Biology Commons^™

Dystonia 16 (Dyt16) Mutations In Pact Cause Dysregulated Pkr Activation And Eif2Α Signaling Leading To A Compromised Stress Response, Samuel B. Burnett, Lauren S. Vaughn, Nutan Sharma, Ronit Kulkarni, Rekha C. Patel

Faculty Publications

Dystonia 16 (DYT16) is caused by mutations in PACT, the protein activator of interferon-induced double-stranded RNA-activated protein kinase (PKR). PKR regulates the integrated stress response (ISR) via phosphorylation of the translation initiation factor eIF2α. This post-translational modification attenuates general protein synthesis while concomitantly triggering enhanced translation of a few specific transcripts leading either to recovery and homeostasis or cellular apoptosis depending on the intensity and duration of stress signals. PKR plays a regulatory role in determining the cellular response to viral infections, oxidative stress, endoplasmic reticulum (ER) stress, and growth factor deprivation. In the absence of stress, both PACT and …

Sine Oculis Homeobox Homolog 1 (Six1) Plays A Critical Role In The Progression Of Pulmonary Fibrosis., Cory Wilson

Dissertations and Theses (Open Access)

Idiopathic pulmonary fibrosis (IPF) is the most common idiopathic interstitial pneumonia with a median survival time of 2-4 years after diagnosis. The alarming mortality rate is due to the lack of effective treatments. IPF is a chronic disease that is characterized by alveolar destruction due to increasing extracellular matrix deposition that leads to poor lung compliance, impaired gas exchange, and ultimately respiratory failure. Repetitive alveolar epithelial injury is a central process to the underlying pathology with injury to the type II alveolar epithelial cells (AT2) specifically being a key player in the pathogenesis of IPF. Recent studies have shown that …

Fibroblast Heterogeneity In Pancreatic Cancer Immunity, Josephine Darpolor

Dissertations and Theses (Open Access)

Fibroblasts are a unique cell type defined by their mesenchymal phenotype and exclusion from epithelial, immune, and endothelial cell subsets. Although well studied in wound healing, cancer associated fibroblasts (CAFs) are incredibly heterogeneous, leading to contradictions as to the roles CAFs play in the tumor microenvironment (TME). CAFs were thought to be a barrier to treatment of pancreatic ductal adenocarcinoma (PDAC). However, general stromal targeting strategies have largely failed in the clinic likely due to the heterogeneity of CAFs in the TME. Therefore, our groups and others have worked to unravel the heterogeneity of CAFs in PDAC. In the works …

Using Structural Equation Modeling To Model Compliance With Covid-19 Related Non-Pharmaceutical Interventions Amongst University Students In The United States, Spencer G. Shumway, Jonas D. Hopper, Ethan R. Tolman, Daniel G. Ferguson, Gabriella Hubble, David Patterson, Jamie Jensen

ScholarsArchive Data

There are two data files. The "General Data" comes from a nationwide poll using Qualtrics polling software. The "Utah Data" comes from undergraduate biology students at UVU and BYU. The survey gathered demographic data and attitudes toward the COVID pandemic.

The Design And Validation Of A Qpcr-Based Approach To Cell Quantification Of Fungal-Algal Symbioses, Isabelle Katherine Garlotte

Honors Theses

Symbiotic relationships are extremely common in virtually all species. These relationships between organisms, particularly mutualistic symbioses, can have an incredibly large impact and can greatly affect the evolution of the species involved. Of particular interest is the suspected mutualistic relationship between green algae and fungi that may hold key evidence of how terrestrial plants evolved. In this experiment we established a method of quantifying the cells of each species involved in these symbioses through qPCR analysis to determine if the relationships are truly mutualistic. We developed a system for using DNA copies as a proxy for cell count in co-cultures …

Promoting The Sustainability Of The Gulf Of Maine Recreational Groundfish Fishery Through Discard Mortality Estimation, Mitigation, And Outreach, Connor W. Capizzano

