Digital Commons Network^™

Snfing Glucose To Pass Mitochondrial Dysfunction: The Role Of Two Sensory Protein Kinases In Metabolic Diseases, Kai Li Ong

Theses and Dissertations

Mitochondria is no longer viewed as merely a powerhouse of the cell. It is now apparentthat mitochondria play a central role in signaling, maintaining cellular homeostasis and cell fate.Mitochondrial dysfunction has been linked to many human diseases caused by cellular metabolicderegulation, such as obesity, diabetes, neurodegenerative disease, cardiovascular disease andcancer. Eukaryotic organisms have evolved an efficient way in sensing, communicating andresponding to cellular stress and regulating mitochondrial activity correspondingly through acomplex network of intercommunicating protein kinases and their downstream effectors. Thisdissertation focuses on the interplay of two of the master metabolic regulators in the cell: AMPKand PASK, and characterization of …

Application And Evaluation Of Full-Field Surrogate Models In Engineering Design Space Exploration, Christopher Murray Thelin

Theses and Dissertations

When designing an engineering part, better decisions are made by exploring the entire space of design variations. This design space exploration (DSE) may be accomplished manually or via optimization. In engineering, evaluating a design during DSE often consists of running expensive simulations, such as finite element analysis (FEA) in order to understand the structural response to design changes. The computational cost of these simulations can make thorough DSE infeasible, and only a relatively small subset of the designs are explored. Surrogate models have been used to make cheap predictions of certain simulation results. Commonly, these models only predict single values …

Visual Artifacts As A Mediating Factor In Collaborative Museum Design, Jacquelyn Claire Johnson

Theses and Dissertations

The process of museum exhibit design includes a variety of activities, including collaboration on teams, consulting learning theories, following process models, brainstorming, performing evaluations, and using visuals. Although some articles mention these topics, very few provide specific details about these practices. This dissertation, which includes three articles, explores how design and visual communication occur in exhibit design. The first article examines how exhibit design teams function. The second article describes how they use visual representations to engage team members in ideation and concept development as they planned for new exhibits. This is based on the assumption that designers need to …

Heterotrophic Protists As Useful Models For Studying Microbial Food Webs In A Model Soil Ecosystem And The Universality Of Complex Unicellular Life, Andrew Robert Thompson

Theses and Dissertations

Heterotrophic protists, consisting largely of the Cercozoa, Amoebozoa, Ciliophora, Discoba and some Stramenopiles, are a poorly characterized component of life on Earth. They play an important ecological role in soil communities and provide key insights into the nature of one of life’s most enigmatic evolutionary transitions: the development of the complex unicell. Soil ecosystems are crucial to the functioning of global biogeochemical cycles (e.g. carbon and nitrogen) but are at risk of drastic change from anthropogenic climate change. Heterotrophic protists are the primary regulators of bacterial diversity in soils and as such play integral roles in biogeochemical cycling, nutrient mobilization, …

Bottom-Up Controls (Micronutrients And N And P Species) Better Predict Cyanobacterial Abundances In Harmful Algal Blooms Than Top-Down Controls (Grazers), Scott Andrew Collins

Theses and Dissertations

The initiation, bloom, and bust of harmful Cyanobacteria and algae blooms (HAB) in lakes are controlled by top-down and bottom-up ecological controls. Excess phosphorous and nitrogen inputs from anthropogenic sources are primary to blame, but eukaryotic grazers may also promote or curb Cyanobacteria dominance. We tracked shifts in bacterial composition, lake chemistry, and eukaryotic grazing community weekly or bi-weekly through spring and summer and modeled the causes of specific Cyanobacterial species blooms and busts across three lakes in Utah, USA, with differing lake trophic states. Regardless of trophic status, all three lakes experienced blooms of varying composition and duration. Aphanizomenon …

Terrestrial Mollusks Of Great Basin National Park, The Snake Range, Nevada, Usa, Mark A. Ports

