Digital Commons Network^™

Toward Understanding The Mechanism Of Protein Targeting In The Chloroplast Signal Recognition Particle Pathway, Mercede Furr

Graduate Theses and Dissertations

Protein targeting is a vital cellular function. The signal recognition particle (SRP) pathway is a universally conserved targeting system present in the cytosol and used to co-translationally target many proteins to the inner membrane of prokaryotes and the endoplasmic reticulum of eukaryotes. The chloroplast has a homologous SRP system which post-translationally targets light harvesting chlorophyll binding proteins (LHCPs) to the thylakoid membrane for integration. The chloroplast SRP (cpSRP) is a heterodimer with a 54 kDa subunit equivalent to SRP54 in the canonical pathway. In addition, cpSRP contains a novel 43 kDa subunit which is a unique and irreplaceable component. cpSRP43 …

Detecting Differentially Co-Expressed Gene Modules Via The Edge-Count Test, Anne Gratius Lin

Graduate Theses and Dissertations

Background

Gene expression profiling by microarray has been used to uncover molecular variations in many different diseases. Complementary to conventional differential expression analysis, differential co-expression analysis can identify gene markers from the systematic and granular level. There are three aspects for differential co-expression network analysis, including the network global topological comparison, differential co-expression cluster identification, and differential co-expressed genes and gene pair identification. To date, most of the methods available still rely on Pearson’s correlation coefficient despite its nonlinear insensitivity.

Results

Here we present an approach that is robust to nonlinearity by using the edge-count test for differential co-expression analysis. …

Natural Variation In Yeast Stress Signaling Reveals Multiple Paths To Similar Phenotypes, Amanda N. Scholes

Graduate Theses and Dissertations

Natural environments are dynamic, and organisms must sense and respond to changing conditions. One common way organisms deal with stressful environments is through gene expression changes, allowing for stress acclimation and resistance. Variation in stress sensing and signaling can potentially play a large role in how individuals with different genetic backgrounds are more or less resilient to stress. However, the mechanisms underlying how gene expression variation affects organismal fitness is often obscure.

To understand connections between gene expression variation and stress defense phenotypes, we have been exploiting natural variation in Saccharomyces cerevisiae stress responses using a unique phenotype called acquired …

Cover Crops As An Integrated Approach For Pest Suppression And Pollinator Promotion In Arkansas Watermelon Production Systems, Paige Laurel Hickman

Graduate Theses and Dissertations

Arkansas watermelon growers face a variety of insect pest and disease problems that have the potential to threaten yield. Integrated pest management tactics can provide control over these threats and are intended to cut down on pesticide use and its associated negative impacts like pesticide resistance, non-target effects, and runoff. Cover crops provide an array of benefits and can be useful in integrated pest management. Evidence has shown that certain cover crops can increase beneficial insects and suppress disease in the following cash crop. They can also provide important resources to pollinators. In order to build a better understanding of …

Chasing The Genetics Of Ascites In Broilers Using Whole Genome Resequencing, Alia Parveen

Graduate Theses and Dissertations

We are using whole genome resequencing to identify chromosomal regions associated with resistance or susceptibility to ascites, a form of pulmonary hypertension syndrome, meat-type chickens. Previous Genome Wide Association Studies (GWAS) based on Single Nucleotide Polymorphisms (SNPs) have identified regions on chromosomes 2, 9 and Z. Despite several GWAS and further genotyping, there are no reliable or potential markers for ascites phenotype. We have completed screening of Copy Number Variations (CNVs) and Single Nucleotide Polymorphisms in ascites resistant and susceptible birds from the relaxed, REL, line derived from a commercial elite broiler line. DNA samples from resistant and susceptible birds …

Schooling And Civic Behavior: A Global Perspective, Ian Kingsbury

Graduate Theses and Dissertations

National governments confront different challenges to the goal of creating model citizens, as well as different ambitions in the type of citizen that they wish to create. The United States government faces a tension in determining the role of education in shaping the social order. As a liberal democracy that extols the virtue of individual liberty, the United States should allow educational pluralism to flourish. Paradoxically, however, a nation of immigrants might require an education system that turns students into “proper Americans” who honor the precepts of liberty, equality, and self-government. I draw from domestic and international studies to inform …

Cost Effectiveness Of Greenhouse Gas Reductions Through Afforestation Of Agricultural Land In The Arkansas Delta, Karli A. Moore

