are commercially important soybean traits; thus evaluation of breeding strategies for improvement of these traits is merited. To accomplish this, a comparison of molecular and phenotypic breeding strategies from progeny row selections was performed. From this it was determined that molecular strategies consistently outperformed phenotypic selections (PS) in the progeny row stage for soybean yield, fatty acids, protein, and oil. For yield, Epistacy was the preferred selection method. For fatty acids, protein, and oil, the genomic selection (GS) strategies were …

Multipartite Graph Algorithms For The Analysis Of Heterogeneous Data, Charles Alexander Phillips

Doctoral Dissertations

The explosive growth in the rate of data generation in recent years threatens to outpace the growth in computer power, motivating the need for new, scalable algorithms and big data analytic techniques. No field may be more emblematic of this data deluge than the life sciences, where technologies such as high-throughput mRNA arrays and next generation genome sequencing are routinely used to generate datasets of extreme scale. Data from experiments in genomics, transcriptomics, metabolomics and proteomics are continuously being added to existing repositories. A goal of exploratory analysis of such omics data is to illuminate the functions and relationships of …

Brown And Beige Adipocytes: Effects Of Inflammation And Nutritional Intervention, Jiyoung Bae

Doctoral Dissertations

Recent findings of brown adipocytes and brown-like or beige adipocytes, capable of dissipating energy as heat, in adult humans have promised new hope for obesity treatment and prevention. Understanding of the regulation of brown and beige adipocytes will provide novel strategies to reach the goal. Pattern recognition receptors (PRR) are responsible for inflammation in adipose tissue, which leads to adipose dysfunction and obesity associated chronic diseases. It has been shown that PRR activation induces inflammation, leading to insulin resistance in white adipocytes and white adipose tissue (WAT). However, the roles of PRR activation in brown adipocytes and brown adipose tissue …

Application Of Hidden Markov Model Based Methods For Gaining Insights Into Protein Domain Evolution And Function, Amit Anil Upadhyay

Doctoral Dissertations

With the explosion in the amount of available sequence data, computational methods have become indispensable for studying proteins. Domains are the fundamental structural, functional and evolutionary units that make up proteins. Studying protein domains is an important part of understanding protein function and evolution. Hidden Markov Models (HMM) are one of the most successful methods that have been applied for protein sequence and structure analysis. In this study, HMM based methods were applied to study the evolution of sensory domains in microbial signal transduction systems as well as functional characterization and identification of cellulases in metagenomics datasets. Use of HMM …

Bacterial Diversity And Function Within An Epigenic Cave System And Implications For Other Limestone Cave Systems, Kathleen Merritt Brannen-Donnelly

Doctoral Dissertations

There are approximately 48,000 known cave systems in the United States of America, with caves formed in carbonate karst terrains being the most common. Epigenic systems develop from the downward flow of meteoric water through carbonate bedrock and the solutional enlargement of interconnected subsurface conduits. Despite carbonate karst aquifers being globally extensive and important drinking water sources, microbial diversity and function are poorly understood compared to other Earth environments. After several decades of research, studies have shown that microorganisms in caves affect water quality, rates of carbonate dissolution and precipitation, and ecosystem nutrition through organic matter cycling. However, limited prior …

Applications Of Evolutionary Bioinformatics In Basic And Biomedical Research, Ogun Adebali

Doctoral Dissertations

With the revolutionary progress in sequencing technologies, computational biology emerged as a game-changing field which is applied in understanding molecular events of life for not only complementary but also exploratory purposes. Bioinformatics resources and tools significantly help in data generation, organization and analysis. However, there is still a need for developing new approaches built based on a biologist’s point of view. In protein bioinformatics, there are several fundamental problems such as (i) determining protein function; (ii) identifying protein-protein interactions; (iii) predicting the effect of amino acid variants. Here, I present three chapters addressing these problems from an evolutionary perspective. Firstly, …

Impact Of Milk Production Level On Beef Cow-Calf Productivity In Tennessee, Sarah Rebecca Edwards

Masters Theses

The beef cattle industry tends to focus on selecting production traits with the purpose of maximizing cow-calf performance. One such trait is milking ability, which is considered the primary influence on weaning weight of the calf. But, it can also have a negative effect on cow reproductive efficiency and cost of production. Therefore, the objective of this study was to determine the effect of actual milk yield on reproductive performance, circulating blood metabolites, and calf performance in beef cows in Tennessee. Data were collected from 239, 3- to 9-yr-old Angus sired beef cows from 3 research centers across Tennessee. On …

Subfunctionalization Of Ethylene Receptors And Homology Modeling Of Cytosolic Domains In Arabidopsis Thaliana, Sai Keerthana Wuppalapati

