Life Sciences Commons^™

Implications Of Human Umbilical Cord Blood Cells: An Immunotherapeutic Strategy For Alzheimer's Disease, Donna Darlington

USF Tampa Graduate Theses and Dissertations

ABSTRACT

Alzheimer's disease (AD) is the most common progressive age related dementia and the fourth major cause of mortality in the elderly in the United States. AD is pathologically characterized by deposition of amyloid beta (Aβ) plaques in the brain parenchyma and neurofibrillary tangles (NFTs) within the neuronal soma. While pharmacological targets have been discovered, current strategies for the symptomatic or disease-modifying treatment of AD do not significantly slow or halt the underlying pathological progression of the disease. Consequently, more effective treatment is needed. One possibility for amelioration is using human umbilical cord blood cell (HUCBC) therapy. HUCBCs comprise a …

Marine Viral Diversity And Spatiotemporal Variability, Dawn Goldsmith

USF Tampa Graduate Theses and Dissertations

Marine viruses are the most numerous biological entities in the ocean, with an estimated abundance of 4 x 10³⁰. They merit study not only because of their sheer abundance, but also because of the role they play in the Earth's biogeochemical cycles. Viral lysis of bacteria redirects the flow of nutrients among marine microbes, which ultimately affects the efficiency of the biological pump. Viral diversity is important because most viruses are host-specific. In preying on a certain type of bacteria, viruses affect the diversity and structure of the bacterial community, leading to changes in carbon and nutrient flows. …

Genetic Basis For The Virulence Of Enterohemorrhagic Escherichia Coli Strain Tw14359, Jason Kyle Morgan

USF Tampa Graduate Theses and Dissertations

Enterohemorrhagic Escherichia coli (EHEC) is a virulent pathotype of E. coli that is associated with major outbreaks of hemorrhagic colitis and the life-threatening kidney disease hemolytic uremic syndrome. For successful host colonization and attachment to the intestinal mucosa, EHEC requires the locus of enterocyte effacement (LEE) pathogenicity island, which encodes a type III secretion system (TTSS) responsible for secreting and translocating effector proteins into host colonocytes. Regulation of the LEE is primarily directed through the first operon, LEE1, encoding the locus encoded regulator (Ler), and occurs through the direct and indirect action of several regulators. The 2006 U.S. spinach outbreak …

Novel Roles Of The Protein Tyrosine Phosphatase Shp2 In Non-Small Cell Lung Cancer, Valentina Schneeberger

USF Tampa Graduate Theses and Dissertations

The gene PTPN11 was identified in the early 1990s, and encodes the non-transmembrane protein tyrosine phosphatase SHP2. SHP2 is expressed ubiquitously in cells, and plays an important role in cancer. Unlike most phosphatases, SHP2 positively regulates several signaling pathways including the Ras/MAPK and Src signaling pathways and acts as a proto-oncogene. SHP2 is also a cancer essential gene in certain types of carcinomas, and promotes growth, survival, and epithelial to mesenchymal transformation. Gain of function (GOF) SHP2 mutations are known leukemic oncogenes, and have been identified to a smaller extent in solid tumors as well. Currently, the roles of SHP2 …

Molecular Analyses Of Microbial Abundance And Diversity In The Water Column Of Anchialine Caves In Mallorca, Spain, Damian Menning, Liana M. Boop, Elaina D. Graham, James R. Garey

International Journal of Speleology

Water column samples from the island of Mallorca, Spain were collected from one site in Cova des Pas de Vallgornera (Vallgornera) and three sites (Llac Martel, Llac Negre, and Llac de les Delícies) in Coves del Drac (Drac). Vallgornera is located on the southern coast of Mallorca approximately 57 km southwest of Coves del Drac. Drac is Europe's most visited tourist cave, whereas Vallgornera is closed to the public. Water samples were analyzed for water chemistry using spectrophotometric methods, by quantitative PCR for estimated total abundance of microbial communities, and by length heterogeneity PCR for species richness and relative species …

