Life Sciences Commons^™

An Analysis Of Factors Impacting Hay Auction Prices And The Potential For Nap To Reduce Alfalfa Revenue Risk, Madeline L. Dant

Theses and Dissertations--Agricultural Economics

Hay auctions have generally been understudied due to their unique market structure. Therefore, the factors that influence the price of hay at auction markets are not well-known. The price of hay at auction markets reflects the various characteristics that differentiate each lot of hay sold. This study is aimed at analyzing the determinants of Central Kentucky hay prices. A hedonic price model is estimated using data collected from a Central Kentucky hay auction. Known hay attributes include forage species, form, bale weight, and nutritive value. An important aspect of this analysis is to determine whether the quality measures of the …

Three Essays In Food Consumption And Health Related Issues, Fuad Mohammed Alagsam

Theses and Dissertations--Agricultural Economics

This dissertation consists of three essays that make contributions to the research on food consumption and health-related issues. Essay I elaborates on how the interactions of consumers’ beliefs and actions influence Food-Away-From-Home (FAFH) consumption and tests whether consumers compensate for the high caloric intake typically associated with FAFH by changing their behaviors during other meals. Essay II studies consumers’ choices related to time allocations for food consumption and tests how consumers’ lifestyles moderate the effect of secondary eating (eating while doing other activities) on obesity. Lastly, Essay III examines intertemporal choices, through which individuals make trade-offs between immediate gratifications and …

Small Landholders Battle The Leaf Folder: Improving Livelihoods In The Solomon Islands, Dalia Tayseer Najjar

Bard Center for Environmental Policy

Sweet Potato is an important staple food crop grown by subsistence farmers in the Solomon Islands. It plays an important food security role and a major source of nutrition and livelihood in the rural areas as well as urban areas in the country. However, the spread of agricultural pests, in particular, the green leaf folder pest (Psara hipponalis), has significantly increased in recent years leaving many smallholder farmers with reduced yields and food insecurity. In this thesis, I reviewed the literature on the common mechanisms used to evaluate the drivers of pest presence and identified the major factors …

Carbon Stocks In Shade Coffee: Strategies For Enhancing Carbon Storage In Smallholder Systems In Jinotega, Nicaragua, Vanessa Katheryn Kichline

Bard Center for Environmental Policy

Climate change has recently shifted focus to adaptation and mitigation strategies in coffee production. Shade coffee systems, already widely recognized for their contribution to biodiversity and soil conservation, are now drawing attention for their role in carbon storage. Researchers have generally assumed that high carbon storage must come at the expense of reduced crop yields, implying that farmers must choose between sustainability and profit. This study uses field inventories of 70 farms in Jinotega, Nicaragua to estimate this tradeoff in smallholder shade coffee systems. Field inventories were used to develop three typologies representing different shade management strategies in use in …

Resilience Theory In Climate-Based Agriculture Development Projects: Useful Framework Or Popular Buzzword?, Rebecca Ann Chillrud

Bard Center for Environmental Policy

International development organizations are increasingly attempting to improve the resilience of the communities they serve through their projects in these communities. However, these projects often fail to address key concepts from the resilience theory literature, calling into question their ability to effectively promote resilience. This thesis attempts to locate these gaps in understanding by analyzing proposal documents from projects intending to promote agricultural resilience to climate change. A content analysis approach was used to analyze 55 projects from three international development groups—the Global Environment Facility, the World Bank, and the United Nations Development Program—proposed or completed between 2006 and 2016. …

Addressing Antibiotic Resistance From Farm-Raised Fish Imported To The United States, Nicholas Ali

Bard Center for Environmental Policy

Misuse of medically important antibiotics in animal production threatens the effectiveness of drugs that are vital in combating disease and infections. Recently, the FDA implemented regulations to limit the use of and access to veterinary drugs. However, these regulations only affect domestic production operations. Because over 90% of seafood consumed in the U.S. is imported from countries with different regulatory standards and because the U.S. has an import inspection rate of less than 1%, antibiotic resistance stemming from imported aquaculture is still a risk that is not sufficiently accounted for. This research investigates how the U.S. has reacted to the …

Characterization Of The Effect Of Aeration On A Commercially Available Fibrin Sealant For Use In Wound Therapy, Adam Robert Marek

Dissertations

Wound care affects millions of people worldwide each year, and the need for an effective wound therapy still exists. The aim of this study was to characterize a novel, aerated biopolymer, fibrin foam, which is generated through a patented mixing process using a commercially-available fibrin sealant. This research developed a distinct preparation of fibrin foam that creates a porous environment with improved wound healing properties. With this fibrin foam, characterization assessments were performed, including evaluation of mixing parameters, biocompatibility, and biomechanical strengths.