Masters Theses

Ethylene is a gaseous phytohormone that initiates and modulates several mechanisms related to growth and development in plants through a family of five disulphide-linked receptor dimers. Although the ethylene receptors are very similar in their structures, they have diverse functions with both overlapping and non-overlapping roles. Silver ions are able to support ethylene binding to the receptors but it is also interesting to note that ethylene responses are blocked in the presence of silver. A part of the present study identified that ETR1 receiver domain has little or no role in mediating responses to silver ions, supported by data obtained …

Epidemiology Of Select Species Of Filarial Nematodes In Free-Ranging Moose (Alces Alces) Of North America, Caroline Mae Grunenwald

Doctoral Dissertations

North American moose (Alces alces) are a culturally and economically valued species. Recent population declines raise concern for the survivability of this natural resource. The Minnesota population has experienced the most dramatic decline, with a 60% loss in total numbers since 2006. Nematode parasites, particularly some species of filarids, are important pathogens of moose and could be contributing to morbidity and mortality. This study investigates the eco-epidemiology of two filarial parasites of moose: Rumenfilaria andersoni and Elaeophora schneideri. By surveying cervid species from six U.S. states, we discovered R. andersoni was present in moose from all sample locations …

Chemical Disinfectants For The Inactivation Of The Emerging Foodborne Aichi Virus, Andres Ignacio Arreaza

Masters Theses

Aichi virus (AiV) is an emerging virus responsible for gastroenteritis outbreaks worldwide. Improved decontamination methods are being researched to control AiV spread. The effects of common hard surface disinfectants including benzalkonium chloride (BAC), potassium peroxymonosulfate (KPMS), tribasic sodium phosphate (TSP) as well as sodium metasilicate (SMS) and calcium hypochlorite (Ca(ClO)₂) [calcium hypochlorite] against AiV need to be explored. The objective of this research was to determine their effects against AiV using suspension and carrier tests over various contact times at room temperature. Phosphate buffered saline (pH 7.2 as control), 0.64% BAC, 10% KPMS, 10% TSP, 0.16 and 0.3% …

Effects Of Bedding With Recycled Sand On Lying Behaviors, Udder Hygiene, And Preferences Of Lactating Holstein Dairy Cows, Heather Deanna Ingle

Masters Theses

Effects of bedding with recycled sand and season on lying behaviors, stress, hygiene, and preferences of late-lactation Holstein cows were studied. Cows (n=64) were divided into 4 groups (n=8 per group) per season. In summer (Aug-Sept), cows were balanced by days in milk (268.1±11.9 d) and parity (2.0±0.2). In winter (Jan-Feb), mean DIM was 265.5±34.1 d. Cows were assigned to one of two treatments (trt) using a crossover design with each trt lasting 7-d (no-choice phase): bedding with recycled sand (RS; n=32) or control (CO; clean sand; n=32). Stocking density was maintained at 100%. Choice phase allowed a cow to …

Confirming Resistance To Prodiamine And Glyphosate In A Single Annual Bluegrass (Poa Annua L.) Biotype From Tennessee, Shane Matthew Breeden

Masters Theses

Annual bluegrass (Poa annua L.; POAAN) is a cool-season weed that commonly infests warm-season turfgrasses during winter dormancy. In spring 2012, poor POAAN control (<50%) was reported on golf course roughs in Alcoa, TN (35.75 °N, -83.88 °W) following treatment with a tank mixture of prodiamine (1120 g ha^-1[hectare]) and glyphosate (840 g ae ha^-1) during bermudagrass dormancy. The objective of this research was to determine if this POAAN biotype was resistant to prodiamine and glyphosate.

Using mature plants from the field, 81 of the 100 selections were not controlled by glyphosate and prodiamine; 96 of the 100 selections were not controlled by glyphosate, while 84 were unaffected by prodiamine. Only a single plant sampled was susceptible to both herbicides. …

Physiological Evaluation And Root Morphological Differences Associated With Novel Drought Tolerant Corn (Zea Mays L.) Hybrids, Austin Gentry Scott

Masters Theses

Corn hybrids designated “drought tolerant” (DT) from three commercial seed companies were evaluated in order to determine the benefit of DT technology in a mid-south environment that may receive adequate but often poorly timed rainfall. Field research was conducted in 2014 and 2015 at Milan, TN where hybrid response to stress was evaluated at two planting dates and in non-irrigated and irrigated environments and greenhouse research was conducted in Jackson, TN to evaluate early season drought to plant physiology and root structure.

In 2014 and 2015, the non-irrigated trials received enough rainfall to create a high yielding environment. Since the …

Determination Of Dispersal Patterns And Characterization Of Important Habitats For Lake Sturgeon Restoration In The Upper Tennessee River System, Christina Grace Saidak

Masters Theses

Lake Sturgeon, Acipenser fulvescens, are one of the slowest to reach sexual maturity and longest-lived freshwater fish species in North America. These fish are a species of special concern by the U.S. Fish and Wildlife Service, a vulnerable species by the American Fisheries Society (Jelks et al. 2008), and a threatened species in Tennessee (Chiasson et al. 1997; Williams et al. 1989). They have been reintroduced into the Upper Tennessee River system since 2000.

