Life Sciences Commons^™

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.

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 …

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.

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.

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.

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 …

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).

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 …

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 …

The Role Of Nr4a1 In Β-Cell Growth And Onset Of Type 2 Diabetes, Adam Wynn, Jeffery Tessem, Ph.D.

Journal of Undergraduate Research

Progression to type 2 diabetes (T2D) includes a loss of functional pancreatic beta cells (β-cells), which are responsible for secreting insulin and maintaining healthy blood sugar levels. Nr4a1 is a gene that has been shown to be involved in fuel utilization in the liver, muscles, and adipose tissues,1, 2, 3, 4 but not much is known about its role in the β-cell and T2D progression. We therefore set out to further define Nr4a1’s role in the β- cell during T2D progression. We hypothesized that the loss of Nr4a1 in the pancreata of mice would result in decreased β-cell maintenance and …

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 …

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 …

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 …

Could Tk1 Suppress The Immune System And Promote Tumor Development?, Joshua Keller, Roman Kovtun, Kim O'Neill

Journal of Undergraduate Research

Cancer is a widespread disease that affects millions of people worldwide and in many cases is difficult to treat. In order to find new and better treatment, it is important to understand how this disease progresses. Thymidine Kinase 1 (TK1) is a recognized biomarker that is upregulated in cancer cells compared to healthy tissue. Although this protein is normally found inside the cells (cytosol), it becomes upregulated on the surface of malignant cells. Moreover, recent research shows that TK1 expression is further upregulated in breast cancer tissues that undergo a transition from stationary (epithelial) cells to more mobile (mesenchymal) cells. …

Nf Κb As A Mediator In Iron Regulation, Erik D. Marchant, Chad Hancock

Journal of Undergraduate Research

Doxorubicin (DOX) is a commonly used chemotherapy drug. Although it is very effective in treating many different types of cancer, it has also been shown to induce oxidative stress in multiple tissues, partially due to severe iron-dysregulation. The effects of DOX have mostly been studied in heart tissue, because DOX has been shown to increase the risk of cardiomyopathy and other heart diseases. Besides causing damage to the heart, DOX has also been shown to contribute to muscle wasting. For this purpose, we decided to investigate how DOX causes iron-dysregulation in C2C12 myotubes, which are immortalized cells from mouse skeletal …

The Effects Of Hyperlipidemia On Β-Cells, Andrew Barlow, Trevor Lloyd, Mason Poffenbarger, Austin Ricks, Dr. Jeffery Tessem

Journal of Undergraduate Research

Diabetes’ prevalence is increasing at an alarming rate. Normally, insulin-secreting β-cells in the pancreas regulate proper glucose absorption and storage. Type 1 and Type 2 diabetes are characterized by decreased functional β-cell mass and insulin production (1). Diabetes also results in increased circulating glucose and fatty acid levels, which damage and destroy β-cells over time (2). Our study sheds further light on the palmitate and oleate-induced effects of gradually worsening hyperlipidemia and the mechanisms behind those effects; ultimately, promoting investigation into methods by which existing β-cells could be protected from harmful hyperlipidemia.

Nrf2 In Protecting Against Valproic Acid-¬‐Induced Oxidative Injury During Cellular Differentiation, Alyssa Palmer, Jason Hansen

Journal of Undergraduate Research

The causes of the majority of birth defects remain largely unknown today. However, many chemicals known to cause defects are also known inducers of oxidative stress, resulting in faulty cellular function. This suggests an important link between oxidative stress and normal and abnormal embryonic development [1]. Oxidative stress is a phenomenon caused by an imbalance in the production of reactive molecules derived from oxygen called reactive oxygen species (ROS). Although basal levels of ROS are necessary in order for normal cell function to occur, an overabundance of ROS interact with molecules that they shouldn’t, disrupting vital cellular pathways. This is …

The Effect Of Chenopodium Quinoa On Salinization Levels In Soil, Angel Mirae Morris, P. Jeff Maughan, Bryan G. Hopkins, Neil Hansen

Journal of Undergraduate Research

Chenopodium quinoa is native to the Peruvian Andes and has been an important food crop for more than 5,000 years. C. quinoa can adapt to a wide variety of climates and altitudes, making it a viable food source for areas of the world that have little rainfall or experience dramatic seasonal changes in temperature. Further, according to a study conducted in 20161, quinoa was found to be extremely salt tolerant without detriment to the grain. High salinity tolerance suggests that planting quinoa may potentially improve soil conditions, however, little research has been conducted on the bioremediation effects of C. quinoa. …

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 …

Regulation Of Trophoblast Invasion By Pyruvate Kinase Isozyme M2 (Pkm2): Preemptive To Pkm2 Activation Decreases Iugr Symptoms In Mice Exposed To Second-Hand Smoke, Juan Mejia, Juan Arroyo, Ph.D.

Journal of Undergraduate Research

The placenta is an organ composed of highly vascular tissue. It plays an essential role in healthy fetal development as a mediator of gases and nutrients between the mother and fetus. Many complications can occur in this stage of fetal development, such as intrauterine growth restriction (IUGR) when the placenta’s invasive and vascular roles are inhibited. IUGR is an obstetric complication that affects over 10% of the population causing harmful symptoms to the fetus and mother. Physiologically, in the first trimester, high trophoblast cell invasion occurs, and the spiral arteries dilate to create a low resistance, high capacity vessel capable …

Remote Sensing Approaches To Improve Water And Nitrogen Management Of Kentucky Bluegrass (Poa Pratensis), Austin Hopkins, Dr. Neil C. Hansen

Journal of Undergraduate Research

This project identifies remote sensing practices to conserve water by optimizing nitrogen (N) fertilization and irrigation strategies. Turfgrass is the most irrigated crop by area (163,800 km2 ), accounting for 1.9% of the continental U.S. This causes negative environmental impacts and puts the future of irrigated turfgrass in question due to increasing water scarcity, especially in the western U.S. More information is needed on how to irrigate in droughts and water limited areas as turf provides significant benefits in our environment such as aesthetics, cooling effects, carbon sequestration, and preventing soil erosion.