Fibrin foam is created by performing six passes through a mixing device, which generates a foam matrix with …

The Effects Of Alcohol And Traumatic Brain Injury On Neural Stem Cell Responses, Son Trung Ton

Dissertations

Traumatic brain injury (TBI) is a major source of disability in modern societies. However, there are no good pharmacological strategies for treating long-term TBI complications because we do not fully understand the injury processes that occur afterward. Moreover, a significant percent of patients entering the emergency room with TBI have a blood alcohol level above the legal limit. Alcohol use and intoxication is a widespread issue in our society. Binge drinking is the most common way in which alcohol is consumed, and alarmingly, Americans of all age groups binge drink on a frequent basis. Despite the prevalence of alcohol intoxication …

Characterization Of Multi-Albumin Pegylated Complexes Synthesized Using "Click" Chemistry As Drug Delivery Systems, Jonathan Alejandro Hill

Dissertations

Due to its ability to transport hydrophobic materials through the bloodstream, human serum albumin has become an intriguing component for drug delivery systems. The most pressing concerns with current albumin-based systems are the risk of pathogenic transfer associated with human-sourced blood proteins, the negative effect on osmotic pressure due to administration of a large dose of albumins, the potential immune response and loss of biological activity due to heavy modification of these albumins, and the need for organic solvents for preparation of these products. Key residues in the two main drug binding sites, DS1 and DS2, are conserved in bovine …

Utilizing Single-Molecule Fret Methods To Study Conformational Changes In Trim5Α, Margret Suzanne Bradley

Master's Theses

Single-molecule FRET (smFRET) is a method by which dynamic conformational changes can be monitored in a protein microscopically and in real time. smFRET relies on the creation of FRET (Förster Resonance Energy Transfer) between small molecule fluorophores conjugated to the biomolecules of interest. FRET efficiency allows calculation of interfluorophore distances. Changes in FRET efficiency represent changes in protein conformation which can inform further structural and molecular studies of the protein of interest. For example, in the Campbell Lab, we study the protein TRIM5α, an antiretroviral cellular protein which can cause premature dissociation of the HIV capsid core by an unknown …

Potential Efficacy Of Targeting Mll1 In Breast Cancer, Austin Gable Holmes

Master's Theses

In 2017, it is estimated that breast cancer will be the most prevalent newly diagnosed cancer in females, at 30% in the U.S. alone1. From the early 1990s to 2014 the death rate in females from breast cancer has dropped by 10% but still stands as the second highest cancer related death in females in the U.S.2. One of the biggest hurdles in breast cancer research is disease heterogeneity. New mechanisms of disease development and progression are encountered frequently. One mechanism studied in the past decades is epigenetics. It has been theorized that the cancer epigenome can maintain an abnormal …

The Novel Characterization Of Extracellular Vesicles Containing Proteins Which Have Been Implicated In The Pathogenesis Of Hiv Associated Neurocognitive Disorders, Grace Ispas

Master's Theses

Although Anti-Retroviral Therapy (ART) is practiced, HIV-1 positive individuals still experience HIV-Associated Neurocognitive Disorders (HAND), collectively described as the presentation of neurocognitive, behavioral and motor dysfunctions that decrease the quality of life, while increasing the mortality in ART suppressed HIV-1 positive patients.

Current literature suggests that extracellular vesicles are involved in the pathogenesis of HAND as they are believed to be transferring HIV-1 proteins to nearby neuronal cells. Although most studies assume homogeneity among populations, characterizing cellular proteins or RNA levels in bulk, we hypothesize that distinct populations of extracellular vesicles are released and that environmental conditions, including viral infections, …

Functional Studies Of Novel Mosquito Stage-Specific Genes In The Malaria Parasite, Plasmodium Berghei., Kaitlyn Kiernan

Master's Theses

The development and survival of the malaria parasite Plasmodium within its mosquito vector is not very well understood. When the parasite is taken up by an Anopheles mosquito, it is exposed to digestive enzymes, reactive oxygen species, increasing pH, decreasing temperature, and a diverse microbial flora. Our lab is studying the adaptive mechanisms underlying parasite survival in this hostile environment, one of which is movement out of the midgut. In order to escape the midgut, the parasite develops into an elongated, motile form called the ookinete. I am investigating two genes, thioredoxin-like protein 1 (trxl-1) and subpellicular microtubule protein 1 …