Graduate Doctoral Dissertations

Recreational fishing (i.e., angling), a popular leisure activity that provides socio-economic benefits to human societies around the world, can represent a significant source of fishing mortality and impact fish populations and marine ecosystems. Although fish are often released by recreational anglers to reduce fishing mortality rates, the efficacy of discarding fish is often criticized given that fish can die from the factors experienced during the capture, handling, and release process (i.e., discard mortality). Despite this recognition, the rate at which fish suffer discard mortality in specific commercial and recreational fisheries is often unknown and difficult to obtain due to logistical …

Pathology Findings And Correlation With Body Condition Index In Stranded Killer Whales (Orcinus Orca) In The Northeastern Pacific And Hawaii From 2004 To 2013, Stephen A. Raverty, Judy St. Leger, Dawn P. Noren, Kathy Burek Huntington, David S. Rotstein, Francis M.D. Gulland,, Deborah A. Duffield, Multiple Additional Authors

Biology Faculty Publications and Presentations

Understanding health and mortality in killer whales (Orcinus orca) is crucial for management and conservation actions. We reviewed pathology reports from 53 animals that stranded in the eastern Pacific Ocean and Hawaii between 2004 and 2013 and used data from 35 animals that stranded from 2001 to 2017 to assess association with morphometrics, blubber thickness, body condition and cause of death. Of the 53 cases, cause of death was determined for 22 (42%) and nine additional animals demonstrated findings of significant importance for population health. Causes of calf mortalities included infectious disease, nutritional, and congenital malformations. Mortalities in sub-adults were …

Scale‐Dependent Effects Of Host Patch Traits On Species Composition In A Stickleback Parasite Metacommunity, Daniel I. Bolnick, Emlyn J. Resetarits, Kimberly Ballare, Yoel E. Stuart, William E. Stutz

Biology: Faculty Publications and Other Works

A core goal of ecology is to understand the abiotic and biotic variables that regulate species distributions and community composition. A major obstacle is that the rules governing species distributions can change with spatial scale. Here, we illustrate this point using data from a spatially nested metacommunity of parasites infecting a metapopulation of threespine stickleback fish from 34 lakes on Vancouver Island, British Columbia. Like most parasite metacommunities, the composition of stickleback parasites differs among host individuals within each host population, and differs between host populations. The distribution of each parasite taxon depends, to varying degrees, on individual host traits …

Assessment Of Factors Influencing Migratory Landbird Use Of Forested Stopover Sites Along The Delmarva Peninsula During Autumn Migration, J. Andrew Arnold

Biological Sciences Theses & Dissertations

Autumn migration is a time when billions of birds move from breeding grounds in North America to wintering grounds in Central and South America, with many individuals relying on stopover habitats en route for resting and refueling purposes. These stopover sites are critical to the survival of the hundreds of species of migratory landbirds that migrate annually, and thus identifying important stopover sites is a high priority for conserving such taxa. The Delmarva Peninsula; a coastal region of Delaware, Maryland, and Virginia along the mid-Atlantic flyway; consists of forested habitats with ample food and shelter that likely serves as quality …

Tissue-Specific Responses From A Global Developmental Signal: A Detailed Subcellular Analysis Of The 20e And Rab Signaling Pathways Controlling Exocrine Secretion During Drosophila Development, Nichalas Nelson

UNLV Theses, Dissertations, Professional Papers, and Capstones

During metamorphosis, the steroid hormone 20-hydroxecydysone (20E) triggers a plethora of tissue-specific responses in the common fruit fly, Drosophila melanogaster. The salivary glands are exocrine organs that respond to a large pulse of 20E to secrete a massive cargo of stored glycoproteins called glue. Because the glands are amenable to ex vivo-organ culture and powerful genetic manipulations, they are an excellent model for studying the conserved developmental and physiological signaling pathways that regulate the general function of these specialized secretory tissues. Our lab has generated transgenic animals in which the secreted glue molecules are tagged with fluorescent proteins. I have …

