Digital Commons Network^™

Comparison Of Isotope-Based Biomass Pathways With Groundfish Community Structure In The Eastern Gulf Of Mexico, Sheri Ann Huelster

USF Tampa Graduate Theses and Dissertations

This study compared traditional community analysis with stable-isotope trophic analysis to define process-based trophic elements of community structure in the eastern Gulf of Mexico, and developed a predictive capability regarding changes to fish community structure that would be expected from increasing eutrophication. Specifically, it used an existing trawl survey program (SEAMAP) to compare invertebrate herbivore (sponge and sea urchin) isotopes with groundfish isotopes, and then compared the resulting spatial patterns with spatial variation in community structure, as identified by cluster analysis. The comparison was applied to seven NMFS survey zones that extended offshore from the Caloosahatchee River, FL northwest to …

Equifinality And Multifinality In Psychopathology: Can Cognitive And Emotional Processes Differentiate Internalizing, Externalizing, And Co-Occurring Psychopathology, Brittany Jordan-Arthur

USF Tampa Graduate Theses and Dissertations

Despite our knowledge of environmental risk factors for psychopathology, the equifinality and multifinality observed in the extant literature reveals how little is known about the role of these risk factors in the development of psychopathology. The purpose of this study was to identify processes that differentiate internalizing, externalizing and co-occurring psychopathology. Specifically, emotion identification skill and cognitive appraisal style were examined as processes where individual differences may contribute to the development of mental illness. To date no study has been conducted to examine whether emotion identification and appraisal style may differentiate forms of internalizing, externalizing and co-occurring psychopathology and lack …

Structure-Function Analysis Of The Dna Damage Repair Complex Str In Saccharomyces Cerevisiae, Jessica Ashley Kennedy

USF Tampa Graduate Theses and Dissertations

The RecQ family of helicases has been termed the “Caretakers of the Genome,” and rightfully so. These proteins are highly conserved from bacteria to humans and have been implicated in functions from homologous recombinatorial repair to damage checkpoint response to telomere maintenance and more. Mutant genes of three of the human RecQ helicases lead to syndromes characterized by a high incidence of cancer, premature aging and early death. Despite their implications in several biological functions and importance to the integrity of the human genome and suppression of cancer, many aspects of the RecQ family structure and function remain unknown. To …

The Role Of Anxiety Sensitivity In The Relationship Between Posttraumatic Stress Symptoms And Negative Outcomes In Trauma-Exposed Adults, Brittany Belle Kugler

USF Tampa Graduate Theses and Dissertations

Background: The development of posttraumatic stress symptoms (PTS) following a traumatic event is related to significant functional impairment, diminished quality of life, and physical health issues. Yet it is not entirely clear why some traumatized individuals experience negative outcomes while others do not. The purpose of this study is to determine the role of several influential factors related to PTS severity and negative outcomes, such as diminished quality of life and physical health issues, following traumatic events. Method: One hundred and twenty-two trauma-exposed adults were recruited through the University of South Florida’s SONA system and through flyers on campus. Subjects …

Investigation Of Post-Translational Modifications In Staphylococcus Aureus, Christina Nadia Krute

USF Tampa Graduate Theses and Dissertations

The work presented herein details post-translational modifications (PTMs) in Staphylococcus aureus that are involved in mediating the stress response and normal cellular processes. The first PTM that was investigated is regulated intramembrane proteolysis (RIP) for the activation of the ECF sigma factor σS. We achieved this by analyzing the role of the site-1 protease, which we termed “putative regulator of sigmaS” (PrsS), as it is predicted to be the first enzyme in the RIP cascade, leading to the activation of σS. It was determined that the putative site-1 protease, prsS, mimics transcriptional profiles of sigS; with expression low in all …

System Threats And Gender Differences In Sexism And Gender Stereotypes, Sophie Lois Kuchynka

USF Tampa Graduate Theses and Dissertations

In the United States, women’s persistent gains in structural power may cause backlash among those motivated to preserve the status quo. The proposed study examines the conditions that prompt men and women to endorse sexism and promote gender stereotypes. System justification theory proposes that people are motivated to justify the socio-political system that governs them and threats to the stability of their system can increase individual’s motivated defenses. I expect men to show the strongest motivated defenses when the hierarchy is threatened or viewed as unstable, because to protect group-based interests men will reinforce the legitimacy of the system through …

