Physical Sciences and Mathematics Commons^™

Synthesis And Biological Activity Of Aminoglycosides And 1,4-Naphthoquinone Derivatives, Marina Fosso Yatchang

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

The research described in this dissertation is at the interface of organic chemistry and biology, and it aimed at designing and synthesizing biologically active molecules for the possible development of therapeutic agents.

Spinal muscular atrophy is an incurable disease that affects 1 in every 6000 babies, making it the leading genetic cause of infant mortality. While no treatment is available, efforts are being taken to solve this issue. Part of the work outlined in this dissertation was carried out in collaboration with researchers from the University of Missouri to investigate a potential therapeutic for this disease.

In addition, the continuous …

Modeling Lithospheric Rheology From Modern Measurements Of Bonneville Shoreline Deformation, Eric P. Beard

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Here I develop a new method for estimating differences in elevation between pairs of paleo-lake shoreline features. This method is applied to Lake Bonneville, a large lake that inundated nearly 1/3 of the state of Utah as well as parts of Nevada and Idaho from 34 to 11.5 thousand years ago. Under the weight of the lake water load, the surface of the Earth was depressed by up to 75 m. This occurred as Earth mantle rock at depth flowed outward in response to the weight of the lake. I use this new methodology to compile here a denser sample …

The Application Of Tomographic Reconstruction Techniques To Ill-Conditioned Inverse Problems In Atmospheric Science And Biomedical Imaging, Vern Philip Hart Ii

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Tomography is an imaging technique in which 3D models of objects are created from several 2D projections viewed at different angles. When the number of available projections is limited, the resulting data are said to be sparse. This restriction is often a direct result of the imaging geometry used to acquire the data. One-sided views and a small number of receivers can reduce the range of available projections, which makes the object more difficult to reconstruct. Approximate solutions to difficult imaging problems can be obtained using a class of iterative algorithms known as the algebraic reconstruction techniques (ARTs). The presented …

The Effects Of Bison On Cattle Winter Range In The Henry Mountains Of South Central Utah: Resolving A Conflict, Ian M. Ware

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

The American Bison in the Henry Mountains are one of the last free-roaming, genetically pure herds of bison remaining in North America. Over the last decade, the herd has used a cattle winter range during the summer and early fall, creating a conflict between the wildlife officials who manage the bison population, and Bureau of Land Management officials and local ranchers who manage the rangeland. At the heart of this conflict is the question of whether bison are negatively impacting the rangeland resource, potentially reducing the abundance of preferable plant species. Negative impacts could include reduced forage availability in the …

In Situ Measurements Of Electron-Beam-Induced Surface Voltage Of Highly Resistive Materials, Joshua Hodges

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Surface charging and subsequent electrostatic discharge due to interactions with the space environment is one of the primary concerns of spacecraft charging studies. Laboratory measurements of the evolution of surface voltages and dissipation currents under simulated space conditions are the primary method used to determine the response of key spacecraft materials to diverse incident fluxes. Increasing the database of information for the electronic properties of insulating materials can assist spacecraft designers in mitigating the harsh effects of the space environment.

The Utah State Materials Physics Group, with the funding of the NASA James Webb Space Telescope project and personnel support …

Space Plug-And-Play Architecture Networking: A Self-Configuring Heterogeneous Network Architecture, Jacob Holt Christensen

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

In spacecraft engineering, the time and money involved in satellite construction is largely spent on design and integration of custom hardware and software. These efforts are duplicated for nearly every satellite with little to no reuse between spacecraft. There is a huge potential for cost savings in removing the duplication of work. However, there is a lack of standardization in the spaceflight community, causing soaring costs and delayed schedules as each component of a spacecraft is individually designed and custom built.