Microbe-Mineral Interactions During Exceptional Fossil Preservation, Stromatolite Formation, And Desert Varnish Growth, Michael Strange

UNLV Theses, Dissertations, Professional Papers, and Capstones

The Ediacaran to Cambrian Deep Spring Formation consists of mixed carbonate-siliciclastic strata which contain an increasingly complex and biogeographically important biota. Past investigations of the Deep Spring Formation at Mt. Dunfee, Nevada, explored the highly diverse microbialite reefs consisting of a wide range of stromatolite morphologies which exerted significant control on local sedimentation and topography. Early investigations also documented the biomineralizing metazoan Cloudina (an Ediacaran index fossil). However, recent exploration of the area has resulted in the discovery of several new metazoan fossil communities consisting of a diverse assemblage of Ediacaran soft-tissue tubicolous vermiforms (tube fossils) similar to Cloudina. The …

The Modular Expression Patterns Of Three Pigmentation Genes Prefigure Unique Abdominal Morphologies Seen Among Three Drosophila Species, William A. Dion, Mujeeb O. Shittu, Tessa Steenwinkel, Komal K.B. Raja, Prajakta P. Kokate, Thomas Werner

Michigan Tech Publications, Part 1

To understand how novel animal body colorations emerged, one needs to ask how the development of color patterns differs among closely related species. Here we examine three species of fruit flies – Drosophila guttifera (D. guttifera), D. palustris, and D. subpalustris – displaying a varying number of abdominal spot rows. Through in situ hybridization experiments, we examine the mRNA expression patterns for the pigmentation genes Dopa decarboxylase (Ddc), tan (t), and yellow (y) during pupal development. Our results show that Ddc, t, and y are co-expressed in modular, identical patterns, each foreshadowing the adult abdominal spots in D. guttifera, D. …

Otolith Age Validation And Microchemical Investigation Of The Northern Stock F Atlantic Black Sea Bass (Centropristis Striata), Elise R. Koob

Graduate Masters Theses

Black sea bass (Centropristis striata) is a demersal marine species that supports extensive commercial and recreational fisheries along the Atlantic coast. A recent expansion into the Gulf of Maine raises questions about this species’ movement and population dynamics in the region. Additionally, the 2016 catch-at-age stock assessment model for the northern stock incorporated a population split at the Hudson Canyon. Though this model better accounts for differences in populations, several issues remain. First, validation of the otolith ageing technique for this stock is incomplete; and, second, the origin of fish that moved into the northern ranges of the Gulf of …

Coral Bleaching: A Global Analysis Of Bright Spots, Shannon Elizabeth Sully

Theses and Dissertations

Thermal-stress events associated with climate change cause coral bleaching and mortality that threatens coral reefs globally. Yet coral bleaching and coral cover patterns vary spatially and temporally, and few studies have identified bright spots where corals have the potential to survive through climate change. This study synthesizes over 10,000 field observations globally of coral bleaching and coral cover from 1997to 2017 and uses a suite of environmental and temperature metrics to analyze coral bleaching and coral cover patterns. The objectives of this dissertation are to(1) identify the environmental variables that constitute bright spots for coral reefs, and (2) identify where …

Role Of Herbivore Associated Elicitors In Plant Defense Signaling, Akanksha Gandhi

Theses and Dissertations

Chapter 2: In this chapter, I have provided an update on recent developments and advances on early signaling events in plant-herbivore interactions, with a particular emphasis on the membrane potential changes (Vm), calcium (Ca2+), reactive oxygen species (ROS) and plant ion channels involvement in early signaling events initiation and propagation of defense signaling cascade.

