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Role Of Hsp70 And The Tlr4-Md2 Complex In The Vasculature: From Function To Dysfunction In Diabetes, Amanda Almeida De Oliveira

Theses and Dissertations

Diabetes impairs vascular functionality, which contributes to the pathophysiology of its associated complications. Recently, it was suggested that innate immune receptors assist in the development of diabetic vasculopathies, which sustains the pro-inflammatory state of the disease. Among these receptors, Toll-like receptor 4 (TLR4) is a strategic player as its activation prime the release of inflammatory mediators and reactive oxygen species (ROS), which are well-known pathological mechanisms linked to diabetic complications. The TLR4-Myeloid differentiation factor 2 (MD2) complex has gained much attention over the last decade, primarily because it interacts with self-produced molecules. In vascular tissues, the Heat-shock protein 70 (HSP70) …

Variations In Otolith-Zinc Concentrations Of Brown Surgeonfish (Acanthurus Nigrofuscus) Between Marine Protected Areas And Fished Reefs, Matthew Austin Nichols

Theses and Dissertations

As human populations continue to increase, the growing reliance on exploited fish stocks has furthered patterns of declining body size and biomass worldwide. To mitigate these impacts, fisheries managers have implemented a variety of conservation strategies, including marine protected areas (MPA), as these serve as a refuge for fish, resulting in increases in numerous health metrics (fish density, biomass, body-size, and species diversity). By using fish otolith samples previously concluded to have physiological and morphometric differences between MPA and fished reef (FR) fish, this thesis explores the potential of using microchemical analysis of zinc (Zn) to reveal impacts MPAs might …

Development And Optimization Of A Denitrification System To Promote Biological Nutrient Removal In A Subtropical Estuary, Abigail Gering

Theses and Dissertations

Eutrophication impacts coastal ecosystems globally and triggers phytoplankton and algal blooms, leading to an increase in oxygen demand in the water column and sediments due to various biogeochemical processes. Naturally, biological nitrification, denitrification and anammox processes help to remove nitrogen predominately by nitrifying and denitrifying bacteria in the sediments. Eutrophic systems have increased nutrient and organic matter loading and are prone to the accumulation of ‘muddy’, fine-grained, organic-rich sediments (locally termed ‘muck’) that may not be able to support high enough populations of these bacteria, and therefore, may not adequately support nitrification/denitrification processes that would otherwise remove nitrogen. To decrease …

News From The Bioconductor Project, Bioconductor Core Team

The R Journal

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor 3.14 was released on 27 October, 2021. It is compatible with R 4.1.0 and consists of 2083 software packages, 408 experiment data packages, 904 up-to-date annotation packages, and 29 workflows.

Volesti: Volume Approximation And Sampling For Convex Polytopes In R, Apostolos Chalkis, Vissarion Fisikopoulos

The R Journal

Sampling from high-dimensional distributions and volume approximation of convex bodies are fundamental operations that appear in optimization, finance, engineering, artificial intelligence, and machine learning. In this paper, we present volesti, an R package that provides efficient, scalable algorithms for volume estimation, uniform, and Gaussian sampling from convex polytopes. volesti scales to hundreds of dimensions, handles efficiently three different types of polyhedra and provides non existing sampling routines to R. We demonstrate the power of volesti by solving several challenging problems using the R language.

G2f As A Novel Tool To Find And Fill Gaps In Metabolic Networks, Daniel Osorio, Kelly Botero, Andrés Pinzón Velasco, Nicolás Mendoza-Mejía, Felipe Rojas-Rodríguez, George Barreto, Janneth González

The R Journal

During the building of a genome-scale metabolic model, there are several dead-end metabolites and substrates which cannot be imported, produced, nor used by any reaction incorporated in the network. The presence of these dead-end metabolites can block out the net flux of the objective function when it is evaluated through Flux Balance Analysis (FBA), and when it is not blocked, bias in the biological conclusions increase. In this aspect, the refinement to restore the connectivity of the network can be carried out manually or using computational algorithms. The g2f package was designed as a tool to find the gaps from …

The R Quest: From Users To Developers, Simon Urbanek

The R Journal

R is not a programming language, and this produces the inherent dichotomy between analytics and software engineering. With the emergence of data science, the opportunity exists to bridge this gap, especially through teaching practices.