Schreibersite: Synthesis, Characterization And Corrosion And Possible Implications For Origin Of Life, Nikita Latesha La Cruz

USF Tampa Graduate Theses and Dissertations

We present study of the synthesis and reactions of an analog of the meteoritic mineral schreibersite with formula (Fe,Ni)3P, believed to be a prebiotic source of reactive phosphorus that may have prompted the formation of phosphorylated biomolecules near the time of the origin of life (Pasek and Lauretta, 2005). The mineral was synthesized by mixing stoichiometric proportions of elemental iron, nickel and phosphorus and heating in a tube furnace at 820°C for approximately 235 hours under argon or under vacuum, a modification of the method of Skála and Drábek (2002). The mineral was characterized using X-ray diffractometry (XRD), X-ray photoelectron …

Historical And Current Population Patterns Of The Staghorn Coral (_Acropora Cervicornis_) In Dry Tortugas National Park, Kaitlyn Lizza

USF Tampa Graduate Theses and Dissertations

Acropora cervicornis was once one of the dominant reef building corals of the Caribbean, Florida Keys, and Dry Tortugas (DRTO), but since the 1970’s populations have been decimated throughout their geographic range. Recently, a repopulation was documented through detailed benthic surveys conducted by the U.S. Geological Survey at three locations (Pulaski Shoal, East Key, and Loggerhead Key) within DRTO. Benthic surveys using the U.S Geological Survey’s Along-Track Reef Imaging System (ATRIS) revealed hundreds of previously undocumented colonies.

These discoveries have provided a unique data-set, allowing a comparison between the historical (1883, 1976) and contemporary distributions (2009, 2011) of A. cervicornis. …

Effects Of Solids Retention Time And Feeding Frequency On Performance And Pathogen Fate In Semi-Continuous Mesophilic Anaerobic Digesters, Nathan Daniel Manser

USF Tampa Graduate Theses and Dissertations

Anaerobic digestion is a biochemical process in which organic carbon is biodegraded in an oxygen free environment through a microbial consortium. Engineered biological systems used for resource recovery often utilize anaerobic digestion to treat anthropogenic organic wastes by reclaiming the carbon as energy (methane gas) and a soil amendment (biosolids). Small-scale, or household, semi-continuous anaerobic digesters have been used in developed and developing countries for many decades to produce biogas from human and livestock waste, which is used for heating, lighting, and cooking. This application has been shown to improve the quality of life of the user. Although there is …

Rapid Root Elongation By Phreatophyte Seedlings Does Not Imply Tolerance Of Water Table Decline, Caroline A. Canham, Raymond H. Froend, William D. Stock

Research outputs 2014 to 2021

Key message Despite high rates of root elongation during phreatophyte establishment once connection to groundwater has occurred and leaf area develops, seedlings demonstrate limited capacity for root elongation in response to groundwater decline.

Abstract In a water-limited environment, rapid root elongation immediately after germination can be critical for a plant to reach deeper water sources such as a water table to avoid water deficit stress. However, once plants have accessed a water table, their continued survival may depend on their ability to adapt their root distribution to changes in the depth to a water table. In glasshouse experiments using two …

Diagnostic Value Of Subjective Memory Complaints Assessed With A Single Item In Dominantly Inherited Alzheimer's Disease: Results Of The Dian Study, Christoph Laske, Hamid R. Sohrabi, Mateusz S. Jasielec, Stephan A. Müller, Niklas K. Koehler, Susanne Gräber, Stefan L. Förster, Alexander E. Drzezga, Felix Mueller-Sarnowski, Adrian Danek, Mathias Jucker, Randall J. Bateman, Virginia D. Buckles, Andrew J. Saykin, Ralph Martins, John C. Morris

