Life Sciences Commons^™

An Autothermal, Representative Scale Test Of Compost Heat Potential Using Geostatistical Analysis, William J. Mccune-Sanders

Graduate College Dissertations and Theses

Composting has been practiced for thousands of years as a way of stabilizing and recycling organic matter into useful soil amendments. Thermophilic compost releases significant amounts of heat at temperatures (~140 °F) that are useful for environmental heating or process water. This heat has been taken advantage of in various ways throughout history, but development of a widely adopted technology remains elusive.

The biggest barrier to adoption of compost heat recovery (CHR) systems is projecting accurate, attractive economic returns. The cost of transfer equipment is significant, and with variability in composting substrates and methods, it is difficult to predict the …

Biochemical Characterization Of The Dimerization Domain Of Purine-Rich Element Binding Protein B: An Essential Subdomain Mediating The Repression Of Smooth Muscle Alpha Actin Gene Expression, Lauren Ferris

Graduate College Dissertations and Theses

A number of physiologic processes require the expression of smooth muscle alpha actin (SMαA) to mediate cellular contraction. Stable expression of SMαA in differentiated vascular smooth muscle cells is associated with a contractile phenotype that is essential for regulation of blood flow and pressure. The transient expression of SMαA in myofibroblasts during wound repair facilitates wound closure. Hence, it is no surprise that dysregulation of SMαA gene expression in both cell types can have pathological consequences. Indeed, aberrant SMαA gene regulation has been implicated in diseases such as atherosclerosis and fibrosis. Therefore, a better understanding of the molecular mechanisms that …

'Crk'-Ing The Code: The Role Of Crk Adaptor Proteins In Zebrafish Eye Development, Helaina Renee Stergas

Graduate College Dissertations and Theses

The migration of neurons from their place of birth to their place of function is an important process during neurodevelopment. Two adaptor proteins, Crk and Crkl, are known to be important factors for neuronal migration. In the neocortex, both molecules play a critical role in the well studied Reelin signaling pathway, guiding newly born neurons to their correct cell layer to create the laminated structure of this tissue. These two adaptor proteins are implicated in human disease of the nervous system. Heterozygous compound deletion of human chromosome 17p13, which includes CRK, occurs in Miller-Dieker syndrome, a severe type of lissencephaly …

Characterizing The Role And Regulation Of Glycogen Metabolism In Dendritic Cell Immune Responses, Phyu Myat Thwe

Graduate College Dissertations and Theses

Dendritic cells (DCs) are the most potent professional antigen presenting cells (pAPCs) of the immune system and play a fundamental role in coordinating innate and adaptive immune responses. Through the expression of a wide array of pattern recognition receptors (PRRs), such as toll-like receptors (TLRs), DCs recognize a variety of microbial pathogens and infectious stimuli. Stimulation of DCs through TLR ligation results in a rapid series of activation-associated events, termed "maturation," which include the upregulation of surface co-stimulatory molecule expression, inflammatory cytokine secretion, and stimulation of naïve T cells via antigen presentation by MHC molecules.

Activation of DCs through TLRs …

Characterization Of A Novel Vps26c-Retromer Complex And Its Interaction With An Endosomal Trafficking Pathway Regulated By The Snare Vti13 In Controlling Polarized Growth And Cell Wall Organization In Arabidopsis Thaliana, Suryatapa Ghosh Jha

Graduate College Dissertations and Theses

The endosomal trafficking system is a network of highly coordinated cellular pathways that control the growth and function of cells. The coordination of secretion and endocytosis in cells is one of the primary drivers of polarized growth, where new plasma membrane and cell wall components are deposited at the growing apex. In plants, one of the cell types exhibiting polarized growth are the root hairs. Root hairs are regulated extensions of epidermal cells called trichoblasts and are essential for anchorage, absorption of water and nutrients, and plant-microbe interactions. In this thesis, I characterize a previously undescribed protein involved in retromer …

Rna Virus Ecology In Bumble Bees (Bombus Spp.) And Evidence For Disease Spillover, Samantha Ann Alger

Graduate College Dissertations and Theses

The inadvertent spread of exotic pests and pathogens has resulted in devastating losses for bees. The vast majority of bee disease research has focused on a single species of managed bee, the European honey bee (Apis mellifera). More recently, pathogen spillover from managed bees is implicated in the decline of several bumble bee species (Bombus spp.) demonstrating a need to better understand the mechanisms driving disease prevalence in bees, transmission routes, and spillover events.