The Air Force Research Laboratory (AFRL) has developed the Space Plug-and-Play Architecture (SPA) to address this problem. SPA provides …

Visual Data Mining Techniques For Functional Actigraphy Data: An Object-Oriented Approach In R, Abbass Sharif

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Actigraphy, a technology for measuring a subject's overall activity level almost continuously over time, has gained a lot of momentum over the last few years. An actigraph, a watch-like device that can be attached to the wrist or ankle of a subject, uses an accelerometer to measure human movement every minute or even every 15 seconds. Actigraphy data is often treated as functional data. In this dissertation, we discuss what has been done regarding the visualization of actigraphy data, and then we will explain the three main goals we achieved: (i) develop new multivariate visualization techniques for actigraphy data; (ii) …

The Effect Of Growth Parameters On The Height And Density Of Carbon Nanotube Forests, Robert Welch Call

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Rolled-up graphene sheets, known as carbon nanotubes, are grown in vertically aligned arrays called carbon nanotube forests (CNTFs). CNTFs make extremely dark surfaces. They are being investigated for use on space crafts as calibration surfaces and to protect optical sensors from unwanted signals. These CNTFs are grown by injecting a precursor consisting of a metal catalyst particle and a hydrocarbon component into a furnace at high temperature (~700°C). This study investigates the influence of several different growth parameters on the final height and density of the CNTF. Height and density influence the absorbance of the surface at different wavelengths.

Sigtree: An Automated Meta-Analytic Approach To Find Significant Branches In A Phylogenetic Tree, Todd R. Jones

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

An experiment was performed on two groups of mice, the first group receiving a refined wheat diet, and the second group receiving a whole wheat diet. The levels of abundance of hundreds of bacteria in the guts of the mice were measured. Of interest was whether the levels of these bacteria were different depending on type of diet. In addition, it was desired to examine differences by diet in all of the families of bacteria. These family relationships are represented in a tree, and it was determined helpful to color the branches of this tree based on the differences of …

A Mechanistic Study Of Catalytic Promiscuity In Protein Phosphatase 1, Yuan Chu

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

"Catalytic promiscuous" enzymes, which possess additional activities besides their "native" activity, albeit with a lower efficiency than the main reaction, have become a new frontier for biochemistry and have received considerable attention. Catalytic promiscuity has been suggested to contribute to enzyme evolution through the mechanism of gene duplication followed by specialization of one of the two copies for the new function. Mimicking this evolutionary shortcut could also provide a more efficient route to changing the function of proteins by directed evolution.

The promiscuous phosphatase PP1 is a member of the phosphoprotein phosphatase (PPP) gene family, which is critical for the …

The Chemical Evolution Of Oceanic And Continental Lithosphere: Case Studies In The Us Cordillera, Marlon Mauricio Jean

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Among the terrestrial planets, only Earth has volcanism and plutonism that is related to plate tectonics. At the bottom of the oceans, mid-ocean ridges form where tectonic plates drift apart. More visible, and explosively dangerous, is volcanism related to the subduction of oceanic plates back into the Earth’s mantle. Less clear is the origin of the third major type of volcanism, the so-called intra-plate volcanism, which is thought to represent thermally driven upwellings from the lower mantle. This dissertation investigates two of these unique volcano-tectonic settings which occur in the western United States.

Subduction zones are regions of intense earthquake …

The Mechanisms Of Hydride Exchange, Organic Combination And Displacement Reactions, Weifang Hao

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

The primary aim of this dissertation was to seek the answer to the question: “Is the single transition-state model appropriate for the fundamental reactions in organic chemistry?” The goal was accomplished by performing enormous kinetic data collection and detailed mechanistic analysis on several typical fundamental organic chemical reactions. Three new methodologies for differentiating between a simple one-step and complex multi-step mechanism were developed and extensively confirmed during the application in the kinetic studies of all of the reaction discussed in this dissertation. The three methods consist of (1) half-life dependence of kapp, (2) sequential linear pseudo-first-order correlation, and (3) revised …

Integrating Remote Sensing And Ecosystem Models For Terrestrial Vegetation Analysis: Phenology, Biomass, And Stand Age, Gong Zhang