Phenotyping Temperature-Sensitive Coronaviruses, Amani Eddins

Master's Theses

Coronaviruses (CoVs) can cause a range of symptoms; from a mild common cold to life threatening acute respiratory distress syndrome (ARDS) upon infection. These emerging viruses have the ability to be highly pathogenic and detrimental to the human population. Two prime examples of CoV emergence, SARS-CoV (Severe Acute Respiratory Syndrome) and MERS-CoV, (Middle Eastern Respiratory Syndrome), which exhibits the pandemic potential of emerging CoVs that gain human tropism. Given the increasing potential of an emerging CoV outbreak there is a state of urgency to develop vaccines that will help protect the human population against current and future circulating strains. The …

The Effects Of Treating Multispecies Biofilms With Bacteriophage, Alexandria Francis Cooper

Master's Theses

Biofilms can be found in any environment within proximity to water and are problematic in an assortment of industries. Numerous efforts have been employed to dislodge biofilms including bacteriophages (viruses that infect bacteria). Phage remediation is a promising solution for combatting biofilms that form on catheters in long term use patients. These biofilms often result in catheter-associated urinary tract infections (CAUTIs) and are the most common type of healthcare related infection reported. Additionally, they result in longer hospital stays and increased morbidity. To date, most of the research on the topic focuses on single species biofilms, despite their rarity in …

Utilizing Genetic Techniques To Identify Amino Acids Within The Putative Glycosyltransferase Sypq That Are Essential For Its Role In Biofilm Formation By Vibrio Fischeri, Mary Kathryn Flaherty

Master's Theses

The polysaccharide component of the V. fischeri biofilm is produced by proteins encoded by the symbiosis polysaccharide (syp) locus. The syp locus encodes 18 genes, six of which are putative glycosyltransferases (GTs). One of these GTs, sypQ, encodes a putative family 2 glycosyltransferase (GT-2). The mechanism by which SypQ facilitates biofilm formation is not yet understood. To uncover which specific residues are essential for the function of SypQ, I utilized Bioinformatics, site-directed mutagenesis, and random mutagenesis. The Bioinformatics identified putative GT-2 motifs in the SypQ primary sequence. The mutagenesis (both site-directed and random), identified five residues (D95, D151, S153, D236, …

Optimizing Clean Catch Urine Collection And Its Applications In Urinary Microbiome Studies, Danielle Johansen

Master's Theses

Clean catch was developed before the advancement of more sensitive assays for culturing urinary bacteria. I reassessed clean catch, endeavoring to optimize this method. Periurethral swabs and voided urines were routinely collected, while analyzing different aspects of the method. I determined that midstream urine contained the least amount of vulvo-vaginal contamination and that the time of collection did not impact the results. I also determined that the use of antiseptic wipes prior to void increased the level of vulvo-vaginal contamination. A small cohort of females collected daily urines over a 17-day period and kept a strict alcohol diary. Females who …

Multifunctional Regulatory T Cells From Human Umbilical Cord Blood And The Role Of Tumor Necrosis Factor In Immune Homeostasis, Alexander Nelson

Master's Theses

Regulatory T cells (Tregs) are required to suppress inflammation and prevent autoimmunity. During fetal development Tregs are crucial to maintain tolerance between mother and child. After birth, neonates require tolerance to avoid harmful immune responses to foreign antigens in food and allow colonization with commensal microbes. We demonstrate a propensity for T cells in human umbilical cord blood to differentiate into Tregs in response to antigen receptor stimulation ex vivo. Cord blood-derived Tregs potently suppress T cell proliferation, but also produce pro-inflammatory cytokines known to activate innate immune responses. These results suggest that antigen exposure during early life results in …

Dexamethasone Treatment Effects On H3k27me3 Chromatin Organization Is Related To Nk Cell Immune Dysregulation, Michael Sarafeno Misale

Master's Theses

It is well-established that psychological stress reduces natural killer (NK) cell immune function. This reduction is mediated by stress-induced release of glucocorticoids (GC), which can suppress immune function. Associated with suppression of a particular immune function are GC induced histone-epigenetic marks. Histone-epigenetic marks are responsible for the organization and compartmentalization of genomes into transcriptionally active euchromatin domains that are localized to the interior of the nucleus. Transcriptionally silent heterochromatic domains are enriched with methylated epigenetic marks and are localized to the nuclear periphery. The purpose of this investigation was to assess the influence of GC on H3K27me3 chromatin organization by …