The Cova Des Pas De Vallgornera (Llucmajor, Mallorca): A Singular Deposit Bearing An Exceptional Well Preserved Early Pleistocene Vertebrate Fauna, Pere Bover, Alex Valenzuela, Carmen Guerra, Juan Rofes, Josep A. Alcover, Joaquin Gines, Joan J. Fornos, Gloria Cuenca-Bescós, Antoni Merino

International Journal of Speleology

The Cova des Pas de Vallgornera is the longest cave of Mallorca (Balearic Islands, Western Mediterranean) and one of the 30 longest caves in the world. The exploration of one of the galleries allowed the discovery of a fossiliferous deposit of vertebrate remains in a remarkable preservation state. The fossil faunal complex found in this gallery is composed of up to 5 mammalian species (Myotragus aff. kopperi, Hypnomys onicensis, Nesiotites aff. ponsi, Rhinolophus aff. mehelyi and Pipistrellus sp.), at least 14 bird species (among them two Mallorcan endemic taxa: Pica mourerae and Athene vallgornerensis), one …

Fossil Vertebrate Database From Cova Des Pas De Vallgornera (Llucmajor, Mallorca), Anna Díaz, Pere Bover, Josep Antoni Alcover

International Journal of Speleology

The data set presented in this paper includes the fossil fauna collected in the cave named Cova des Pas de Vallgornera (CPV), located on the southern coast of Mallorca (Balearic Islands, Spain). It holds 1481 catalogued items, 97.5% identified at species level. Mammalia, Aves, Reptilia, and Amphibia are represented in the Database. The fauna collected in the cave includes the three endemic mammals present on Mallorca during the Early Pleistocene (Myotragus aff. kopperi, Hypnomys onicensis, and Nesiotites aff. ponsi). There are also represented two taxa of Chiroptera (Rhinolophus aff. mehelyi and Pipistrellus sp.), 16 taxa …

Microbial Communities In A Coastal Cave: Cova Des Pas De Vallgornera (Mallorca, Western Mediterranean), Antoni Busquets, Joan J. Fornós, Freddy Zafra, Jorge Lalucat, Antoni Merino

International Journal of Speleology

As a part of an ongoing project on the role of microbes in the biogeochemistry of Majorcan caves, the species diversity of microbial communities present in cave pools of anchialine waters in the Cova des Pas de Vallgornera (Mallorca, western Mediterranean) is investigated by a culture-dependent method. Two-hundred and forty-eight strains isolated from this characteristic cave environment of the littoral karst are identified by whole-cell-MALDI-TOF mass spectrometry and phylogeneticaly by 16S rRNA gene sequences. Total cell counts and species diversity of the bacterial communities decreas with the distance to the entrance of the cave and to the sea. Strains are …

Potential Targeted Therapeutic Strategies For Overcoming Resistance In Braf Wild Type Melanoma, Vito William Rebecca

USF Tampa Graduate Theses and Dissertations

Melanoma manifests itself from the malignant transformation of melanocytes and represents the deadliest form of skin cancer, being responsible for the disproportionate majority of all skin cancer deaths. The 2002 discovery that 50% of all melanoma patients possess activating BRAF mutations ignited a significant paradigm shift in the way the melanoma field approached research and how patients were treated [1]. The era of targeted therapy had begun and with it came successful targeted BRAF inhibitor therapy regimens, which have accomplished improved clinical benefit (response rate, progression free survival, and overall survival) compared with treatment with chemotherapy in three phase III …

Craniometric Ancestry Proportions Among Groups Considered Hispanic: Genetic Biological Variation, Sex-Biased Asymmetry, And Forensic Applications, Meredith L. Tise