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Terrestrial vegetation plays an important role in global carbon cycling and climate change by assimilating carbon into biomass during the growing season and releasing it due to natural or anthropogenic disturbances. Remote sensing and ecosystem models can help us extend our studies of vegetation phenology, aboveground biomass, and disturbances from field sites to regional or global scales. Nonetheless, remote sensing-derived variables may differ in fundamental and important ways from ground measurements. With the growth of remote sensing as a key tool in geoscience research, comparisons to ground data and intercomparisons among satellite products are needed. Here I conduct three separate …

Water Infrastructure Challenges In Urbanizing Environments: A Case Study Of The 2009 Logan Canal Landslide, Kathryn Davis Henderson

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

In July, 2009 in Logan, Utah, a wet, steep hillside failed, leveling a home below and destroying an irrigation canal that ran along the hill. Three people were killed. The event and the resulting policy changes present an opportunity to uncover how frames, or social constructions, play into the policy development cycle. This case also uncovers the nuances involved when old infrastructure takes on new social meanings. Planners and policymakers that pay attention to frames and social dimensions may be able to minimize conflict.

The landslide received immediate media attention and spurred state legislation on canal safety. The event had …

A Novel And Effective Short Track Speed Skating Tracking System, Yuxuan Wang

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Short track speed skating lends itself to intense competitions with a strong visual impact. Thus, the sport has become increasingly popular. In fact, in 1992, short track speed skating became an official Winter Olympic sport with four events, and four more events were added in 2002. Because of the sport’s growing popularity, there is a high demand from both coaches and TV broadcasters for a means of automatically gathering competition data such as trajectories, velocities, and 2D reconstruction animation. We call this vision-based sports video analysis.

In competitive short track speed skating, multiple skaters skate together on an ice track …

Rationalizing Structure, Stability, And Chemical Bonding Of Pure And Doped Clusters Isolated And Solvated Multiply Charged Anions, And Solid State Materials, Alina P. Sergeeva

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Chemistry is the study of materials and the changes that materials undergo. One can tune the properties of the known materials and design the novel materials with desired properties knowing what is responsible for the chemical reactivity, structure, and stability of those materials. The unified chemical bonding theory could address all these questions, but we do not have one available yet. The most accepted general theory of chemical bonding was proposed by Lewis in 1916, though Lewis’s theory fails to explain the bonding in materials with delocalized electron density such as sub-nano and nanoclusters, as well as aromatic organic and …

Homogenization Of Large-Scale Movement Models In Ecology With Application To The Spread Of Chronic Wasting Disease In Mule Deer, Martha J. Garlick

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Chronic wasting disease (CWD) is a transmissible spongiform encephalopathy (TSE) that affects deer, elk, and moose. TSEs are prion diseases which include mad cow disease and scrapie in sheep and goats. The disease agent is a misshapen protein called a prion, which causes lesions in the brain, and to date, there is no cure. CWD is a slow-developing, fatal disease, which is rare in the free-ranging mule deer population of Utah. Infected deer shed prions into the environment through saliva, feces, and decaying carcasses. These prions remain infective in soils for many years and healthy deer may contract CWD by …

The Influence Of Geology And Other Environmental Factors On Stream Water Chemistry And Benthic Invertebrate Assemblages, John R. Olson

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Determining if a stream has been degraded by human activities requires knowing what that stream’s natural water quality and freshwater species composition would likely be without any alteration. However stream natural conditions vary greatly from stream to stream, making predicting natural conditions difficult. To determine natural stream conditions, I developed models to predict natural stream water chemistry at individual streams across the western USA. Specifically, the models predict a stream’s electrical conductivity (a measure of the amount of solids dissolved in water), acid neutralization capacity, and concentrations of calcium, magnesium, sulfate, total phosphorus, and total nitrogen. These models predict chemistry …