RNA viruses, once considered specific to honey bees, are suspected of spilling over from managed honey bees into wild bumble bee populations. To test this, I …

The A-Site In The Pkg Iα Regulatory Domain Controls Both Cgmp- And Oxidative-Dependent Activation, Jessica Lynne Sheehe

Graduate College Dissertations and Theses

The type Iα cGMP-dependent protein kinase (PKG Iα) is an essential regulator of vascular tone and systemic blood pressure. Located in the smooth muscle of resistance vessels, PKG Iα stimulates vasodilation through the phosphorylation of multiple intracellular substrates. Its primary regulator is the small molecule, 3',5'-cyclic guanosine monophosphate (cGMP); however, the Iα isoform can also be activated by oxidation. Despite the established physiological importance of PKG Iα, the structural underpinnings of these two activation mechanisms are largely unknown.

The work presented in this dissertation demonstrates the importance of the cGMP-binding domain A (CBD-A) in regulating both of these mechanisms of …

Improving Scalability Of Evolutionary Robotics With Reformulation, Anton Bernatskiy

Graduate College Dissertations and Theses

Creating systems that can operate autonomously in complex environments is a challenge for contemporary engineering techniques. Automatic design methods offer a promising alternative, but so far they have not been able to produce agents that outperform manual designs. One such method is evolutionary robotics. It has been shown to be a robust and versatile tool for designing robots to perform simple tasks, but more challenging tasks at present remain out of reach of the method.

In this thesis I discuss and attack some problems underlying the scalability issues associated with the method. I present a new technique for evolving modular …

Labor On Vermont Dairy Farms: A Producer Perspective, Emily Irwin

Graduate College Dissertations and Theses

To compete with larger, more efficient dairy farms, build resilience against increasingly volatile milk prices, and increase farm income, farms in traditional dairy states such as New York, Wisconsin, and Vermont, have been forced to expand their herds and increase production. Many dairy farmers do not have formal training in human resources management, and find the transition to a larger, non-family workforce to be challenging. In addition, farmers who have transitioned to a primarily Latinx workforce also face considerable cultural and language barriers. The quality of human resource management can have a significant impact on a farm business, and evidence …

Single Molecule Imaging Reveals Tau Structure And Function On The Microtubule Surface, Jamie Stern

Graduate College Dissertations and Theses

Neurons are among the most highly polarized cells in the human body. This polarization allows the neuron to participate in the transfer of chemical and electrical signals which are crucial to the survival of the organism. As part of polarization, each neuron develops a dendritic arbor and an axon. To ensure the survival of the cell, materials synthesized in the cell body must be trafficked through the axon for delivery throughout ultimately ending at the synaptic termini. The bulk of this cargo transport is microtubule-based fast axonal transport which is molecular motor mediated and tightly regulated though many pathways. Motor …

The Sh2 Domain-Containing Adaptor Protein Shd Reversibly Binds The Crkl-Sh2 Domain And Knockdown Of Shdb Impairs Zebrafish Eye Development, Brendan Chandler

Graduate College Dissertations and Theses

The adaptor protein CT10-Regulator of Kinase (CRK) and the closely related CRK-Like (CRKL) are adaptor proteins that play important roles in many signaling pathways regulating cell proliferation and cell motility. A notable example is their required role in Reelin signaling during development of the laminated structures of the vertebrate central nervous system, including the cerebral cortex, cerebellum, hippocampus, and retina. As adaptors, CRK/CRKL are important in coupling phosphotyrosine signaling to G protein activity to regulate both cell proliferation and changes in the actin cytoskeleton, thereby exerting control over cell motility, and migration. While many proteins that interact with CRK/CRKL have …

Evaluating The Impacts Of Southern Pine Beetle On Pitch Pine Forest Dynamics In A Newly Invaded Region, Molly Heuss

Graduate College Dissertations and Theses

Southern pine beetle (SPB; Dendroctonus frontalis Zimmerman), a native insect that has historically affected pine ecosystems in the southeastern U.S., has recently expanded northward causing extensive tree mortality in pitch pine (Pinus rigida) and pitch pine-oak (Quercus spp.) forests across much of eastern Long Island, NY. Given the historic lack of SPB within these fire-dependent ecosystems, little is known regarding its impacts to forest composition, forest structure, or fuel loading. This study examined the short-term effects of SPB-induced tree mortality on the structure, composition, and fuel loading of pitch pine and pitch pine-oak communities to inform management recommendations and projections …