USF Tampa Graduate Theses and Dissertations

Today, groups considered Hispanic in the United States consist of populations whose complex genetic structures reflect intermixed diverse groups of people who came in contact during Spanish colonization in Latin America. After coming in contact and wiping out most of the Native Americans who occupied North and Latin America, the Spanish also introduced West African individuals for labor to begin developing crops to be shipped back to Europe, resulting in the Trans-Atlantic African slave trade. These migration events and differential gene flow among males and females that occurred throughout Latin America have led to populations that have been genetically transformed …

Developing An In-Season Predictor Of Commercial Landings For Quota Monitoring In The U.S. Virgin Islands, Mary Janine Vara

USF Tampa Graduate Theses and Dissertations

The lack of timely reporting of commercial fisheries landings interferes with effective management of fisheries in United States Virgin Islands (USVI). Federal law requires that landings be limited to prevent annual catch limits (ACLs) from being exceeded. Previous attempts to predict total landings have used historic data from prior fishing seasons to predict future landings rather than leveraging available in-season data to provide a more real-time prediction of landings. This study presents an in-season model that predicts total landings using partial reports from the current fishing year. This estimate of total landings, including error bounds around that estimate, can then …

Structure-Based Design Of Novel Inhibitors And Ultra High Resolution Analysis Of Ctx-M Beta-Lactamase, Derek Allen Nichols

USF Tampa Graduate Theses and Dissertations

The emergence of CTX-M class-A extended-spectrum β-lactamases, which confer resistance to second and third-generation cephalosporins, poses a serious health threat to the public. CTX-M β-lactamases use a catalytic serine to hydrolyze the β-lactam ring. Specifically, the hydrolysis reaction catalyzed by CTX-M β-lactamase proceeds through a pre-covalent complex, a high-energy tetrahedral acylation intermediate, a low-energy acyl-enzyme complex, a high-energy tetrahedral deacylation intermediate after attack via a catalytic water, and lastly, the hydrolyzed β-lactam ring product which is released from the enzyme complex. The crystallographic structure of CTX-M at sub-angstrom resolution has enabled us to study enzyme catalysis as well as perform …

Asymmetric Unilateral Transfemoral Prosthetic Simulator, Tyagi Ramakrishnan

USF Tampa Graduate Theses and Dissertations

amputation, which includes reduced force generation at the knee and ankle, reduced control of the leg, and different mass properties relative to their intact leg. The physical change in the prosthetic leg leads to gait asymmetries that include spatial, temporal, or force differences. This altered gait can lead to an increase in energy consumption and pain due to compensating forces and torques. The asymmetric prosthesis demonstrated in this research aims to find a balance between the different types of asymmetries to provide a gait that is more symmetric and to make it overall easier for an amputee to walk.

Previous …

Study Of The Motility Of Biological Cells By Digital Holographic Microscopy, Xiao Yu

USF Tampa Graduate Theses and Dissertations

In this dissertation, I utilize digital holographic microscopy (DHM) to study the motility of biological cells. As an important feature of DHM, quantitative phase microscopy by digital holography (DH-QPM) is applied to study the cell-substrate interactions and migratory behavior of adhesive cells. The traction force exerted by biological cells is visualized as distortions in flexible substrata. Motile fibroblasts produce wrinkles when attached to a silicone rubber film. For the non-wrinkling elastic substrate polyacrylamide (PAA), surface deformation due to fibroblast adhesion and motility is visualized as tangential and vertical displacement. This surface deformation and the associated cellular traction forces are measured …

Hypogenic Versus Epigenic Subterranean Ecosystem: Lessons From Eastern Iberian Peninsula, Alberto Sendra, Policarp Garay, Vicente M. Ortuño, José D. Gilgado, Santiago Teruel, Ana Sofia P.S. Reboleira

International Journal of Speleology

Over the last 40 years, hypogenic karst/caves have become well known and hypogene speleogenesis has been used to explain the formation of some of the largest subterranean maze caves. These hypogenic systems involve confined aquifers with upwards flow, responsible for their karstification. Such spaces begun and could be remain isolated from the surface and the contiguous subterranean habitats, including the shallow ones. We studied the invertebrate fauna and the geology/speleogenesis of two recently opened caves from Eastern Iberian Peninsula, which clearly showed features of hypogenic origin. Their scarce faunistic composition, formed by non cave-adapted fauna, is similar to other hypogenic …