The Survival And Growth Of Adult Bonneville Cutthroat Trout (Oncorhynchus Clarkii Utah) In Response To Different Movement Patterns In A Tributary Of The Logan River, Utah, Jared W. Randall

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

In the past many inland trout species were believed to be sedentary, only occupying small stream segments (20 meters) during their life span. Recently it has been found that cutthroat trout do move and many populations do contain both mobile and non-mobile strategies. Most organisms move to attain greater growth rates, but movement also leads to higher detection by predators. Both mobile and non-mobile strategies have been observed in Spawn creek, a tributary of the Logan River in Northern Utah. My research evaluated the movement patterns, survival, and growth of adult Bonneville cutthroat trout Oncorhynchus clarkii Utah. My objectives …

Rock Properties And Structure Within The San Andreas Fault Observatory At Depth (Safod) Borehold, Northwest Of Parkfield, California: In Situ Observations Of Rock Deformation Processes And Fluid-Rock Interactions Of The San Andreas Fault Zone At ~ 3 Km Depth, Kelly Keighley Bradbury

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

The San Andreas Fault Observatory at Depth (SAFOD) is a scientific drilling experiment situated along the central creeping segment of the San Andreas Fault, near Parkfield, California, and north of a segment of the fault that has experienced large historical earthquakes. Drilling into active fault zones allows scientist’s to examine in situ rock samples and to record real-time data.

The main goal of this study is to characterize the geologic setting and rock properties of the San Andreas fault at ~ 3 km depth in the SAFOD borehole. In this region, the fault deforms nearly continuously through aseismic creep and …

Structural And Functional Characterization Of The Essential Rna Helicase Mtr4, Ryan N. Jackson

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

To insure the integrity of nuclear RNA, the eukaryotic cell employs surveillance systems that identify and degrade RNAs that are detrimental or unneeded. The failure of RNA surveillance systems can lead to neurodegenerative disease states and cancer. The essential RNA helicase Mtr4 is required for the degradation and processing of several nuclear RNAs. To further the understanding of RNA surveillance and processing in eukaryotes, Ryan Jackson of the Department of Chemistry and Biochemistry at Utah State University has determined the molecular structure of Mtr4 and has used this structure to interrogate Mtr4 function biochemically. The structure revealed that Mtr4 contains …

Carbon Sequestration On Utah Rangelands: A Landowner Perspective, Seth Cook

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Carbon sequestration is the removal of carbon dioxide from the air and storing it in plants and soil through natural processes. Rangelands can be managed to sequester carbon and mitigate climate change. Supported by the Utah Agricultural Experiment Station, this study assessed Utah rangeland owners’ perceptions of carbon sequestration and explored factors influencing their likelihood of participation in relevant programs. Data were collected through interviews and a statewide survey of Utah rangeland owners. Over two-thirds of respondents were aware of carbon sequestration and viewed it positively. Those who thought the climate had been changing over the past 30 years tended …

Robust Computational Tools For Multiple Testing With Genetic Association Studies, William L. Welbourn Jr.

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

The mapping of the human genome and the completion of the Human HapMap project over the past decade have significantly altered how research is conducted with respect to the genetic epidemiology of human disease. Study designs and analytic approaches have evolved rapidly from investigations involving relatively few targeted candidate genes to hypothesis-free genome-wide association studies, where thousands – and now even millions – of single molecular mutations are simultaneously analyzed to identify regions of the genome that may influence disease. As laboratory techniques continue to improve and costs decrease, the volume of genetic data will inexorably rise, and robust tools …

A 2d Finite Element/1d Fourier Solution To The Fokker-Planck Equation, Joseph Andrew Spencer

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Plasma, the fourth state of matter, is a gas in which a significant portion of the atoms are ionized. It is estimated that more than 99% of the material in the visible universe is in the plasma state. The process that stars, including our sun, combine atomic nuclei and produce large amounts of energy is called thermonuclear fusion. It is anticipated future energy demands will be met by large terrestrial devices harnessing the energy of nuclear fusion. A gas hot enough to produce the number of atomic collisions needed for fusion is necessarily in the plasma state. Therefore, plasmas are …