Apomixis, Hybridization, And Biodiversity In Ferns: Insights From Genera Phegopteris And Polystichum, Nikisha Patel

Graduate College Dissertations and Theses

Apomixis is an evolutionarily important phenomenon across plant lineages. The interaction of apomixis with hybridization and polyploidy can lead to complex patterns of reticulation, complicating efforts to reconstruct evolutionary history in groups where apomixis is common. Ferns, in particular, are rich in apomictic species, notably in centers of species diversity like East Asia. Eastern North America too is home to a number of apomictic species. We investigated the East Asian ferns in Polystichum sections Xiphopolystichum and Duropolystichum (Dryopteridaceae) in order to elucidate the evolutionary and biogeraphic history of seven apomictic species in the group: Polystichum tsus-simense, P. xiphophyllum, P. sinotsus-simense, …

Devonian Origin And Cenozoic Radiation In The Clubmosses (Lycopodiaceae), Weston Testo

Graduate College Dissertations and Theses

Together with the heterosporous lycophytes, the clubmoss family (Lycopodiaceae) is the sister lineage to all other vascular land plants. Given the family’s important position in the land-plant phylogeny, studying the evolutionary history of this group is an important step towards a better understanding of plant evolution. Despite this, little is known about the Lycopodiaceae, and a well-sampled, robust phylogeny of the group is lacking. The goal of this dissertation is to resolve the relationships among evolutionary lineages in the Lycopodiaceae and provide insight into the timing and drivers of diversification in the family.

First, to place the evolution of the …

Genotypes And Phenotypes Of Staphylococci On Selected Dairy Farms In Vermont, Robert Mugabi

Graduate College Dissertations and Theses

The genus Staphylococcus contains at least 47 species and 23 subspecies. Bacteria in this genus are ubiquitous; many are commensals on human and animal skin and can be opportunistic pathogens. In dairy cattle, staphylococci are the leading cause of intramammary infections (IMI) and mastitis. Mastitis is the inflammation of the mammary gland, and is one of the leading infectious diseases causing production losses in the dairy industry. Based on the ability to clot blood plasma in vitro, members of the genus can be divided into two groups: coagulase positive staphylococci (CPS) and coagulase negative staphylococci (CNS). In the dairy industry, …

The Effects Of Diet On The Bovine Milk Proteome, Richard Anthony Scuderi

Graduate College Dissertations and Theses

Protein is an important fraction within bovine milk. This milk protein is not only vital for calf growth and development, but also includes bioactive proteins and peptides that have been shown to enhance the health of animals and humans. Research efforts are focusing on factors, such as nutrition, that can influence the quantity and profile of proteins within the bovine milk proteome. The research outlined herein investigated the impact of diet on the bovine milk proteome. The first experiment examined whether dietary inclusion of grape marc (GM), a condensed tannin (CT) containing by-product from the viticulture industry, could alter the …

An Analysis Of Between-Cow Variation In Innate Immunity In Relation To Mastitis Severity, Filiz Korkmaz

Graduate College Dissertations and Theses

Bovine mastitis remains one of the costliest diseases affecting the dairy industry. Individual susceptibility to mastitis and severity of infection varies between animals and can only be partially explained by genetics. As such, understanding how genetic predisposition coordinately interacts with epigenetic modifications and environmental exposures is necessary to bridge the gap in missing heritability. The role of DNA methylation in regulating the response to bacterial lipopolysaccharide (LPS) was first determined by performing reduced representation bisulfite sequencing on fibroblasts isolated from heifers at 5- and 16-months of age that exhibit an age-dependent up-regulation in LPS-responsiveness. More than 14,000 differentially methylated sites …

From Sea To Lake: The Depositional History Of Saint Albans Bay, Vt, Usa, Matthew Kraft

Graduate College Dissertations and Theses

Sediment accumulated in lakes stores valuable information about past environments and paleoclimatological conditions. Cores previously obtained from Saint Albans Bay, located in the Northeast Arm of Lake Champlain, VT record the transition from the Champlain Sea to Lake Champlain. Belrose (2015) documented the presence of a peat horizon separating the sediments of the Champlain Sea from those of Lake Champlain. Initially, this layer was thought to comprise the transition from the marine environment of the Champlain Sea to a freshwater wetland. However, based on the results from this study, the transition between marine and freshwater conditions is thought to be …