Mapping The Spatial Movements, Behaviors, And Interactions Of Captive Orangutans Using Terrestrial Laser Scanning And Gis, Zachary Joseph Smith

USF Tampa Graduate Theses and Dissertations

Five captive Bornean orangutans (Pongo pygmaeus) were observed in order to better understand their spatial selection, behavior, and interaction with their environment and each other. A newly introduced adult male's interactions with a female group containing two adults, one adolescent, and one juvenile, was documented. Visual observations were performed to document individual behaviors, along with any interactions with silvery langur monkeys, public crowd levels, temperature, and enrichment props. Methods included 15 observation periods, 0.5-3 hours in length each, during which behaviors were verbally and visually confirmed using a HD video camera. Spatial locations of each individual were recorded every three …

Historical And Current Status Of Springs In The Kingdom Of Saudi Arabia, Kamal Mousa Aljohani

USF Tampa Graduate Theses and Dissertations

This research was conducted to update previous studies of the springs of the Kingdom of Saudi Arabia. Approach: Revisit every spring that was recorded previously to ascertain the current status, water quality and zooplankton communities. Results: fourteen springs out of forty six were still flowing. Several springs in the Eastern Province were structurally changed into manmade pools. Also, one new spring was located and documented in the northwestern region. Zinc and copper in several springs were the common dissolved heavy metals and have had exceeded the safe drinking water standards according to World Health Organization. Fourteen zooplankton taxa was found, …

Combination Of The Computational Methods: Molecular Dynamics, Homology Modeling And Docking To Design Novel Inhibitors And Study Structural Changes In Target Proteins For Current Diseases, Katherine Cristina Parra

USF Tampa Graduate Theses and Dissertations

In this thesis, molecular dynamics simulations, molecular docking, and homology modeling methods have been used in combination to design possible inhibitors as well as to study the structural changes and function of target proteins related to diseases that today are in the spotlight of drug discovery. The inwardly rectifying potassium (Kir) channels constitute the first target in this study; they are involved in cardiac problems. On the other hand, tensin, a promising target in cancer research, is the second target studied here.

The first chapter includes a brief update on computational methods and the current proposal of the combination of …

Host-Parasite Interactions In An Invasive Songbird, Courtney A.C. Coon

USF Tampa Graduate Theses and Dissertations

Introduced species are the greatest threat to biodiversity after habitat loss. Understanding the processes that permit organisms to become successful invaders may provide opportunities to prevent or limit their dispersal and establishment and thereby alleviate some of their harmful effects. The goal of my dissertation research has been to investigate whether invasive species have distinctive interactions with parasites, and some of the mechanisms that may underlie that variation. I used one of the world's most successful vertebrate invaders as a case study: the house sparrow (Passer domesticus; Introduction).

Previous research in the house sparrow suggested that loss of …

Regulatory Roles Of Facit Collagens Xii And Xiv In Cornea Stromal And Endothelial Development And Function, Chinda Hemmavanh

USF Tampa Graduate Theses and Dissertations

Purpose:

Corneal transparency depends upon the precise organization of corneal stromal extracellular matrix and corneal endothelial function. Stromal structure and extracellular matrix organization is responsible for proper refraction of light into the eye. The corneal endothelium is responsible for pumping excess fluid out of the cornea, effectively maintaining corneal hydration and thickness. Corneal transplantation is the current form of treatment for corneal endothelial and stromal dystrophies. The mechanisms controlling stromal collagen fibril packing and organization into orthogonal layers as well as maturation of the endothelium into a fully functioning cellular layer are unknown. Collagens XII and XIV, fibril associated collagens …

An Investigation Into The Habitat, Behavior And Opportunistic Feeding Strategies Of The Protected Goliath Grouper (Epinephelus Itajara), Angela Collins