Formation Of B Horizons In Engineered Putting Green Soils, Glen R. Obear

Department of Agronomy and Horticulture: Dissertations, Theses, and Student Research

Engineered turfgrass putting green soils are designed to drain quickly, while maintaining adequate water- and nutrient-holding capacity to sustain plant growth. These soils are designed to meet specific performance characteristics when they are constructed, but the process of soil formation changes these characteristics over time. Chapter 1 of this dissertation is a literature review of soil formation in engineered putting green soils. Pedogenesis of putting greens is such that A horizons form as organic matter accumulates near the surface, and B horizons form as particles and solutes are translocated to textural or pH boundaries in soil profiles. In the engineered …

American Burying Beetle, Plant Richness, And Soil Property Responses To Collapse Of Juniperus Virginiana Woodlands With Fire, Alison K. Ludwig

Department of Agronomy and Horticulture: Dissertations, Theses, and Student Research

Grasslands are declining in the Great Plains due to land use changes, woody plant encroachment, and loss of historic fire cycles. Prescribed burn associations have utilized prescribed fire to collapse invading woodlands and allow the restoration of grasslands. This fire is considered “extreme” because it is capable of changing the structure and function of an ecosystem. Our study site is the Loess Canyons Experimental Landscape, a long-term, ecoregion-scale experiment to apply prescribed fire across the region to restore grasslands. The Nebraska Natural Legacy Project established the Loess Canyons ecoregion as a Biologically-Unique Landscape in 2005 with the state’s wildlife action …

Review Of Nest Records Of Nebraska Birds By Wayne J. Mollhoff, W. Ross Silcock

Nebraska Bird Review

This book summarizes a lifetime of investigation of Nebraska’s breeding birds by Wayne Mollhoff. Even though I say the book summarizes a lifetime of investigation, I would not be surprised if Wayne resurfaces in a few years with a follow-up of some sort, intrepid investigator that he is. Over the years Wayne has spent innumerable days in the field climbing trees in full forestry gear, wading and kayaking marshes and rivers, hiking over prairies, and bushwhacking through dense forests (there are still a few in Nebraska). But this isn’t the totality of Wayne’s talents; he is a determined researcher with …

Review Of The Sandhill Crane State: A Naturalist’S Guide To Nebraska By Paul Johnsgard, Ruth Stearns

Nebraska Bird Review

Dr. Paul Austin Johnsgard left us one last gift, in this reference guide to all places natural in Nebraska. Published posthumously, and available for purchase or free via UNL’s Digital Commons, this book arrived at my doorstep like a veritable “seed catalog” of Nebraska’s places of wonder to delight and inspire fair weather adventures just before the long winter set in. He wants us to explore the state as he had done, to be excited by all the out-ofdoors Nebraska has to offer.

Index To Volume 89

Nebraska Bird Review

Adams, Marie 52

to

Zonotrichia leucophrys gambelii 168 leucophrys 75, 168-169 oriantha 75, 169

Fall Field Report, August-November 2021, W. Ross Silcock

Nebraska Bird Review

INTRODUCTION Recent years have seen increasing reports of birds lingering quite late, and this fall was no exception. Notable groups exhibiting tardy departures were shorebirds and vireos. Tardy shorebirds were record late Solitary Sandpipers, near-record late Dunlin, and late Long-billed Curlew, Ruddy Turnstone, Least and Semipalmated Sandpipers, Long-billed Dowitcher, and Wilson’s Phalarope. Among the vireos, all regular species were at least tardy; record late was a Red-eyed Vireo, a Warbling Vireo was record late for the Panhandle, and a Blue-headed Vireo was second latest on record. Record late was a Barn Swallow, and a Mountain Bluebird was record late in …

Punnett Squares Or Protein Production? The Expert–Novice Divide For Conceptions Of Genes And Gene Expression, Dina L. Newman, Aeowynn Coakley, Aidan Link, Korinne Mills, L. Kate Wright