Western North American Naturalist

In this paper I report on the poorly known terrestrial mollusk fauna of Great Basin National Park (Snake Range) of the central Great Basin, USA. Mollusk species and numbers were recorded according to habitat affinities defined by a combination of rock type, geomorphology, plant communities, and water sources. A total of 6892 individuals representing 18 species of land snails and 1 species of slug were identified from 50 stations within GBNP during the period of spring 2014 through summer 2016. Mollusks were surveyed by 186 soil/litter samples and 1755 min of hand searching. Twelve habitat types included 2 xeric limestone/dolomite …

A Nonhuman Primate Model Of Anxiety-Induced Alcohol Abuse And Alcoholism, J. Dee Higley

Journal of Undergraduate Research

This is the final report for the MEG Grant titled: A nonhuman primate model of anxiety-induced alcohol abuse and alcoholism. The formal phase of the project ran from June 1 through August 23, 2016, with the students learning how to safely work with their research subjects, joining a research team, and collecting their data. Following the formal phase, the students returned to BYU where they used the data they and the other students collected to write scientific manuscripts and posters to present their data. Eight students took part: Elizabeth Wood, Alexander Baxter, Natalie Lange, Travis Norseth, Esther Page, Spencer …

Development Of Real-Time Polymerase Chain Reaction (Q-Pcr) Assays For The Detection And Identification Of Drug-Resistance Genes In Carbapenem-Resistant Enterobacteriaceae (Cre), Richard A. Robison, Ph.D.

Journal of Undergraduate Research

I. The Specific aims for the project were as follows:

1. Develop q-PCR assays for the various carbapenem-resistance genes, such as KPC, IMP, VIM, and NDM-1, and then multiplex them into single assays that can be used to quickly characterize an isolate.

A Race Against Time: Deciphering Evolution And Describing New Species Of Threatened Tropical Stick Insects (Phasmatodea), Michael F. Whiting

Journal of Undergraduate Research

Funding was received in 2016 to support mentored research into the phylogeny and evolution of stick insects. Specific goals include providing students with scientific design experience, field-based research experience, collections-based experience, molecular lab experience, bioinformatics experience, and experience in presentation at national meetings and publication in peer reviewed journals. One particular focus was to describe new stick insect species, but it became clear very quickly that the phylogeny portion of this work was essential before any new species could be described, so we concentrated our efforts on stick insect phylogeny. The following is a brief summary of accomplishments.

Byu Undergraduates Solving The Genetic Causes Of Alzheimer’S Disease, John Kauwe

Journal of Undergraduate Research

Successful enrollment in and completion of graduate programs requires a constellation of skills. Students must be prepared to plan and execute experiments, present their findings both verbally and in manuscript form and interact effectively with senior scientists in the field of their choice. In this MEG I will mentor three undergraduate students (Sheradyn Hamilton, Kristen Cockriel, and Moroni Chalita) as they develop skills in study design, data analysis, manuscript preparation, presentation and networking while identifying genetic factors that protect individuals from Alzheimer’s disease.

T Cell Immunotherapy Of Infection Disease And Cancer, Scott Weber

Journal of Undergraduate Research

This project was focused on improving the immune response to infectious disease and cancer. We have engineered T cell receptors with 1000-fold increase in affinity and will characterize their value as diagnostics and therapeutics. In addition, we examined changes in T cell function due to the co-receptor CD5. We also examined how T cell responses to infection are dependent upon metabolic and epigenetic regulation.

Rage And Sage: Therapeutic Modalities For Copd, Paul Reynolds

Journal of Undergraduate Research

Funding available through this MEG award has provided an opportunity for me to meet many academic objectives I’ve determined to be important at BYU. We have been successful in conducting pilot studies that reveal possible roles for SAGEs in ameliorating mechanisms of lung inflammation induced by and cigarette smoke (CS). Despite improvement in personal air quality during the past few decades, the rationale for studying mechanisms leading to adverse health effects remains important. This MEG award specifically provided opportunities for students to conduct meaningful research that led to the observation that alveolar epithelial cells and bronchiolar epithelial cells experience elevated …

Muscle Activation Via Mri: Comparison Of Techniques, Logan Thorneloe, Neal Bangerter