Graduate Theses and Dissertations

Sequestration of atmospheric carbon in forested lands offsets carbon emissions from other industries. Conversion of private lands, particularly agricultural tracts in marginal areas, to forests can bolster carbon abatement. The United States government agencies administer some voluntary, incentive-based programs to encourage landowners to adopt production practices with positive environmental outcomes. This policy stream can be used to increase transition of marginal agricultural land to forests, thereby creating new carbon sinks. We analyze an eleven-county study area in the Arkansas Delta to determine feasibility for a subsidy focused on carbon abatement through afforestation. This study area is significant for two reasons: …

Genetic Resistance To The Downy Mildew Pathogen And Mapping The Rpf Resistance Loci In Spinach, Gehendra Bhattarai

Graduate Theses and Dissertations

Spinach (Spinacia oleracea) is an important cool-season leafy vegetable crop in the United States (US). Downy mildew, caused by the obligate oomycete Peronospora effusa, is the most economically important disease of spinach. A total of 17 races of P. effusa have been reported on spinach, and many of these races (>10) have emerged in the last three decades. The new races of the pathogen are continually overcoming the genetic resistances used in the newly released cultivars.

A detached leaf inoculation assay was evaluated, standardized, and validated as a new method to differentiate resistant and susceptible spinach genotypes. Disease response …

Investigating Egg Storage Conditions, Hatch Characteristics, And Feeding Methods Of Commercially Produced Poultry, Joshua R. Deines

Graduate Theses and Dissertations

Advancements in poultry research continue to add knowledge and understanding to an already technical industry. Such information has led to new developments in early feeding strategies which provide nutrients to broiler chicks while in the egg or during transport. This wealth of knowledge in poultry research extends beyond chickens and is utilized for other species, such as quail and pheasants, including how fertile eggs are stored and incubated. However, methods of early feeding broilers have not been investigated in industry relevant approaches to understand its effects, including how timing of feed access interacts with the hatch window. As well, quail …

Tax Indemnification And The Association Between Unrecognized Tax Benefit Reserves And Future Tax Cash Outflows, Patrick Lee Hopkins

Graduate Theses and Dissertations

Tax indemnification transfers from a firm to an outside party the risk of potential cash settlements associated with uncertain tax positions taken in prior years. The current accounting treatment of tax indemnification under Accounting Standards Codification (ASC) 805 and the required disclosures for uncertain tax positions under ASC 740 provide little or no information regarding this risk transfer in the financial statements or notes. I examine merger and acquisition (M&A) contracts from 2008 through 2013 and find that tax indemnification is commonly present in M&A transactions. I then provide evidence that the association between current uncertain tax benefit reserves and …

An Evaluation Of Hybrid Traits, Yield, And Major Qtl Effect On Heterosis In Hybrid Soft Red Winter Wheat, Zachary James Winn

Graduate Theses and Dissertations

Wheat (Triticum aestivum L.) is a self-pollinating species that is most often bred as a recombinant inbred line. When two inbred individuals are crossed, they produce progeny which experience heterosis; heterosis is the increased robustness experienced due to the reintroduction of heterozygosity. Hybrid wheat may be produced through the use of chemical hybridization agents, yet the structure of wheat flowers decreases the efficiency of outcrossing. The objectives of this study were to: assess the amount of heterosis experienced by a population of hybrid wheat and observe the effect of major gene loci on yield and yield components, phenotype anthers extruded …

Extracting Social Network From Literary Prose, Tarana Tasmin Bipasha

Graduate Theses and Dissertations

This thesis develops an approach to extract social networks from literary prose, namely, Jane Austen’s published novels from eighteenth- and nineteenth- century. Dialogue interaction plays a key role while we derive the networks, thus our technique relies upon our ability to determine when two characters are in conversation. Our process involves encoding plain literary text into the Text Encoding Initiative’s (TEI) XML format, character name identification, conversation and co-occurrence detection, and social network construction. Previous work in social network construction for literature have focused on drama, specifically manually TEI-encoded Shakespearean plays in which character interactions are much easier to track …

Characterizing Hydrothermal System Groundwater Dynamics Using Conservative And Non-Conservative Tracers: Insights And Implications Drawn From Study At The Taupo Volcanic Zone (New Zealand) And Valles Caldera (Usa), Joshua Michael Blackstock

Graduate Theses and Dissertations

Hydrothermal systems constitute an important component of heat and mass transport within Earth’s crust having direct and indirect impacts to society. Investigating contemporary hydrochemical differences and change are critical to evaluating and deconvolving factors that influence geothermal systems through time. In this dissertation, groundwater mixing approaches were used to study hydrochemical differences in two globally significant hydrothermal areas, which included fabrication of a low-cost dissolved CO2 monitoring for dissolved inorganic carbon (DIC). In the Taupo Volcanic Zone (New Zealand), empirical spatial relations were used to derive low-temperature groundwater end-members of Cl and Cl/Br for end-member mixing analysis (EMMA). Using EMMA, …