Production Of Biodiesel From Oleaginous Organisms Using Underutilized Wastewaters, Valerie Godfrey

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

As part of the BioEnergy Team at Utah State Univeristy, my research objectives have been centered around the common theme of innovating new methods and
technology for producing biological compounds and, by means of chemical conversion and/or extraction, isolating new forms of biodiesel available for transportation fuel.
Within the broad scope of this project, I focused on the replacement of freshwater in cultivating such biological systems with wastewaters. If accomplished and correctly
applied, such research would reduce the environmental impact of biodiesel production by reducing the demand for freshwater. It also would reduce production costs by reducing the amount of …

Test Case Generation Using Combinatorial Based Coverage For Rich Web Applications, Chad Maughan

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Web applications are increasingly moving business and processing logic from the server to the browser. Traditional, multiple-page request/response applications are quickly being replaced by single-page applications where complex application logic is downloaded on the initial page load and data is then subsequently fetched asynchronously via the browser's native XMLHttpRequest (XHR) object.

These new generation web applications are called Rich Web Applications (RWA). Frameworks such as the Google Web Toolkit (GWT), and JavaScript model-view-controller (MVC) frameworks such as Backbone.js are facilitating this move. With this migration, testing frameworks need to follow the logic by moving analysis and test generation from the …

Instances Of Conflict And Cooperation: An Exploration Into The Role Of Competition Between Usda-Wildlife Services And Wildlife Control Operators, Gary J. Bezzant Jr.

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

In early 1994 the United States Department of Agriculture’s Animal Damage Control agency implemented a directive providing guidance to help avoid competition between themselves and private businesses, known as Wildlife Control Operators (WCOs) engaging in similar work. Nearly two decades later some WCOs still complain about having to compete with the Animal Damage Control agency, now named Wildlife Services. Other businesses report enjoying a cooperative relationship with the agency.

I analyzed four policies that regulate competition between Wildlife Services and WCOs and found that there is a good amount of guidance given to Wildlife Services in regards to their competitive …

Combinatorial-Based Prioritization For User-Session-Based Test Suites, Schuyler Manchester

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Software defects caused by inadequate software testing can cost billions of dollars. Further, web application defects can be costly due to the fact that most web applications handle constant user interaction. However, software testing is often under time and budget constraints. By improving the time efficiency of software testing, many of the costs associated with defects can be saved.

Current methods for web application testing can take too long to generate test suites. In addition, studies have shown that user-session-based test suites often find faults missed by other testing techniques. This project addresses this problem by utilizing existing user sessions …

A Localized Geometric-Distortion Resilient Digital Watermarking Scheme Using Two Kinds Of Complementary Feature Points, Jiyuan Wang

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

More and more digital images are being distributed over the Internet to an evergrowing number of people for sharing, studying, or other purposes. However, most of those digital products are exposed without any protection, and such information can be easily transferred, copied, and tampered without authorization simply by using readily available digital multimedia editing software. Digital watermarking techniques have been developed as a tool to discriminate whether the original content of digital media is tampered or not. A digital watermark is embedded on digital images as an invisible message and is used to demonstrate the proof by the owner.

In …

Environmental Assessment Of Streams: Linking Land Use, Instream Stressors, And Biological Indices To Infer Likely Causes Of Ecological Impairment, Jacob J. Vander Laan

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

To protect and restore stream biota, managers need to be able to both detect biological degradation and infer likely causes of impairment. Managers commonly develop indices based on stream biota to assess the biological condition of streams. However, the performance of these indices dictates the ability to detect degradation, and although index performance varies widely, the sources of this variation are often unclear. In addition, bioassessments do not identify causes of impairment. My thesis research had two general goals: 1) develop indices to measure biological condition in Nevada streams and 2) quantify relationships between land uses, stressors, and biological condition …