Journal of Undergraduate Research

Muscle functional magnetic resonance imaging (mfMRI) is a proven concept to non-invasively identify muscle activation1. Noninvasively identifying muscle activation can be used to diagnose metabolic muscle disease, identify and pinpoint muscular dysfunction, observe muscle deterioration in aging individuals, and help researchers better understand the biological foundation of musclechemistry2. Current proven methods of mfMRI include analyzing pre- and post-exercise T2-weighted images, T2 maps, and sodium images of muscle; however, there is considerable debate around the best of these techniques1-4. We tested these three imaging techniques to determine which has the greatest post-exercise shift in signal intensity.

Pollination Of Scutellaria Mexicana (Lamiaceae) In Southern Nevada By Anthophora Bees, William D. Wiesenborn

Western North American Naturalist

Scutellaria mexicana (Lamiaceae) is a common shrub in the Mojave and northern Sonoran Deserts in North America. The plant produces small tubular and bilabiate flowers that are nototribic by enclosing 2 pairs of stamens and a style within a hooded upper corolla lip. I investigated the pollination of the species in southern Nevada during April 2018 by aspirating insects from flowers. I estimated amounts of S. mexicana pollen on the front of the head and dorsum of the thorax, determined proportions of conspecific pollen on the head, thorax, and middle and hind legs, and examined correspondence between measurements of insect …

Increasing The Accuracy Of Molecular Biomarkers Via Evidence-Based Algorithm Selection, Stephen R. Piccolo

Journal of Undergraduate Research

In making medical decisions, physicians need observable criteria that they can use to make accurate diagnoses, determine optimal treatments, and estimate a patient’s prognosis. The promise of precision medicine is that molecular-level observations can more accurately predict such information than traditional observations. I worked with undergraduate students at Brigham Young University to develop ways to improve the accuracy of such predictions by optimizing computer algorithms to handle the complexity of large, molecular data sets.

A Combined Computational/Experimental Approach To Stabilize Proteins With Unnatural Amino Acid Modifications, Joshua Wilkerson, Dr. Thomas Knotts

Journal of Undergraduate Research

Proteins are versatile biological molecules that catalyze chemical reactions, provide cellular structure, and transport materials throughout the body. Proteins have been adapted for use in a wide variety of industries including food processing, medical diagnostics, and therapeutics. However, proteins must often be modified to enhance their utility in these operations. One method that can be used as an initial step in protein modification strategies is replacement of a naturally occurring amino acid with an unnatural amino acid (uAA). Previous research has suggested that it is very difficult to predict the stability of a uAA-modified protein based on any individual factor. …

Parent Entrance And Adolescent Outcomes Using Longitudinal Family Structure Data, Matthew Usevitch, Mikaela Dufur

Journal of Undergraduate Research

The effects that a parent entrance, such as the marriage of a single parent, has on child outcomes are currently not well documented. Since literature suggests that children living in single-parent families tend to have worse educational outcomes on average than children living in married-parent families, a logical hypothesis would be that a parent entrance would benefit children. Data from previous studies do not provide solid support for this hypothesis. Part of the reason for the variety of findings may be that there are opposing variables affecting children who experience this transition. An additional parent typically brings more economic resources …

Guided Evolution To Expand The Host Range In Phages, Jamison Walker, Sandra Hope

Journal of Undergraduate Research

My project proposal included the use of Darwin’s theory of evolution by natural selection to determine if genetic mutations will arise in Bacteriophages that would allow them to infect related strains in a species of bacteria. Bacteriophages naturally have a target host range that they can infect. Within species of bacteria, the phage has tail receptors that allow it to infect specific strains. The other strains of the bacteria will be unaffected by the phage. In phage therapy, multiple phages with varied host ranges are chosen to combat this problem. Some phages are more effective than others in killing a …

Determining The Role Of Cd5 In Regulatory T Cell Function, Charles Teames, Scott Weber

Journal of Undergraduate Research

Regulatory T cells (Tregs) inhibit the immune response and play a key role in preventing autoimmunity. Unfortunately, Tregs also often prevent an effective immunological response against cancer. CD5 is a T cell surface protein known to regulate the threshold for T cell activation. CD5 is known to influence Treg development, but it is unclear exactly how CD5 impacts the function of Tregs.