Since December 2013, 49 Lake Sturgeon have been implanted with ultrasonic acoustic transmitters, and 26 fixed-station receivers installed throughout the Upper Tennessee River System to …

Analysis Of Beef Cattle Producers’ Propensity To Adopt Pasture Management And Prescribed Grazing East Of The 100th Meridian, Kristen Elizabeth Oliver

Masters Theses

Pasture management and grazing practices affect animal productivity, soil carbon storage and soil and water quality. Poor pasture and grazing management practices can cause soil erosion, nitrogen leaching, and runoff into streams and waterways. Based on a survey of cattle farmers east of the 100^th meridian, the following two papers estimate how farm operator, farming operation, and attitudinal variables influence the propensity to use pasture management and prescribed grazing, as well as use of specific pasture management and prescribed grazing practices.

Key findings from the first paper are that individual pasture management and prescribed grazing practices are strong indicators …

Phylogenetic Analysis And Revision Of The Nearctic Androprosopa Mik (Diptera: Thaumaleidae) With An Emphasis On The Western Species, Robert John Pivar

Masters Theses

The family Thaumaleidae, also known as seepage midges, is an uncommonly encountered, understudied family of aquatic Diptera compared to its sister group, the Simuliidae. The goal of this project was to assess species diversity of the Nearctic Thaumaleidae and determine relationships among them. The western Nearctic fauna of Androprosopa Mik is revised to include twenty-eight species, six of which are described as new to science. Descriptions of the adult males of A. apache, A. arnaudi, A. magnipelvim, A. rainierensis, A. sierra and A. uvas are provided. Redescriptions of all remaining species are also provided, as well …

Evaluation Of A Natural Antimicrobial-Based Sanitizer As An Alternative To Chlorine For Reducing Foodborne Pathogenic Bacteria On Organic Produce, Ellen Rebecca Simmons

Masters Theses

There is a need for the development of a “natural” sanitizing agent to reduce or eliminate foodborne pathogens that meets USDA organic standards, as an alternative to chlorine. The sanitizer needs to eliminate foodborne pathogens and prevent cross contamination in rinse liquids in the presence of organic matter. In this study, the focus was to evaluate a natural antimicrobial-based sanitizing (NABS) agent in rinse liquids to determine if it was capable of eliminating foodborne pathogens on organic produce through cross-contamination studies. Five-serovar/strain cocktails of pathogenic bacteria were combined to form an inoculum cocktail, which was used to inoculate the produce. …

Improving Management And Species Selection Of Warm-Season Forage Grasses For Southeast Production Systems, Christine Helen Gelley

Masters Theses

Beef producers need drought tolerant options when selecting forage grasses and also practical methods to estimate forage nutritive value, which this study aims to provide for warm-season grasses. The objective of the first experiment was to develop estimates of warm-season forage nutritive value and herbage mass based on harvest timing. The experiment was conducted from 2013 to 2015 at the University of Tennessee Plateau AgResearch and Education Center (PREC) in Crossville, TN. Four species were evaluated, each for two years: bermudagrass [Cynodon dactylon (L.) Pers. cv. Vaughn’s # 1], switchgrass [Panicum virgatum (L.) cv. Alamo], sorghum-sudangrass [Sorghum …

Rare Occurrences Of Free-Living Bacteria Belonging To Sedimenticola From Subtidal Seagrass Beds Associated With The Lucinid Clam, Stewartia Floridana, Aaron M. Goemann

Masters Theses

Lucinid clams and their sulfur-oxidizing endosymbionts comprise two compartments of a three-stage, biogeochemical relationship among the clams, seagrasses, and microbial communities in marine sediments. A population of the lucinid clam, Stewartia floridana, was sampled from a subtidal seagrass bed at Bokeelia Island Seaport in Florida to test the hypotheses: (1) S. floridana, like other lucinids, are more abundant in seagrass beds than bare sediments; (2) S. floridana gill microbiomes are dominated by one bacterial operational taxonomic unit (OTU) at a sequence similarity threshold level of 97% (a common cutoff for species level taxonomy) from 16S rRNA genes; …

Efficacy Of Extending The Voluntary Waiting Period In Lactating Dairy Cows To Improve Fertility Of Sex-Sorted Semen, Sarah E. Orr