Chapter 3: In this chapter, we show that tobacco hornworm (Manduca sexta) caterpillar oral secretion (OS) induces ROS in tomato (Solanum lycopersicum) protoplasts. By using a dye-based ROS imaging approach, our study showed that the application of Plant-Fed (PF) M. sexta OS …

Lianas Maintain Insectivorous Bird Abundance And Diversity In A Neotropical Forest, Stefan A. Schnitzer, Nicole L. Michel, Jennifer S. Powers, W. Douglas Robinson

Biological Sciences Faculty Research and Publications

The spatial habitat heterogeneity hypothesis posits that habitat complexity increases the abundance and diversity of species. In tropical forests, lianas add substantial habitat heterogeneity and complexity throughout the vertical forest profile, which may maintain animal abundance and diversity. The effects of lianas on tropical animal communities, however, remain poorly understood. We propose that lianas have a positive effect on animals by enhancing habitat complexity. Lianas may have a particularly strong influence on the forest bird community, providing nesting substrate, protection from predators, and nutrition (food). Understory insectivorous birds, which forage for insects that specialize on lianas, may particularly benefit. Alternatively, …

Effects Of Urbanization On Buff-Bellied Hummingbirds In Subtropical South Texas Subtropical South Texas, John S. Brush, Timothy Brush, Alexis Racelis

School of Integrative Biological & Chemical Sciences (Formerly Dept. of Biology)

Urbanization and its associated processes affect wildlife in a variety of ways. Understanding how this increasing land use type affects biological communities is important for conservation efforts. Hummingbirds (family Trochilidae) are one taxon that has showed positive responses to varying intensities of urban development. We surveyed for Buff-bellied Hummingbird ( Amazilia yucatanensis), a species on its northern range-limits, in urban woodlands, residential, natural, and revegetated habitats. We examined how urbanization is affecting Buff-bellied Hummingbird populations in South Texas with point- count surveys and GIS analysis. We found that Buff-bellied Hummingbirds had greater relative abundances in urban settings when compared with …

Student Success Of Online Vs. In-Person Biology Courses At Virginia Community Colleges, Jennifer Claire Scott

Doctoral Dissertations and Projects

Community colleges have a significant role in preparing students for STEM-related careers through certificates, degrees, and transfers to four-year institutions. In addition, online education is a growing mode of higher education, particularly for community college students. However, community college and online students are both at a high risk of attrition and show a lower success rate for degree completion. The purpose of this study was to identify differences in attrition and success between students in online and in-person biology courses at Virginia community colleges. Also, this study addressed downstream effects of online education by examining course completion of second-semester biology …

Global Conservation Status Of Croaker And Drum (Family: Sciaenidae) And Role Of The Maw Trade, Claire E. Gorman

Biological Sciences Theses & Dissertations

Understanding threats and drivers of extinction risk is critical to conserving marine biodiversity. Although marine bony fishes are some of the most diverse and abundant vertebrates in the world, overexploitation is the major threat to these taxa. Species in the family Sciaenidae are important marine resources in many parts of the world, supporting small- and large-scale fisheries for consumption and the international maw (dried swimbladder) trade. Sciaenids exhibit a diverse array of life history characteristics, such as high fecundity, large body size, formation of spawning aggregations, and longevity. Some characteristics increase their susceptibility to anthropogenic stressors. Despite being ecologically and …

Editor's Choice: Aldo Leopold Conservation Award, Luis A. Ruedas

Biology Faculty Publications and Presentations

Every year since 2003, the American Society of Mammalogists confers during its annual meeting the Aldo Leopold Conservation Award on a highly deserving individual. A consequence of the award for the awardee is the responsibility to write a feature article in the pages of this journal. Aldo Leopold, the namesake of the award, is considered by an overwhelming majority of biologists to be the father of contemporary conservation biology. Born in Burlington, Iowa, Leopold graduated with a Master’s degree from the Yale Forest School, which had been endowed in 1902 by the Pinchot family and was one of the first …

The Effects Of Multiple Stressors On Stream Communities: The Convergence Of Drought, Nutrient Pollution, And Invasive Species, Robert Joseph Fournier Iii