Using Remote Video Systems To Measure Effectiveness Of Small Scale Mpas In Saipipi, Samoa, Calvin Quigley, Dr. Richard Gill

Journal of Undergraduate Research

Coral reefs represent an invaluable natural, providing $30 billion dollars of fishing and recreational profits worldwide, and housing nearly a quarter of the oceans species [1, 2]. However, threats such as climate change, ocean acidification, coastal development and overharvesting have destroyed more than a fifth of the worlds coral reefs in recent decades[3]. One of the most common management plans that has been implemented to help protect and restore coral reefs is the establishment of marine protected areas (MPAs)[4]. MPAs have been proven to be effective in helping restore fish populations and coral cover, however the majority of MPAs are …

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.

Effectiveness Of Hospital Disinfectants Against Clostridium Spores, Bejamin Ogilvie, Richard Robinson

Journal of Undergraduate Research

Clostridium is a genus of anaerobic spore-forming bacteria notable for causing human infections. C. difficile has an especially high impact, affecting roughly 453,000 individuals in the U.S. in 2011 (1). C. tetani and C. perfringens infections occur much less frequently, although they remain clinically important. Disinfecting objects contaminated with Clostridium is challenging, as Clostridium spores are resistant to extreme temperature, desiccation, and most chemicals (2, 3). Clostridium is also frequently found within soil, making it a likely contaminant on almost any piece of medical equipment (3).

Currently, the U.S. EPA only requires sporicidal disinfectant efficacy tests against C. sporogenes, a …

Histone Post-Translational Modifications And Nucleosome Positioning: A New Layer In The Histone Code Hypothesis?, Andrew Earl, Dr. Steven Johnson

Journal of Undergraduate Research

Nucleosomes are the fundamental unit of chromatin organization. They consist of an octamer of histone proteins (two of each H2A, H2B, H3, and H4) wrapped around by 147 base pairs of DNA. Their positioning and occupancy around important genetic elements such as enhancers and promoters are some of the most important means of epigenetic regulation: changes in expression of genes that reflect a change in something other than DNA sequence. For example, highly-expressed genes are generally associated with low nucleosome occupancy, whereas inactive genes are associated with high nucleosome occupancy. It has also been shown that the positioning of nucleosomes …

Cd5 Deficient Mice Exhibit Altered Cognitive Function In Behavioral Studies, Tyler Cox, Dr. Scott Weber

Journal of Undergraduate Research

The immune system plays a role in protecting and maintaining the central nervous system (CNS). 1Dysfunctions within the immune system can affect the CNS and it is associated with diseases such as Multiple Sclerosis, Alzheimer’s and Parkinson’s disease. Having an imbalanced activation of immune cells within CNS results in cognitive impairments. CD5 is a protein on the surface of T cells and certain B cells that inhibits cellular activation and prevents immune cells from reacting too strongly to antigens and causing autoimmunity to our own tissues. Modulating CD5 and the immune system could affect the CNS and cognitive function. Observations …

Addressing The Global Eutrophication Crisis From The Ground Up: Quantifying Ecosystem Resilience To Nutrient Loading, Rebeccas Frei, Banjamin Abbott

Journal of Undergraduate Research

I conducted a project assessing the components of aquatic ecosystems to characterize their resilience to ever-increasing nutrient pollution. Since the Industrial Revolution, humans have more than doubled nitrogen inputs, and quintupled phosphorus inputs. Some of these nutrients run off into streams and rivers, resulting in an overabundance of nutrients, a state called eutrophication. Major threats of eutrophication include toxic algal blooms and waterbody oxygen depletion, which kill aquatic life, harm local economies, threaten human health, and endanger water security.

Microbiota Composition Trends Among High Risk Asd Individuals, Hyrum Eddington, John M. Chaston

Journal of Undergraduate Research

Autism Spectrum Disorder is a neurodevelopmental condition which significantly affects an individual’s social behavior and ability to function in daily living. Although there is a genetic component to the disorder, current research suggests that there are other factors that influence the onset of the disease. One of these factors is the gut microbiota of the individual. Because the human microbiome is a complex system that significantly varies from person to person, finding microbial markers indicative of certain disease can be challenging and problematic. Currently, there are no established protocols that can diagnosis an individual with autism on any criteria save …

Characterization Of Mutant Chemokine (C-C) Motif Receptor-Like 2 (Ccrl2) And Its Role In Inflammation And Alzheimer’S Disease, Meganne Ferrel, Dr. John S. K. Kauwe

Journal of Undergraduate Research

Alzheimer’s Disease (AD) is identified as a proteopathic disease that results from an extensive accumulation of amyloid plaques and neurofibrillary tangles in the brain. Several researchers have discovered that cerebrospinal fluid (CSF) contains biomarkers for AD such as Amyloid-beta and tau. Neuritic plaques in AD are surrounded by activated microglia and astrocytes which can initiate complement and inflammation in the presence of amyloid-beta. Macrophage inflammatory protein chemokine (C-C motif) ligand 4 (CCL4) is a biomarker found in CSF. A high level of expression is associated with risk of developing AD. CCL4 is expressed in a subpopulation of reactive astrocytes and …