Analysis Of Surface Crystals On Soft Washed Rind Cheeses Using Polarized Light Microscopy And Their Effect On The Sensory Perception Of Grittiness, Patrick Polowsky

Graduate College Dissertations and Theses

With the rising popularity of artisanal cheese in the United States, the soft washed rind category has emerged as a fast-growing segment of the marketplace. There is much anecdotal evidence to suggest a common sensorial defect in soft washed rind cheese is a gritty/sandy texture attributed to crystal growth on the rind of these cheeses

A preliminary study was undertaken to develop a set of criteria to visually identify crystals found on soft washed rind cheeses. Single crystal identities were presumptively determined using polarized light microscopy (PLM), and cross-checked using powder x-ray diffractometry (PXRD). Two distinct crystal groupings were determined …

Becoming Eco-Logical With Second-Order Systems Theory: Sustainability In Re-Organization Of Economies And Food Systems, Skyler Knox Perkins

Graduate College Dissertations and Theses

Ecological Economics has emerged across disciplines, and has begun to disentangle, not only the relationship between biophysical earth systems and economic activity, but also, fundamental relationships between objectivity, power, value, ethics, perspective and purpose.

In part, this thesis represents an effort to illustrate basic transdisciplinary concepts necessary for understanding the project of Ecological Economics. At present, Ecological Economics is challenged by a seemingly infinite number of available considerations, with a relatively narrow repertoire of impactful mechanisms of control. Given this, it is apparent that the application of Cybernetics to Ecological Economics might provide insights. Cybernetics can help to lend concise …

Management Factors Influence On The Fatty Acid Content And Composition Of Forages, Caleb Goossen

Graduate College Dissertations and Theses

Demand for ruminant-derived products high in beneficial fatty acids (FA) has led to a desire to maximize the alpha-linolenic acid (ALA) and total FA (ΣFA) content of forage crops. Several management factors affect the ALA and ΣFA content of forages, including phenology, species, season, and nitrogen fertility. Yet, the influence of harvest management decisions that affect wilting time of conserved forages is under-studied. Similarly, the majority of published research regarding ALA and ΣFA content is of cool season (C3 photosynthetic) temperate perennial forage species, and not warm season (C4 photosynthetic) annual species. Sample preservation methodologies used in published research are …

Temporal Coordination Of Mitotic Chromosome Alignment And Segregation: Structural And Functional Studies Of Kif18a, Haein Kim

Graduate College Dissertations and Theses

Chromosome alignment is highly conserved in all eukaryotic cell divisions. Microtubule (MT) -based forces generated by the mitotic spindle are integral for proper chromosome alignment and equal chromosome segregation. The kinetochore is a multi-subunit protein complex that assembles on centromeric regions of chromosomes. Kinetochores tether chromosomes to MTs (K fibers) that emanate from opposite poles, in a process called biorientation. This linkage translates K fiber dynamics into chromosome movements during alignment and segregation. Stable, high-affinity kinetochore attachments promote spindle assembly checkpoint (SAC) silencing, which is active when unattached kinetochores are present. During chromosome alignment, 1) K fiber plus-end dynamics decrease, …

"Teamwork Makes The Dream Work": Investigating The Impact Of Social Capital In The Tampa Bay, Fl Community Food System, Monica Petrella

Graduate College Dissertations and Theses

The research in this thesis investigates the relationship between social capital and the ability of a community food system (CFS) to contribute to broad community development goals. Social capital is understood to be an intangible resource that proliferates from strong relationships stocked with trust, reciprocity, and cohesiveness.

This research presents a journey through the literature to provide an overview of community food systems, the anticipated benefits that can result from adequate expansion, and how the concept of "embeddedness" contributes to development between the CFS and the community at large. The concept of social capital is introduced and discussed as previous …

Secondary Functions And Novel Inhibitors Of Aminoacyl-Trna Synthetases, Patrick Wiencek

Graduate College Dissertations and Theses

The aminoacyl-tRNA synthetases are a family of enzymes involved in the process of translation, more specifically, ligating amino acids to their cognate tRNA molecules. Recent evidence suggests that aminoacyl-tRNA synthetases are capable of aminoacylating proteins, some of which are involved in the autophagy pathway. Here, we test the conditions under which E. coli and human threonyl-tRNA synthetases, as well as hisidyl-tRNA synthetase aminoacylate themselves. These reactions are ATP dependent, stimulated by Mg2+, and are inhibited by increasing cognate tRNA concentrations. These data represent the foundation for future aminoacylation experiments, specifically delving into the relationship between the autophagy pathway and the …