Graduate Theses and Dissertations

Freshwater systems experience multi-faceted degradation from a variety of ecological and environmental stressors. Three common stressors in these systems, drought, nutrient pollution, and invasive species, have wide-ranging effects on stream population- community- and ecosystem dynamics. We have a broad understanding of how each of these stressors works to influence stream systems independently. However, we still know relatively little about if, and how, these stressors might interact when they co-occur. Though drought is a natural part of many stream systems, all three of these stressors can be exacerbated or facilitated by anthropogenic actions. Accordingly, as human population and resource use continue …

Neogene And Quaternary Events Shaped Diversification And Speciation In Bhutanese Rheophilic Fishes Of The Family Nemacheilidae (Cypriniformes) And Sisoridae (Siluriformes), Karma Wangchuk

Graduate Theses and Dissertations

Biogeography of the Himalayan region [to include the Qinghai-Tibetan Plateau (QTP)] evolved over a ~30M year span, catalyzed by the collision of the Indian and Eurasian plates. The resulting uplift produced major ecological and climatic effects, that in turn drove the diversification of biodiversity. As a result, the QTP is designated as a global biodiversity hotspot particularly vulnerable to cumulative climatic effects, including shrinking distributions, declining numbers, and local extinctions. Understanding how the biodiversity within the Himalaya/ QTP was established and maintained is a necessary first step in prioritizing conservation efforts.

Fishes in global montane regions, such as the Himalaya, …

Effects Of Long-Term Variation In Temperature On Reproductive Phenology In A Population Of Eastern Bluebirds (Sialia Sialis), Paul Pleiman

Graduate Theses and Dissertations

This study investigates the relationship between multiple temperature variables, to include annual and pre-lay date temperatures with first-egg and mean first-egg lay dates of the eastern bluebird at the Warner Parks in Nashville, Tennessee, USA. Data is collected by citizen scientists for the Eastern Bluebird Nesting Box Project while visiting artificial nest boxes throughout the park and recording observations made during the breeding season. Temperature data is retrieved from the Northwest Alliance for Computational Science and Engineering’s Parameter-elevation Regressions on Independent Slopes Model (PRISM) Climate Group, based at Oregon State University. The analyses showed no correlation between annual or pre-lay …

Immunohistochemical Localization Of Prolactin Receptor (Prlr) To Hodgkin's And Reed-Sternberg Cells Of Hodgkin's Lymphoma, Rajendra Gharbaran, Onyekwere Onwumere, Naomi Codrington, Latchman Somenarian, Stephen Redenti

Publications and Research

Prolactin receptor (PRLR), a type-1 cytokine receptor, is overexpressed in a number of cancer types. It has attracted much attention for putative pro-oncogenic roles, which however, remains controversial in some malignancies. In this study, we reported the localization of PRLR to the Hodgkin's and Reed-Sternberg (HRS) cells of Hodgkin's lymphoma (HL), a neoplasm of predominantly B cell origin. Immunohistochemistry performed on 5-μm thick FFPE sections revealed expression of PRLR in HRS cells. Cellular immunofluorescence experiments showed that the HL-derived cell lines, Hs445, KMH2 and L428 overexpressed PRLR. The PRLR immunofluorescent signal was depleted after treating the cell lines with 10 …

Plant Single-Cell Metabolomics—Challenges And Perspectives, Leonardo Perez De Souza, Monica Borghi, Alisdair R. Fernie

Biology Faculty Publications

Omics approaches for investigating biological systems were introduced in the mid-1990s and quickly consolidated to become a fundamental pillar of modern biology. The idea of measuring the whole complement of genes, transcripts, proteins, and metabolites has since become widespread and routinely adopted in the pursuit of an infinity of scientific questions. Incremental improvements over technical aspects such as sampling, sensitivity, cost, and throughput pushed even further the boundaries of what these techniques can achieve. In this context, single-cell genomics and transcriptomics quickly became a well-established tool to answer fundamental questions challenging to assess at a whole tissue level. Following a …