Rotational Tuning Of Transmembrane Helix Properties Based On The Precise Placements Of Aromatic And Charged Residues, Matthew J. Mckay

Graduate Theses and Dissertations

Designed model transmembrane peptides and oriented 2H and 15N solid-state nuclear magnetic resonance (NMR) spectroscopy were used to analyze how simple sequence modifications can influence peptide structure, behavior and dynamics as well as for determining the pKa of glutamic acid at the membrane interface. The GW5,19ALP23 (acetyl-GGALW(LA)6LWLAGA-amide) peptide framework adopts a well-defined tilted orientation in lipid bilayers (DLPC, DMPC and DOPC) and undergoes low amounts of dynamic motion. The sequence was initially modified by moving the Trp residues outwards to positions 4 and 20. This new sequence GW4,20ALP23 (acetyl-GGAW(AL)7AWAGA-amide) displays high amounts of signal averaging of NMR observables caused by …

Understanding And Controlling Lithium Microstructure During Electroplating For Energy Applications, Yang Tian

Graduate Theses and Dissertations

Lithium-ion batteries are reaching the specific theoretical capacity limit, while lithium metal batteries are regarded as the ideal energy storage system for the next generation “beyond lithium-ion” battery systems. The lithium metal anode is considered as the “Holy grail” of anodes due to its relatively low electrochemical potential (-3.04 V vs SHE) and high theoretical capacity (3860 mAh g-1). However, the application of lithium metal anodes is hindered because of significant reaction between metallic lithium and electrolytes, as well as uneven electro-plating, which leads to dendrite formation, causing safety problems.

The kinetic parameters of Li ions such as diffusion coefficient …

Observable Persistent Effects Of Habitat Management Efforts In The Ozark Highlands After 10 Years, Maxwell Carnes-Mason

Graduate Theses and Dissertations

I investigated the lasting impacts of a management plan designed to improve oak regeneration and benefit wildlife in the Ozark Highlands in Madison, Co., AR. To assess the efficacy of the management plan, I used variables relevant to the success and establishment of oak trees. Controlled burns and selective logging were used to thin the canopy, increase ground level productivity, and increase the abundance of small mammals. I used measurements of overstory and understory densities, light availability, and the density of mice in the genus Peromyscus across time to look at the lasting impacts of management. Different treatment plots were …

Teachers Engaging In Action Research To Increase Learner Agency, Dawn M. Childress

Graduate Theses and Dissertations

This study is designed to explore the perceptions of teachers in a Northwest Arkansas urban elementary school context as they engage in design-based action research to increase learner agency. It is based on the Carnegie Project on Education Doctorate (CPED) framework that includes identifying a problem of practice and engaging in research to address the problem. A problem of practice was identified in this school setting by an incoming school principal following a principal that had been in the school for many years. The new principal, also the researcher in this study, recognized that there was a low level of …

Nematode Populations As Affected By Residue And Water Management In A Long-Term Wheat-Soybean Double Crop In Eastern Arkansas, Lucia Emperatriz Escalante Ortiz

Graduate Theses and Dissertations

Soybeans (Glycine max) are one of the major row crops in the United States, particularly in Arkansas. Soybean cyst nematode (SCN, Heterodera glycines) and southern root-knot nematode (RKN, Meloidogyne incognita) are two of the most damaging pests that cause major economic losses in soybeans. Little is known concerning the effects of common and alternative agronomic practices on nematodes in fields with nematode population densities below threshold levels. Therefore, the objective of this study was to evaluate the effects of the combination of tillage (conventional tillage and no-tillage), irrigation (irrigated and non-irrigated), wheat (Triticum aestivum) residue burning (burned and no burned), …

Women In Stem: Strategies And Recommendations For Academic Women And Institutional Leaders, Sarah Jensen

Graduate Theses and Dissertations

Women still comprise a small number of full professors in STEM disciplines in research universities, which have historically been male dominated. The National Science Foundation (NSF) has recognized the challenge of getting more women to enter the professoriate, earn tenure, and advance to full professor. These women can then encourage more women to enter into STEM as educators and researchers. The purpose of this study was to recognize, explore, and depict strategies used by women full professors to overcome obstacles they faced while advancing in academic STEM fields. The study participants also offered recommendations for women faculty desiring to become …

An Investigation Of Metal Sulfides As The Source Of The Low Emissivity Anomaly On The Highlands Of Venus, Sara Taeko Port