Selenium In Thioredoxin Reductase: Resistance To Oxidative Inactivation, Oxidation States, And Reversibility Of Chemical Reactions, Drew Barber

Graduate College Dissertations and Theses

Selenium is a required trace element which was originally discovered by the Swedish chemist Jons Jacob Berzelius in 1817. It was initially believed to be a toxin as it was identified as being the cause of hoof maladies and excessive hair loss in horses that feed upon plants with high selenium content. It wasn’t until 1957 that the potential contributions of selenium to physiology were first demonstrated. Selenium is now known to play a critical role in the maintenance of human health. Interestingly, unlike other trace metals/semi-metals, selenium is directly incorporated into proteins in the form of the amino acid …

Neural Preparation For Step Initiation In Unpredictable Conditions With Age And Parkinson's Disease, Roman Popov

Graduate College Dissertations and Theses

Mobility is essential for the independent lifestyle. However, as the US population ages, challenges to mobility start to arise, among them just the aging itself which leads to decreased postural stability, falls and the second most common neurodegenerative disease, that is Parkinson’s disease (PD). We decided to investigate step initiation as it is crucial to mobility: walking is not possible without the first step.

Step initiation is impaired in PD. However, the impact of PD on the neural mechanisms of step initiation when some of the step parameters are unpredictable remains unexplored. Cortical preparation for step initiation can be assessed …

Methylation Controlled J Protein Is A Master Regulator Of Mitochondrial Metabolism, Devin Pierre Champagne

Graduate College Dissertations and Theses

Methylation controlled J protein (MCJ) is a negative regulator of mitochondrial metabolism that has a substantial impact on overall cell metabolism and function. MCJ is highly expressed by naïve CD8+ T cells, however its role in their immune effector functions was unknown. In this dissertation, it will be demonstrated that MCJ restricts the mitochondrial metabolism of CD8+ T cells, in part by reducing respiratory supercomplex formation. MCJ deficiency enhances the immune effector functions and memory responses of CD8+ T cells in a mitochondrial ATP dependent manner. As a consequence, protection to influenza virus infection is substantially improved. Reduced expression of …

Remote Sensing Methods And Applications For Detecting Change In Forest Ecosystems, David James Gudex-Cross

Graduate College Dissertations and Theses

Forest ecosystems are being altered by climate change, invasive species, and additional stressors. Our ability to detect these changes and quantify their impacts relies on detailed data across spatial and temporal scales. This dissertation expands the ecological utility of long-term satellite imagery by developing high quality forest mapping products and examining spatiotemporal changes in tree species abundance and phenology across the northeastern United States (US; the ‘Northeast’).

Species/genus-level forest composition maps were developed by integrating field data and Landsat images to model abundance at a sub-pixel scale. These abundance maps were then used to 1) produce a more detailed, accurate …

Examining Inter- And Intra-Individual Differences In The Neurobiological Mechanisms Associated With Inhibitory Control, Nicholas C. D'Alberto

Graduate College Dissertations and Theses

Adolescence is an ideal time to measure the development of the neural mechanisms associated with inhibitory control because this age period is marked by impulsive and risk taking behaviors. Maturational brain changes in the prefrontal cortex that are associated with the emergence of inhibitory control are thought to occur during this age. With knowledge of how this system develops, it may be possible to identify the development of disorders that arise from poor inhibitory control such as attention deficit hyperactivity disorder (ADHD) and substance use. The goal of the current dissertation is to examine the neurobiological correlates associated with individual …

Investigating The Effects Of Ant-Hemipteran Mutualisms On The Invertebrate Community Structure And Their Host Plant, Honey Mesquite (Prosopis Glandulosa), Nabil Nasseri

Graduate College Dissertations and Theses

Ants are ubiquitous in most communities and many form opportunistic mutualisms with honeydew-producing hemipterans (e.g. treehoppers). Hemipterans excrete honeydew, a carbohydrate rich substance, that ants harvest and, in return, ants protect their honeydew-producing partners from parasitoids, predators, and competitors. Given the efficacy of tending ants in removing hemipteran antagonists, and the strong roles that ants play within their communities as predators, competitors, and seed dispersers, surprisingly little is known of the effects of ant-hemipteran mutualisms (AHM) on the invertebrate communities in which they are embedded or on the plants that host AHM. Using observational and manipulative field experiments, I examined …