Masters Theses

The objective of this study was to compare fertility of sex-sorted semen in lactating cows using a voluntary waiting period (VWP) of approximately 55 days (VWP55) or 85 days (VWP85). At 21 days in milk (DIM), cows were randomly assigned to begin estrus synchronization at 55 or 85 DIM. Only cows confirmed cyclic by 55 DIM were synchronized. At 55 or 85 DIM, cows [VWP55 (n=44); VWP85 (n=45)] having a corpus luteum (CL) were administered PGF_2α [two alpha]. Estrus was monitored continuously by the HeatWatch® [registered sign] system ( …

Efficacy Of Visual Surveys For White-Nose Syndrome At Bat Hibernacula, Amanda Frances Janicki

Masters Theses

White-Nose Syndrome (WNS) is an epizootic disease in hibernating bats caused by the fungus Pseudogymnoascus destructans. Surveillance for P. destructans at bat hibernacula consists primarily of visual surveys of bats, collection of potentially infected bats, and submission of these bats for laboratory testing. Cryptic infections (bats that are infected but display no visual signs of fungus) could lead to the mischaracterization of the infection status of a site and the inadvertent spread of P. destructans. We determined the efficacy of visual detection of P. destructans by examining visual signs and molecular detection of P. …

Identification Of Purinyl-Cobamide As A Novel Corrinoid Cofactor Of Tetrachloroethene Reductive Dehalogenases In Desulfitobacterium Spp., Meng Bi

Masters Theses

Corrinoids (e.g. vitamin B₁₂) [cyanocobalamin] are a group of structurally similar, cobaltcontaining tetrapyrrole compounds involved in a number of important biochemical reactions. In organohalide respiration, vitamin B₁₂ analogues carrying different lower bases are obligate cofactors for the reductive dehalogenases (RDases) that catalyze reductive dechlorination reactions. The focus of this research was on the isolation and characterization of a novel natural corrinoid cofactor that enables the dechlorination-coupled energy conservation in organohaliderespiring Desulfitobacterium strains. Analysis of the purified corrinoid in the cyano form using a combination of high-performance liquid chromatography (HPLC), UV-Vis [Ultraviolet–visible spectroscopy] and ultra-performance liquid chromatography-high-resolution mass …

Long-Term Impacts Of Conservation Management Practices On Soil Carbon Storage, Stability, And Utilization Under Cotton Production In West Tennessee, Candace Brooke Wilson

Masters Theses

Biogeochemical cycling of soil carbon (C) is heavily influenced by conservation agricultural (CA) practices. This study examined SOC stability under three CA practices: reduced nitrogen (N) fertilizer application rate, cover cropping, and zero-tillage implemented for 31 years. Respiration rates measured from a 602-day incubation period were fitted to a double-pool first order exponential model of SOC decomposition. The active [respired] SOC pool showed distinct differences between applications of reduced (34N kg ha^-1 [-1]) and high fertilization rates (101N kg ha^-1) combined with tillage, and suggest that high fertilizer applications with conventional tillage allocated more C into a …

Evaluation Of Reproductive Efficiency In Lactating Dairy Cows Through Physiologic Evaluation And Synchronization Modification, Charles Dexter Young

Doctoral Dissertations

Reproductive performance of lactating dairy cows has decreased as milk production has increased as a result of genetic selection. Milk production alone is not the reason for decreased reproductive performance, as fertility issues are multifactorial and collaborative. Research chapters contained within have taken an applied approach focusing in two different areas of fertility. One approach was development of an evaluation system to identify lactating cows with decreased fertility prior to breeding; while another approach was to modify an ovulation synchronization protocol during periods of heat stress in order to improve fertility. The first focus was development and evaluation of a …

Associations Of Cooking Self-Efficacy And Frequency Of Icook-4h Youth Participants With Dietary Quality And Bmi At Baseline, Amber Donaldson Ford

Masters Theses

Background: With increased obesity has come increased ready-made and fast food consumption and decreased homemade food consumption. Previous studies have shown associations between cooking self-efficacy (SE) and cooking frequency (CF) with dietary quality and weight status. Cooking interventions have shown positive associations with dietary outcomes, such as increased fruit and vegetable intake and decreased fast food consumption. There is still much unknown about SE and CF, especially among youth.

Objective: The objective of this project was to determine baseline SE and CF and the associations with dietary quality and body mass index (BMI) of youth enrolled in iCook 4-H.

Methods: …

A New Adaptive Landscape: Urbanization As A Strong Evolutionary Force, Lauren Christie Breza

Masters Theses

Urbanization is rapidly increasing as human population growth steadily grows, but there is little consensus of the ecological consequence of this population shift and almost no information of the evolutionary consequences for local biodiversity. Nearly two-thirds of the world’s population will live in city centers by 2050 with profound impacts on landscapes that can act as important agents of selection. This study aims to identify 1) the net effect of urbanization on species richness, 2) how phylogenetic diversity varies between urban and rural sites, and 3) the strength of urbanization as a selection pressure. First, a meta-analysis was conducted in …