Past studies have indicated that mice lacking CD5, known as CD5 knockouts, produce more Tregs than wild type mice (1). It is thought that Tregs from these CD5 knockouts may be more effective in preventing T cells from …

Chemokine Receptor Ccbp2-V41a And Its Role In Inflammation And Alzheimer’S Disease, Allen Weinert, Scott Weber

Journal of Undergraduate Research

The leading cause of dementia in elderly patients is Alzheimer’s disease (AD), a degenerating and fatal neurodegenerative condition. AD is a proteopathic disease caused by extensive accumulation of amyloid beta plaques and neurofibrillary tangles. A recent genomewide association study analyzing 59 AD-associated cerebrospinal fluid (CSF) samples statistically associated chemokine receptor mutant CCBP2-V41A with increased CSF protein levels of the proinflammatory chemokine CCL2. CCBP2 is a known binding partner of CCL2. We hypothesized that CCBP2-V41A receptor alters CSF levels of CCL2 and that raised CCL2 levels alters immune cell function, resulting in amyloid beta deposition in the brain (Figure 1).

Combating Obesity Through Gut Microbiome Targeted Bacteriophage Therapy, Gongze Zhao, Dr. Laura Bridgewater

Journal of Undergraduate Research

The human gut consists of approximately 1.5 kg of bacteria, and 50% of the biomass in our fecal matter is bacterial cells (Nicholson, 2005). Diet is a major factor in shaping the composition of the gut microbiota, (Zhang, 2010) which in turn influences the body by producing metabolites that enter the circulation through different pathways. In 2013, by using Koch’s postulates, scientists were able to demonstrate that the gram-negative opportunistic pathogen E. cloacae B29 can cause obesity and chronic inflammation in its host (Fei & Zhao, 2013). Bacteriophage (phage) are viruses that infect bacteria. Phages bind to their bacterial host …

The Role Of Nrf2 In Prevention Of Oxidative Stress Caused By Valproic Acid, Madison Wilson, Jason M. Hansen

Journal of Undergraduate Research

Valproic acid (VPA) is a common drug used to treat epileptic seizures as well as bipolar disease. Over the past decade, the use of these drugs has increased dramatically as they are now being prescribed as antipsychotics, mood stabilizers, and are currently being tested as chemotherapeutics and for managing human immunodeficiency virus infection. VPA also leads to birth defects when pregnant mothers take this drug. The most prevalent of these birth defects is spina bifida, a defect resulting from improper neuronal development, leading to deformation of the spinal cord. However, because of the effectiveness of the drug for some expecting …

Fmri And Qeeg Imaging Of Auditory Function And Source Localization, David L. Mcpherson

Journal of Undergraduate Research

The purpose of the MEG was to mentor students into an active research environment where new neuroimaging techniques were being developed and utilized to describe the auditory system. Approximately 18 undergraduate and graduate students participated in the project. In addition, approximately an additional 38 students were trained, by students from this MEG proposal, in this technique from Physiology and Developmental Biology and Psychology. Results helped define the role of the right hemisphere in language plasticity. Likewise, further protocol development and adjustments to the current protocol have been implemented.

Evidence For Differential Diel Activity Patterns In Two Co-Occurring Species Of Burying Beetles (Coleoptera: Silphidae: Nicrophorinae), Lindsey M. Cook, Ashlee N. Smith, Peter J. Meyers, J. Curtis Creighton, Mark C. Belk

Western North American Naturalist

Multiple mechanisms have been suggested to facilitate coexistence among species of burying beetles, including differential use of habitat and food resources. Nicrophorus marginatus and Nicrophorus guttula are similarly sized burying beetles that co-occur in many parts of their range. We used observations to quantify and compare their diel activity patterns and tested for possible niche partitioning between the species. We monitored activity of individuals of each species over four 24-h periods. Both species exhibit bimodal activity patterns with peaks of activity in the morning and evening. Nicrophorus guttula is active earlier in the morning and later in the evening …