Faculty Research, Scholarly, and Creative Activity

Concepts of molecular biology and genetics are difficult for many biology undergraduate students to master yet are crucial for deep understanding of how life works. By asking students to draw their ideas, we attempted to uncover the mental models about genes and gene expression held by biology students (n = 23) and experts (n = 18) using semistructured interviews. A large divide was identified between novice and expert conceptions. While experts typically drew box-and-line representations and thought about genes as regions of DNA that were used to encode products, students typically drew whole chromosomes rather than focusing on gene structure …

Comparative Analysis Of Kmer Counting And Estimation Tools, Ankitha Vejandla

School of Computing: Dissertations, Theses, and Student Research

The rapid development of next-generation sequencing (NGS) technologies for determining the sequence of DNA has revolutionized genome research in recent years. De novo assemblers are the most commonly used tools to perform genome assembly. Most of the assemblers use de Bruijn graphs that break the sequenced reads into smaller sequences (sub-strings), called kmers, where k denotes the length of the sub-strings. The kmer counting and analysis of kmer frequency distribution are important in genome assembly. The main goal of this research is to provide a detailed analysis of the performance of different kmer counting and estimation tools that are currently …

Modeling Watershed Sensitivity To Climate Change In Systems Affected By Discharge Of Mine Tailings, Johnette C. Shockley

Department of Civil and Environmental Engineering: Dissertations, Theses, and Student Research

For more than a century, a large volume of gold-mining tailings was deposited in Whitewood Creek and the Belle Fourche River, tributaries to the Cheyenne River in western South Dakota. Much of it still remains, and field and historical evidence indicates continued remobilization of tailings-containing alluvium in these bedrock-dominated channels. Both long-term, natural fluctuations in climate and anthropogenically driven changes can impact regional precipitation, temperature, hydrologic patterns, and ecosystem functions. Such changes have the potential to affect both the transport and distribution of arsenic-laden sediments and mechanical erosion that can undermine the stability of channel-bed and overbank material.

This study …

Effect Of 3 Days Of Oral Azithromycin On Young Children With Acute Diarrhea In Low-Resource Settings: A Randomized Clinical Trial, Antibiotics For Children With Diarrhea (Abcd) Study Group, Tahmeed Ahmed, Farah Naz Qamar, Mohammad Tahir Yousafzai, Shahida Qureshi, Sadia Shakoor, Rozina Thobani, Aneeta Hotwani, Furqan Kabir, Jan Mohammed

Department of Paediatrics and Child Health

Importance: World Health Organization (WHO) guidelines do not recommend routine antibiotic use for children with acute watery diarrhea. However, recent studies suggest that a significant proportion of such episodes have a bacterial cause and are associated with mortality and growth impairment, especially among children at high risk of diarrhea-associated mortality. Expanding antibiotic use among dehydrated or undernourished children may reduce diarrhea-associated mortality and improve growth.
Objective: To determine whether the addition of azithromycin to standard case management of acute nonbloody watery diarrhea for children aged 2 to 23 months who are dehydrated or undernourished could reduce mortality and improve linear …

Pyridine Nucleotide Redox Potential In Coronary Smooth Muscle Couples Myocardial Blood Flow To Cardiac Metabolism., Marc Matthew Dwenger

Electronic Theses and Dissertations

The maintenance of myocardial oxygen supply during stress is essential for sustaining cardiac health. Enhancement of coronary blood flow upon increases in myocardial oxygen demand (i.e., hyperemia) relies on regulation of voltage-gated K⁺ (Kv) channels by their intracellular β subunits (i.e., Kvβ proteins). Considering that, Kvβ proteins are aldo-keto reductases (AKRs) and regulate Kv channel gating, we tested the hypothesis that elevation of myocardial oxygen demand modifies intracellular NAD(H) in arterial myocytes. Furthermore, we tested whether the resultant change in the redox state of the pyridine nucleotide pool directly regulates coronary Kv1 channel activity. High-resolution imaging mass spectrometry and …

Impact Of Pank1 Deletion On Mitochondrial Acetylation And Cardiac Function During Pressure Overload., Timothy N. Audam