Nutrient Removal And Vegetation Recovery Through Successive Harvesting Of The Invasive Hybrid Cattail (Typha X Glauca) In Great Lakes Coastal Wetlands, Kelsey Berke

Master's Theses

Excess nutrient levels have led to invasive hybrid cattail (Typha × glauca) dominance in many Laurentian Great Lakes coastal wetlands. Its ability to alter wetland structure and function has made T. × glauca a target invasive species with respect to Great Lakes coastal wetland

restoration. This study investigated the effect of harvesting invasive T. × glauca biomass on nutrient removal, specifically nitrogen and phosphorus, and plant diversity recovery in Great Lakes coastal wetland ecosystems. This study demonstrated that without considering external nutrient inputs and outputs, a single harvest at Cheboygan Marsh, MI could remove ~2% of the total N and …

Chronic Effects Of Lead Exposure On Atherinops Affinis (Topsmelt): Influence Of Salinity And Organism Age, Erik Joseph Reynolds

Master's Theses

Pb (lead) appears in the environment as a consequence of both natural and anthropogenic processes. Mining, smelting, coal burning, lead acid batteries, and cement manufacturing substantially release Pb into aquatic environments. The goal of this study was to determine the influence of salinity and organism age on chronic toxicity of Pb to Atherinops affinis (topsmelt) in support of development of a species sensitivity distribution (SSD). Species sensitivity distributions assist in ecological risk assessments and establishing quality criteria for contaminants. Three chronic exposure studies were conducted for 28 days in a water flow-through testing system. Survival, standard length, dry weight, and …

Characterization Of Inhibitory Molecules Produced By Lactobacillus Crispatus, Giuseppe Anthony Pistone

Master's Theses

Lactobacillus species are widely accepted as beneficial bacteria of the human microbiota1-8. Lactobacilli spp. are well documented to inhibit pathogens by production and secretion of hydrogen peroxide (H2O2), organic acids, and/or proteinaceous bacteriocins into their environment. Most research attributes bactericidal activity of cell free supernatant (CFS) to H2O2 and/or lactic acid. Here, I demonstrate that CFS from a clinical isolate of Lactobacillus crispatus contains a molecule(s) that inhibits uropathogenic Escherichia coli (UPEC) colony formation independently of H2O2 and organic acids. Physiologic concentrations of H2O2 and organic acids produced by L. crispatus do not inhibit UPEC colony formation. Incubation of UPEC …

Aquatic Insect Community Structure And Secondary Production In Coastal Wetland Ponds Of The Copper River Delta, Alaska: Influence Of Water Temperature And Macrophyte Community Structure, Chantel Caldwell

Master's Theses

The Copper River Delta (CRD), southcentral Alaska, is one of the world’s largest continuous coastal wetlands and is largely composed of sloughs, lakes, and ponds. Due to coastal topography the east side of the Copper River (East Delta) is disproportionately impacted by a cold continental air mass. Wetland communities of the CRD were also impacted by a 9.2 magnitude earthquake in 1964 that shifted the more coastal portion of the CRD from tidally influenced ponds to freshwater ponds.

The West-East temperature gradient across the CRD coupled with landscape type (uplifted marsh (UM) and outwash plain (OP)) creates four regions (West-UM, …

Frnk Regulatory Complex Formation With Fak Is Regulated By Erk Mediated Serine 217 Phosphorylation, Taylor J. Zak

Dissertations

Focal adhesion kinase related non-kinase (FRNK) is an endogenous inhibitor of focal adhesion kinase (FAK) that has traditionally been used to inhibit FAK signaling in a variety of experiments and is also an important endogenous regulator of FAK signaling. More recently, FRNK has been shown to be of increasing importance in some pathologic conditions. Despite the increasing importance of FRNK, the molecular mechanism by which it functions remains unclear. In addition, FRNK contains several phosphorylation sites with unknown importance and function. Here I hypothesize that FRNK can inhibit FAK by binding directly to FAK within focal adhesions. Furthermore, I propose …

The Role Of Phage Trnas In The Evolution Of Codon Usage Biases In Giant Pseudomonas Phage Phikz And El, Stephanie Steidel