USF Tampa Graduate Theses and Dissertations

Groupers (Epinephelidae: Epinephelinae) are apex predators within many reef communities worldwide. Grouper landings contribute significantly to global fisheries, and many populations are suffering from unsustainable levels of exploitation. The large size, site specificity and catchability of most groupers increase susceptibility to fishing pressure, and a large number of grouper species throughout the world are currently overfished. Multiple species are listed as endangered or threatened, and many have suffered local extirpations across their range. Removal of these upper level predators can significantly alter community structure and result in second order effects that may have critical ecological implications. The economic and ecological …

Solvent Dependent Molecular Mechanics: A Case Study Using Type I Collagen, Heather Harper

USF Tampa Graduate Theses and Dissertations

Being the most abundant protein in the body, by mass, type I collagen provides the building blocks for tissues such as bone, extra-cellular matrix, tendons, cornea, etc[1-3]. The ability of a single protein to create structures with such various mechanical properties is not fully understood. Before one can engineer and assemble a complex tissue, such as cornea, the mechanisms underlying the formation and assembly, mechanical properties, and structure must be investigated and quantified. The work presented herein contains an extensive study of Type I collagen from the molecular to the tissue level.

The engineering of collagenous tissues that mimic the …

The Gut Of Geographically Disparate Ciona Intestinalis Harbors A Core Microbiota, Larry J. Dishaw, Jaime Flores-Torres, Simon Lax, Kristina Gemayel, Brittany Leigh, Daniela Melillo, M. Gail Mueller, Lenina Natale, Ivana Zucchetti, Rosaria De Santis, Maria Rosaria Pinto, Gary W. Litman, Jack W. Gilbert

Marine Science Faculty Publications

It is now widely understood that all animals engage in complex interactions with bacteria (or microbes) throughout their various life stages. This ancient exchange can involve cooperation and has resulted in a wide range of evolved host-microbial interdependencies, including those observed in the gut. Ciona intestinalis, a filter-feeding basal chordate and classic developmental model that can be experimentally manipulated, is being employed to help define these relationships. Ciona larvae are first exposed internally to microbes upon the initiation of feeding in metamorphosed individuals; however, whether or not these microbes subsequently colonize the gut and whether or not Ciona forms …

Diversity Of Environmental Single-Stranded Dna Phages Revealed By Pcr Amplification Of The Partial Major Capsid Protein, Max S. Hopkins, Shweta Kailasan, Allison Cohen, Simon Roux, Amelia E. Shevenell, Mavis Agbandje-Mckenna, Mya Breitbart

Marine Science Faculty Publications

The small single-stranded DNA (ssDNA) bacteriophages of the subfamily Gokushovirinae were traditionally perceived as narrowly targeted, niche-specific viruses infecting obligate parasitic bacteria, such as Chlamydia. The advent of metagenomics revealed gokushoviruses to be widespread in global environmental samples. This study expands knowledge of gokushovirus diversity in the environment by developing a degenerate PCR assay to amplify a portion of the major capsid protein (MCP) gene of gokushoviruses. Over 500 amplicons were sequenced from 10 environmental samples (sediments, sewage, seawater and freshwater), revealing the ubiquity and high diversity of this understudied phage group. Residue-level conservation data generated from multiple alignments …

Overwintering And Early Season Amplification Of Eastern Equine Encephalitis Virus In The Southeastern United States, Andrea Bingham

USF Tampa Graduate Theses and Dissertations

Eastern equine encephalitis virus (EEEV) is a highly pathogenic arbovirus that causes severe disease, with a mortality rate of approximately 30-35% in humans and 80-90% in horses. Studies dating back to the 1930's have identified many of the epidemiological and ecological aspects of the virus. However, there are several aspects of EEEV's transmission cycle that remain unclear. In the northeastern states, transmission is seasonal, peaking in the late summer months, while in Florida there is year-round transmission of EEEV. Recent phylogenetic studies have also suggested that Florida may serve as a reservoir for EEEV; the virus may periodically be introduced …