Electronic Theses and Dissertations

Recent studies have associated elevated protein acetylation levels with heart failure in humans. Although mechanisms promoting elevated acetylation levels are not fully known, excess acetyl-CoA may drive enzyme-independent acetylation of cardiac proteins. Accumulation of acetyl-CoA depends on the availability of sufficient CoA, whose production is regulated by pantothenate kinases in the CoA biosynthetic pathway. We show that cardiac proteins are hyperacetylated during heart failure in humans and tested in mice whether limiting CoA abundance would improve ventricular remodeling during pressure overload-induced hypertrophy. We limited cardiac CoA levels by deleting the rate-limiting enzyme in CoA biosynthesis, Pank1 (one of three PANK-encoding …

Investigations Of Potential Mechanisms Underlying Spinal Cord Injury-Induced Polyuria., Jason H. Gumbel

Electronic Theses and Dissertations

Spinal cord injury (SCI) results in neurological impairments including motor, sensory, and autonomic dysfunction. These neurological deficits result in a litany of complications apart from muscular paralysis, including bladder, bowel, cardiovascular, and sexual function. SCI-induced polyuria (the overproduction/passage of urine) remains understudied, and therefore mechanisms behind it are largely unknown and require extensive investigation for potential targeted therapies to improve quality of life. The objective of this dissertation was to investigate potential mechanisms of SCI-induced polyuria and explore potential therapies to improve quality of life in the SCI population. Metabolic cages, Western blot, enzyme-linked immunoassay, and immunostaining were first used …

Assessing The Role Of Arsenic Exposure And Mirna-186 In Skin Tumorigenesis And Chromosomal Instability., Angeliki Lykoudi

Electronic Theses and Dissertations

Chronic arsenic exposure through drinking water is a global health issue, affecting more than 200 million people. Arsenic is a group I human carcinogen and causes chromosomal instability (CIN). Arsenic exposure is the second most cause of skin cancer after UV radiation. MiR-186 is overexpressed in arsenic-induced squamous cell carcinoma relative to premalignant hyperkeratosis. Predicted targets of miR-186 are cell cycle regulators. Thus, we hypothesize that miR-186 overexpression drives malignant transformation of HaCaT cells by induction of CIN. Stable clones of HaCaT transfected with pEP-miR-186 expression vector or empty vector were maintained under puromycin selection were exposed to 0 or …

Exploring Service Provider Perspectives On Facilitators And Barriers To Needle Exchange Program Participation By Females Who Inject Drugs., Tammi Alvey Thomas

Electronic Theses and Dissertations

As the opioid epidemic lingers on across the country, many areas have set up harm reduction strategies such as needle exchange programs (NEPs) to combat the long-term consequences of injection drug use (IDU). Males and females face a plethora of health issues associated with injection drug use such as human immunodeficiency virus (HIV) and hepatitis C. While males comprise the largest portion of the injection drug use population, most research is gender neutral, which makes it difficult to discern issues specifically related to females inhibiting our ability to design interventions and procedures targeted to address their needs. Females require varying …

Towards Long Term Colloid Suspension In A Vertically Rotated System., Md Mahmudur Rahman

Electronic Theses and Dissertations

Within a colloidal suspension gravity may compromise the observation of governing physical interactions, especially those that are weak and/or take significant time to develop. Conducting the experiment in a long-term microgravity environment is a viable option to negate gravitational effects, though significant resources are required to do so. While it may not be possible to simulate long-term microgravity terrestrially, particles can resist quick sedimentation in a confined suspension system rotating vertically with appropriate rotation speed. The goal of the investigation is to demonstrate the existence of long-term particle suspension regime for a certain colloidal suspension while characterizing colloidal behavior due …

The Role Of Sphingolipids In Aki And The Progression To Ckd: Potential Therapuetic Targets., Nicholas A. Hoffman

Electronic Theses and Dissertations

Acute Kidney Injury (AKI) is most simply defined as a rapid decline in kidney function over a period of hours to days. There is currently a lack of effective treatment options for patients with AKI, highlighting the need to identify new therapeutic targets. Sphingolipids play a number of roles in different models of AKI, suggesting they could be promising future targets for treating kidney injury. Specifically, sphingosine-1-phosphate (S1P) and its receptors (S1PRs) have been implicated in numerous inflammatory disorders and models of AKI. The purpose of this review is to better characterize the role of S1P receptors in models of …

Characterizing The Role Of Macrophages In Cisplatin-Induced Kidney Injury And Progression To Chronic Kidney Disease., Sophia M. Sears