Development Of Novel Methodology For The Molecular Differentiation Of Cryptosporidium Parvum Gp60 Subtypes Via High Resolution Melting Analysis, Jennifer K. O'Leary, Liam Blake, Gerard D. Corcoran, Roy D. Sleator, Brigid Lucey

Department of Biological Sciences Publications

Cryptosporidium species subtypes are generally identified via DNA sequencing of the gp60 gene tandem repeat motif region. Due to the immunogenic nature of its glycoprotein products, gp60 is subject to host selective pressures, genetic recombination and evolutionary processes that drive extensive polymorphism at this locus. The elucidation of the polymorphic nature of this gene has led to the current mainstay in Cryptosporidium subtyping nomenclature.

This study aimed to develop a real-time polymerase chain reaction based method utilising a post-PCR application, high resolution melting (HRM) analysis, in conjunction with the abovementioned gp60 nomenclature system, in order to differentiate between Cryptosporidium parvum …

Bullseye Snakehead Fish (Channa Marulius) Neurocranium, James A. Moss, David Kerstetter

All Scans: Kerstetter Fisheries and Avian Ecology 3D Scan Series

Neurocranium had an estimated length of 11 cm, Bullseye Snakehead (Channa marulius), invasive species collected from South Florida

Notch Family Members Follow Stringent Requirements For Intracellular Domain Dimerization At Sequence-Paired Sites, Jacob J. Crow, Allan R. Albig

Biology Faculty Publications and Presentations

Notch signaling is essential for multicellular life, regulating core functions such as cellular identity, differentiation, and fate. These processes require highly sensitive systems to avoid going awry, and one such regulatory mechanism is through Notch intracellular domain dimerization. Select Notch target genes contain sequence-paired sites (SPS); motifs in which two Notch transcriptional activation complexes can bind and interact through Notch’s ankyrin domain, resulting in enhanced transcriptional activation. This mechanism has been mostly studied through Notch1, and to date, the abilities of the other Notch family members have been left unexplored. Through the utilization of minimalized, SPS-driven luciferase assays, we were …

Physiological Effects Of Sustained Swimming On Salinity Acclimation In Chinook Salmon (Oncorhynchus Tshawytscha), Fritzman Geena

College of Science and Health Theses and Dissertations

Juvenile chinook salmon (Oncorhynchus tshawytscha) encounter a variety of environmental conditions on their migration from freshwater to the ocean. These migrations are physiologically demanding, requiring salmon to reverse their osmoregulatory strategies to successfully acclimate to changing salinity. This reversal occurs primarily at the gills (main osmoregulatory organ) where respiratory and osmoregulatory functions are occurring simultaneously. When subjected to a physiological stressor, the gills will compromise in design to alleviate the most limited function. This tradeoff is known as the ‘osmorespiratory compromise’. This thesis examined whether an osmorespiratory compromise in chinook salmon induced by sustained exercise (a gas exchange stressor) would …

Poorly Vetted Conservation Ranks Can Be More Wrong Than Right: Lessons From Texas Land Snails, Kathryn E. Perez, Benjamin T. Hutchins, Jeffrey C. Nekola

School of Integrative Biological & Chemical Sciences (Formerly Dept. of Biology)

Setting priorities for scarce conservation dollars requires an accurate accounting of the most vulnerable species. For many invertebrates, lack of taxonomic expertise, low detectability, and funding limitations are impediments to this goal, with conservation ranks usually based on expert opinion, the published literature, and museum records. Because of biases and inaccuracies in these data, they may not provide an accurate basis for conservation ranks, especially when compared to de novo field surveys. We assessed this issue by comparative examination of these data sources in re-ranking the conservation status of all 254 land snail taxa reported from Texas, USA. We confirmed …