Pathogenic Mechanisms And Signaling Pathways In Plasmodium Falciparum, Jennifer L. Sedillo

USF Tampa Graduate Theses and Dissertations

Plasmodium falciparum is a human intracellular parasite that is the causative agent of a deadly form of malaria. This species alone is responsible for 200 million cases of malaria annually resulting in over 1 million deaths worldwide. The excessive mortality due to P. falciparum infection is due to its ability to cause severe pathogenesis through hyperparasitemia and cytoadherence defined as the ability of infected red blood cells to adhere to host vasculature. Cytoadherence is mediated through the export of parasite proteins to the surface of the infected red blood cell (RBC). Exported proteins have been identified but the pathway for …

Molecular Evidence For Vector Implication Of Onchocerca Lupi In Los Angeles County, Ca, Shanna June Bolcen

USF Tampa Graduate Theses and Dissertations

Onchocerca is a genus of roundworm most commonly associated with the human infection onchocerciasis, or river blindness. While typically a zoonotic infection of ungulate populations, canine cases (Onchocerca lupi) have been identified in the United States and Greece. In 2012, Los Angeles County, Veterinary Public Health Program identified 3 cases of Onchocerca spp. infections in domestic canines. Samples from the ensuing blackfly collections were sent to the Global Health Infectious Disease Research Unnasch Laboratory for parasite isolation and vector species identification. Species-specific primers were designed and optimized for O. lupi using a non- specific cytochrome oxidase (COI) gene target (689bp) …

Karenia Brevis Harmful Algal Blooms: Their Role In Structuring The Organismal Community On The West Florida Shelf, Alisha Marie Gray

USF Tampa Graduate Theses and Dissertations

Karenia brevis dinoflagellate blooms off the west coast of Florida can create devastating effects on marine communities when they release a neurotoxin known as a brevetoxin. These blooms, informally referred to as red tides, can cause massive fish kills, necessitate closures of shellfish fisheries, and can even leave lingering toxins that impact shelf communities long after the bloom has dissipated. As a result, much effort has been put into studying K. brevis bloom initiation and dynamics. However, how K. brevis blooms impact Florida's fisheries is not fully understood because the relationship between K. brevis cell counts and fish mortality is …

Sigma Factor N: A Novel Regulator Of Acid Resistance And Locus Of Enterocyte Effacement In Escherichia Coli O157:H7, Avishek Mitra

USF Tampa Graduate Theses and Dissertations

In enterohemorrhagic E. coli (EHEC) sigma factor N (σ^N) regulates glutamate-dependent acid resistance (GDAR) and the locus of enterocyte effacement (LEE), discrete genetic systems required for transmission and virulence of this intestinal pathogen. Regulation of these systems requires nitrogen regulatory protein C, NtrC, and is a consequence of NtrC/σ^N-dependent reduction in the activity of sigma factor S (σ^S). This study elucidates pathway components and stimuli for σ^N-directed regulation of GDAR and the LEE in EHEC. Deletion of fliZ, the product of which reduces σ^S activity, phenocopies rpoN (σ^N) …

Water Availability As The Driving Factor Of Growth And Physiological Function Of Co-Occurring Scrub Species In Central Florida, Tammy Foster

USF Tampa Graduate Theses and Dissertations

Florida scrub is a xeromorphic upland shrub community dominated by evergreen oaks that resprout after fire, occurring on moderately to excessively well-drained nutrient-poor sand. Scrub is home to several threatened and endangered animal species (e.g., Florida scrub-jay, gopher tortoise, and indigo snake) and rare and endemic plants. Urban development and agriculture has greatly reduced and fragmented scrub habitat, and because of this Florida scrub is considered one of the most endangered ecosystems in the United States. Climate change is a further threat to Florida scrub. Under a warmer and drier climate, scrub species will be exposed to more frequent and …