Graduate Theses and Dissertations

Since its detection in the 1960s the source of the unusual radar emissivity signal seen on several highlands on Venus has long eluded researchers. Researchers have determined that a mineral with a high dielectric constant could explain the signal. Using a Venus simulation chamber, we experimentally investigated this enigma to build upon the candidate mineral list that has been compiled over the last several decades. We tested the stability of 8 different minerals and elements at two to three different temperature/pressure regimes in three different gas mixtures meant to simulate the conditions found on Venus for a period of no …

Quantitative Analysis Techniques For Assessing Organelle Organization And Dynamics In Individual Cells, Isaac Vargas

Graduate Theses and Dissertations

In biomedical optics and microscopy, the organization and morphology of organelles have been widely studied. In spite of novel imaging techniques, there is still a lack of quantitative tools to easily measure cellular characteristics from image data. Previous studies have explored multiple approaches to assess organelle organization and alignment, resulting in complicated and extensive algorithms that are both subject to multiple steps of image processing and influenced by non-cellular artifacts. In this thesis, a technique called the Modified Blanket Method (MBM) is introduced to quantify organelle organization through measurements of fractal dimension (FD) on a pixel-by-pixel basis. With the use …

Applications Of Ionic Liquids In Membrane Separation, Mohanad Kamaz

Graduate Theses and Dissertations

Ionic liquids represent an emerging attractive material in membrane technology. The central theme of this doctoral dissertation is to develope novel membranes using ionic liquids. Two different approaches were used to prepare ionic liquid membranes including the immobilization of ionic liquid within the membrane pores or the use of pressure assembly method to deposit a selective ionic liquid layer on the top membrane surface.

In chapter 2, imidazolium ionic liquids with three different alkyl halides were successfully synthesized and used to prepare supported ionic liquid membranes (SILMs). SILMs preraper were tested for aqueous and nonaqueous applications. For nonaqueous applications, the …

Getting Serious About Games: A Study Of Work And Play Through Information Systems, Jeffrey K. Mullins

Graduate Theses and Dissertations

Play and games shape, and are shaped by, culture. They represent an integral and ubiquitous component of humanity. Technological advances are blurring the lines between work and play, and their increasing convergence requires deeper understanding. Organizations seek to harness the motivational power of games to improve instrumental outcomes but face numerous challenges in doing so. Extant theory struggles to inform practice on the use of gameful experiences to achieve practical goals. This dissertation presents three essays that explore the domain of gameful information systems (IS), defined as IS that are designed or perceived to afford or support user experiences similar …

A Phenomenological Study Of Students’ Advising Experiences In A Four-Year Centralized Advising Center, Nicole Rowan

Graduate Theses and Dissertations

The purpose of this study was to explore how undergraduate students experienced and understood academic advising within the context of a four-year centralized, primary role advising center at a public research university in the mid-south. This qualitative study included 13 undergraduate juniors or seniors from the liberal arts college of a large research university. Using phenomenological methods, I explored the lived experience of these students’ advising experiences through a series of focus groups and one-on-one interviews with the goal of understanding how academic advising impacted the students’ sense of connectedness to the university. Five themes emerged from these interviews: access …

Improving Earthquake Disaster Models With Post-Event Data: Insights From The 2015 Gorkha, Nepal Earthquake, Bradley Steven Wilson

Graduate Theses and Dissertations

Immense amounts of data are collected following earthquake disasters. Yet, it remains unclear how researchers’ might take full advantage of diverse post-disaster datasets. Using data from the 2015 Gorkha Nepal earthquake, this dissertation explores three ways in which post- disaster survey and assessment datasets can be used to inform models of seismic risk, vulnerability, and recovery processes. The first article presents an empirical analysis of scale issues in disaster vulnerability indices using a novel dataset of 750,000 households. This study finds that using aggregated household data to create social vulnerability indices can produce results that are meaningfully different from equivalent …

Assessing The Repeatability Of Clinical Tests In People With And Without Flexion-Induced Neck Pain, Ashton Human

Graduate Theses and Dissertations

The accessibility of mobile technology has improved productivity but can contribute to musculoskeletal disorders due to the posture associated with using such devices. Neck flexion, a posture assumed by smartphone users, has been shown as a risk factor for the development of clinical neck pain if sustained for prolonged periods. Determining the individuals who are naturally more predisposed to develop flexion-induced neck pain can aid in the prevention and treatment of musculoskeletal disorders. The purpose of this thesis is to assess the repeatability of clinical tests between trials over the course of two days in young adults who do and …

Are Two Unmatched Minority Statuses Worse Than One? The Impact Of Social Status Similarities On Alliance In A Mock Clinical Interview, Roselee Jeannette Ledesma