Electronic Theses and Dissertations

Cisplatin is a commonly used chemotherapeutic for treatment of many solid-organ cancers. Unfortunately, 30% of patients treated with cisplatin develop acute kidney injury (AKI), and even patients who do not develop AKI are at risk for long term declines in kidney function and development of chronic kidney disease (CKD). While traditional rodent toxicity studies have utilized a single, lethal dose of cisplatin, new models of cisplatin-induced kidney injury have revealed that repeated, low doses of cisplatin lead to development of kidney fibrosis. This model can be used to examine AKI-to-CKD transition processes. C57BL/6 mice are one of the most used …

Investigation Of Mitochondrial Inheritance In The Smut Fungus Sporisorium Reilianum., Hector Eduardo Mendoza

Electronic Theses and Dissertations

An important goal in evolutionary biology is to address the origin of Earth’s immense biodiversity through the evolution of complex sexual reproduction mechanisms in eukaryotes. Inheritance of mitochondria during sexual reproduction has received special attention in recent years, as these organelles cannot be synthesized de novo and must be transmitted from parent to offspring. The importance of these organelles far exceeds its common function as the energy-producing “powerhouse” of the cell, as it has been found to also be involved in fundamental processes like apoptosis, aging and metabolic homeostasis. Thus, appropriate inheritance of mitochondria is essential for growth and development …

"If Fear Wasn't Enough?!": African American Perceptions Of Policing After Breonna Taylor's Unprovoked Death., Moriah Antoinette Bellamy

Electronic Theses and Dissertations

This study investigates how African Americans perceive the racialization process in the criminal justice system following the death of Breonna Taylor. Focusing primarily on police-community relations in Louisville, KY, I find the Breonna Taylor case amplifies preconceived perceptions of race between civilian and non-civilian groups. To test the hypothesis that racialization in the criminal justice system has caused damaging effects on relations between African Americans and police, two virtual focus groups were designed to discuss participants’ experiences with law enforcement. My findings suggest that the racialization process in the criminal justice system negatively skewed African American civilians’ attitudes towards law …

Social Disorganization And Violent Crime Across Nonmetropolitan Areas Of Kentucky., Daniel Ray Jude

Electronic Theses and Dissertations

This macro-level study examines the effects of social disorganization predictors on violent crime registered in nonmetropolitan areas of Kentucky from 2012 to 2016. The study intends to expand the line of research interested in verifying the applicability of the social disorganization theory (Shaw & McKay, 1942), including its new theoretical developments, to non-urban settings and plans to contribute to the literature willing to provide a better understanding of violent crime in rural areas. In response to Narag et al.’s (2009) call for a theoretical integration of environmental contaminants among the ecological factors that influence variations in crime, the study also …

Collaborative Human-Machine Interfaces For Mobile Manipulators., Shamsudeen Olawale Abubakar

Electronic Theses and Dissertations

The use of mobile manipulators in service industries as both agents in physical Human Robot Interaction (pHRI) and for social interactions has been on the increase in recent times due to necessities like compensating for workforce shortages and enabling safer and more efficient operations amongst other reasons. Collaborative robots, or co-bots, are robots that are developed for use with human interaction through direct contact or close proximity in a shared space with the human users. The work presented in this dissertation focuses on the design, implementation and analysis of components for the next-generation collaborative human machine interfaces (CHMI) needed for …

Visualizing Anhydrobiosis: Liquid-Liquid Phase Separation, Membraneless Organelles, And Cellular Reorganization., Clinton J. Belott

Electronic Theses and Dissertations

Water is an integral and necessary component of life. It is then, exceedingly remarkable that some species are capable of surviving virtually complete water loss for extended periods of time. Several decades of intense research into anhydrobiosis, or life without water, have given significant insights into the molecular mechanisms governing this phenomenon. Anhydrobiosis-related intrinsically disordered (ARID) proteins have been demonstrated to be critically important for desiccation tolerance in many anhydrobiotic species and exhibit a considerably wide range of protective properties that include membrane stabilization, reinforcing bioglass formation, and protein stabilization. This dissertation begins with cellular dielectrophoresis suggesting that two ARID …