Tk1 As A Biomarker Of Chemosensitivity And Metastatic Potential In Breast Tumors, Eric Olsen, Kim O'Neill

Journal of Undergraduate Research

Breast cancer is the most common form of cancer in women, accounting for 23% of total cancer cases and 14% of cancer deaths. Breast carcinoma is not a simple disease. It is comprised of many different biological forms with distinct phenotypes and prognoses. Hormone receptor expression, such as ER, PR, and HER2, along with more universal clinical manifestations like pathological stage, grade, and lymph node invasion are often used for patient prognosis. The heterogeneous nature of breast tumors makes prognosis and response to therapies difficult to determine, and further research is needed to classify breast tumors and their response to …

Why Does Handedness Exist In Bilaterally Symmetrical Organisms?, Erik S. Johnson, Jerald Johnson

Journal of Undergraduate Research

I address this question in a tropical livebearing fish species that shows a unique form of morphological asymmetry and an unusual form of behavioral laterality. The livebearing fish Xenophallus umbratilis exhibits a mating morphology where the male gonopodium—a structure used to inseminate females—terminates with either a dextral of sinistral corkscrew. That is, males are either ‘left handed’ or ‘right handed’ with respect to their gonopodium. We think that this might be related to a phenomenon in which individuals show a lateral bias in eye use to approach different stimuli, a form of behavioral laterality, that in other vertebrates is linked …

Revision Of The Genus Gilia Of Utah, Zachariah Jaramillo, Dr. Leigh Johnson

Journal of Undergraduate Research

The genus Gilia has historically been difficult to work with because identification of the genus via a dichotomous key relies heavily on the absence of characteristics instead of the presence of unique characteristics (Johnson et al., 2004). This has caused Gilia to become a polyphyletic group that serves as a “dumping ground” for odd species that do not easily fit in any other genus within the family. Studies using morphological and molecular data have identified species traditionally placed in Gilia that are really more closely related to other genera. For example, Gilia gilioides belongs in Allophyllum, Gilia capillaris belongs in …

Perception Of Speech And Song In Religious Music: A Neurological Approach, Dagan Pielstick, Francesca Lawson

Journal of Undergraduate Research

The relationship between speech and song has been an area of interest in evolutionary biology and neuroscience over the past two decades. Some evolutionary biologists have hypothesized that music and language descended from a protolanguage in early human communication (Brown 2000). At the same time, developments in technology have made it possible to analyze the activation of different parts of the brain, allowing us to see traces of this evolutionary history in the neural pathways of the brain (Patel 2008). Recent studies on language-music relationships both support and contradict the theory of a common protolanguage base for music and language …

Damselfies Of Vanuatu, Madison Lallatin, Seth Bybee

Journal of Undergraduate Research

Vanuatu is a string of active volcanic islands in Micronesia near Fiji and Australia. The islands undergo regular submersion and emersion from the ocean, and the most recent emergence was 2 million years ago (Hamilton et al. 2010). As a result, all organisms on the islands of Vanuatu have migrated there, likely from other islands, within the past 2 million years. Fiji is one likely candidate for contributing species, being geographically close to Vanuatu and exhibiting similar species. Fourteen of us went to Vanuatu for 6 weeks on a study abroad led by Dr. Seth Bybee to collect and observe …

Quantifying Predictive Value Of Biological Data Types In Machine Learning Models Of Cancer Outcome, Samantha Jensen, Stephen Piccolo

Journal of Undergraduate Research

Precision medicine is a growing movement toward utilizing molecular diagnostics to guide medical decisions. It is particularly useful when applied to cancer treatment, as knowing details about cancer stage, genetic pathology, and tumor type can inform life-saving decisions. Increasingly, physicians may use genetic, proteomic, epigenetic, and expression data to determine treatment strategy and even choose specific chemotherapy drugs1.