Graduate Theses and Dissertations

Strengthening therapeutic alliance through social identity matching has been a strategy used to reduce psychotherapy dropout among racial/ethnic and sexual minority clients. Limited research has examined social identity match by manipulating social identity (e.g., race/ethnicity, sexual orientation) in an analogue therapy setting. This study (1) assessed whether self-reported alliance was positively associated with theoretical proxies of alliance and (2) examined the effects of racial/ethnic and sexual orientation match on therapeutic alliance (self-reported) and proxies of alliance (perceived similarity, liking, blame, empathy, closeness, microaggression proxies, verbal validation, and open body language). Participants (N = 71) were heterosexual White women interested in …

Strategies To Improve Forage Utilization By Sheep Offered Forage Mixtures, Valens Niyigena

Graduate Theses and Dissertations

In the first experiment, alfalfa and novel endophyte-infected tall fescue (NE+) forages were harvested after a killing frost, then mixed to formulate 4 different treatments; alfalfa alone, 67% alfalfa +33% fescue, 33% alfalfa + 67% fescue, or 100% fescue. After 3 months of storage as silage, Dorper ewe lambs (n = 20; mean BW = 34.7 ± 6.65 kg) were fed silage for ad libitum consumption, using 5 animals per treatment. Increasing the proportion of NE+ tall fescue improved (P < 0.05) silage total acids and lactic acid concentrations and decreased silage ammonia concentration. Digestible dry matter and organic matter intake and nitrogen utilization parameters decreased with increasing inclusion of NE+ in diet. In the second experiment, 16 Dorper ewe lambs (41.8 ± 4.61 kg BW) were assigned to 4 different treatments; alfalfa silage alone (0 g/kg; CONT) or alfalfa silage mixed with chopped sericea lespedeza (SL) hay to provide 90 (LOW), 180 (MED), or 270 g/kg SL (HIGH) on a dry matter basis in a randomized complete block design experiment with 2 period to provide 4 observations per treatment for each experimental period. Increasing the proportion of sericea lespedeza in the diet decreased dry matter and organic matter digestibility but did not affect feed intake. Fecal nitrogen (g/kg N intake) increased linearly (P < 0.01) while urinary N (g/ day and g/ kg of N intake) tended to decreased linearly and quadratically (P ≤ 0.1) with increasing the proportion of SL in diet. In the third experiments, 16 gestating Dorper ewe lambs (49.1 ± 4.61 kg BW) were allocated to 4 treatments; alfalfa silage alone (0% g/kg; CONT) or alfalfa silage mixed with lablab purpureus(LP) hay to provide 90 (LOW), 180 (MED), or 270 g/kg LP (HIGH) on a dry matter (DM) basis, in a randomized complete block design experiment with a total 8 replication per treatment. Supplementation of LP in diet increased quadratically (P ≤ 0.04) forage dry matter, organic matter intake, digestible dry matter and digestible organic matter intake (P < 0.05). Nitrogen apparently absorbed and urinary N both decreased linearly (P < 0.01) with adding more LP hay in diet. Harvesting and mixing alfalfa and fescue after a killing frost improved silage fermentation characteristics and supplementation of tannins from SL and polyphenol from LP altered N excretion.

Key words: lablab, sericea lespedeza, alfalfa silage, nitrogen, sheep.

Interpreting Potential Groundwater Policies Through Modeling Of Market And Non-Market Benefits And Costs, Grant H. West

Graduate Theses and Dissertations

Current policies leveraging financial incentives and improved irrigation efficiency to mitigate groundwater scarcity have not proven to curtail trends of resource depletion. Groundwater benefits cannot be appropriately valued solely on market forces, and so deeper policy consideration is warranted under a framework that considers the importance of groundwater across all its values to society. Understanding time preferences for groundwater management and preferences for alternative policies is vital to inform efficient policies. Furthermore, climate change remains politically controversial yet has important consequences for critical groundwater resources and their sustainable long-term management. Proliferating policy narratives concerning climate change could influence the way …

Changes In Cortical Processing Following Unilateral Visual Cortex Deafferentation, Matthew Gannon

Graduate Theses and Dissertations

After the loss of inputs, cells in visual cortex adapt and begin representing space beyond their classical receptive fields. This ability for functional reorganization is a phenomenon known as neuroplasticity. Homonymous hemianopia is a unique case of this scenario that results from hemispheric deafferentation, or when all visual inputs in to one hemisphere of the brain are lost. This condition occurs due to unilateral damage of the post-chiasmatic geniculo-striate pathway, the network that carries visual information from one side of visual space to the visual cortex for processing. Damage to this pathway causes perceptual blindness in the side of space …