Master's Theses

As the most abundant and diverse biological agents in the biosphere phage have significant roles in microbial ecology, acting both as lethal bacterial parasites and vehicles of horizontal gene transfer. Phage/host coevolution drives optimization of phage codon usage for use of host translational machinery, thus lowered correspondence between phage and host codon usage reduces viral fitness. Some phage may partially bypass host translational selection on their codon usage by encoding their own tRNAs, although the effects of these tRNAs on phage codon usage and translation has not been well examined. This work explores the influence of phage encoded tRNAs on …

Secondary Data Analysis: A Non-Pharmacology Treatment For Individuals Living With Hiv/Aids, Joseph Jean, Carolee Dodge-Francis Ed.D

McNair Poster Presentations

At the end of 2015, 36.7 million people were living with HIV/AIDS world wide (WHO, 2017). Living with this disease puts individuals at increased risk for mental and physical health complications. Opportunistic infections and increased serious mental health conductions are common (NIH, 2016). Advances in antiretroviral therapies have been made to increase life expectancy but often times can adversely affect the individuals quality of life. Complementary and alternative medicine (CAM) is one way to help improve quality of life. One form of CAM, massage therapy may offer benefits to PLWHA in terms of ability to cope with stress.

Stored Grain Volume Measurement Using A Low Density Point Cloud, Aaron P. Turner, Joshua J. Jackson, Nicole K. Koeninger, Samuel G. Mcneill, Michael D. Montross, Mark E. Casada, Josephine M. Boac, Rumela Bhadra, Ronaldo G. Maghirang, Sidney A. Thompson

Biosystems and Agricultural Engineering Faculty Publications

This technical note presents the development of a new apparatus and data processing method to accurately estimate the volume of stored grain in a bin. Specifically, it was developed to account for the variability in surface topography that can occur in large diameter bins when partially unloaded. This was accomplished using a laser distance meter to create a low density point cloud, from which a surface was interpolated using ArcMap geoprocessing tools. The manually controlled and portable system was designed to hold the laser distance meter and provided a common reference point. The data from the laser distance meter was …

Fourth-Generation Fan Assessment Numeration System (Fans) Design And Performance Specifications, Michael P. Sama, George B. Day, Laura M. Pepple, Richard S. Gates

Biosystems and Agricultural Engineering Faculty Publications

The Fan Assessment Numeration System (FANS) is a measurement device for generating ventilation fan performance curves. Three different-sized FANS currently exist for assessing ventilation fans commonly used in poultry and livestock housing systems. All FANS consist of an array of anemometers inside an aluminum shroud that traverse the inlet or outlet of a ventilation fan. The FANS design has been updated several times since its inception and is currently in its fourth-generation (G4). The current design iteration (FANS-G4) is reported in this article with an emphasis on the hardware and software control, data acquisition systems, and operational reliability. Six FANS-G4 …

A Method For Reflectance Index Wavelength Selection From Moisture-Controlled Soil And Crop Residue Samples, Ali Hamidisepehr, Michael P. Sama, Aaron P. Turner, Ole O. Wendroth

Biosystems and Agricultural Engineering Faculty Publications

Reflectance indices are a method for reducing the dimensionality of spectral measurements used to quantify material properties. Choosing the optimal wavelengths for developing an index based on a given material and property of interest is made difficult by the large number of wavelengths typically available to choose from and the lack of homogeneity when remotely sensing agricultural materials. This study aimed to determine the feasibility of using a low-cost method for sensing the moisture content of background materials in traditional crop remote sensing. Moisture-controlled soil and wheat stalk residue samples were measured at varying heights using a reflectance probe connected …

Evaluating A New Shade For Feedlot Cattle Performance And Heat Stress, Morgan D. Hayes, Tami M. Brown-Brandl, Roger A. Eigenberg, Larry A. Kuehn, R. Mark Thallman

Biosystems and Agricultural Engineering Faculty Publications

Heat stress in cattle results in decreased feed intake, lower daily gain, and potentially death in susceptible animals under intense conditions. A study was carried out during the summer of 2013 at the USDA-ARS U.S. Meat Animal Research Center feedlot evaluating the impact of shade on environmental conditions and cattle performance. A novel two-tiered shade was used in half of the 14 pens, each holding 30 animals. The shades were designed to reduce solar heat load by 40% to 60% and to provide traveling shade across the pen, providing varied amounts of shade area as well as varied solar reduction …