Research outputs 2014 to 2021

Objective. We examined the diagnostic value of subjective memory complaints (SMCs) assessed with a single item in a large cross-sectional cohort consisting of families with autosomal dominant Alzheimer's disease (ADAD) participating in the Dominantly Inherited Alzheimer Network (DIAN). Methods. The baseline sample of 183 mutation carriers (MCs) and 117 noncarriers (NCs) was divided according to Clinical Dementia Rating (CDR) scale into preclinical (CDR 0; MCs: n = 107; NCs: n = 109), early symptomatic (CDR 0.5; MCs: n = 48; NCs: n = 8), and dementia stage (CDR ≥ 1; MCs: n = 28; NCs: n = 0). These groups …

Postmitotic Expression Of Sod1g93a Gene Affects The Identity Of Myogenic Cells And Inhibits Myoblasts Differentiation, M. Martini, G. Dobrowolny, M. Aucello, Antonio Musaro

Research outputs 2014 to 2021

To determine the role of mutant SOD1 gene (SOD1G93A) on muscle cell differentiation, we derived C2C12 muscle cell lines carrying a stably transfected SOD1G93A gene under the control of a myosin light chain (MLC) promoter-enhancer cassette. Expression of MLC/SOD1G93A in C2C12 cells resulted in dramatic inhibition of myoblast differentiation. Transfected SOD1G93A gene expression in postmitotic skeletal myocytes downregulated the expression of relevant markers of committed and differentiated myoblasts such as MyoD, Myogenin, MRF4, and the muscle specific miRNA expression. The inhibitory effects of SOD1G93A gene on myogenic program perturbed Akt/p70 and MAPK signaling pathways which promote differentiation cascade. Of note, …

Deep Convolutional Neural Networks For Annotating Gene Expression Patterns In The Mouse Brain, Tao Zeng, Rongjian Li, Ravi Mukkamala, Jieping Ye, Shuiwang Ji

Computer Science Faculty Publications

Background: Profiling gene expression in brain structures at various spatial and temporal scales is essential to understanding how genes regulate the development of brain structures. The Allen Developing Mouse Brain Atlas provides high-resolution 3-D in situ hybridization (ISH) gene expression patterns in multiple developing stages of the mouse brain. Currently, the ISH images are annotated with anatomical terms manually. In this paper, we propose a computational approach to annotate gene expression pattern images in the mouse brain at various structural levels over the course of development.

Results: We applied deep convolutional neural network that was trained on a large set …

Inflamation And Oxidative Stress : The Molecular Connectivity Between Insulin Resistance, Obesity And Alzheimer's Disease, Guiseppe Verdile, Kevin N. Keane, Vinicius F. Cruzat, Sandra Medic, Miheer Sabale, Joanne Rowles, Nadeeja Wijesekara, Ralph Martins, Paul E. Fraser, Philip Newsholme

Research outputs 2014 to 2021

Type 2 diabetes (T 2 DM), Alzheimer’s disease (AD), and insulin resistance are age-related conditions and increased prevalence is of public concern. Recent research has provided evidence that insulin resistance and impaired insulin signalling may be a contributory factor to the progression of diabetes, dementia, and other neurological disorders. Alzheimer’s disease (AD) is the most common subtype of dementia. Reduced release (for T 2 DM) and decreased action of insulin are central to the development and progression of both T 2 DM and AD. A literature search was conducted to identify molecular commonalities between obesity, diabetes, and AD. Insulin resistance …

Evolution Of Testosterone Treatment Over 25 Years: Symptom Responses, Endocrine Profiles And Cardiovascular Changes, Malcolm Carruthers, Paul Cathcart, Mark R. Feneley

Research outputs 2014 to 2021

Introduction: Testosterone treatment has evolved rapidly over the past 25 years as new, more effective and convenient methods have become available. This study reports experience with seven different methods, introduced on the market in the UK. Aim: To establish the symptom response when testosterone treatment was initiated on the basis of clinical features and symptoms of androgen deficiency, and the resulting endocrine, biochemical and physiological responses. Methods: Of 2693 patients attending the 3 Men’s Health Centers – The UK Androgen Study (UKAS), 2247 were treated. Treatments included pellet implants, oral testosterone undecanoate (Testocaps), mesterolone (Proviron), testosterone gel (Testogel), testosterone scrotal …

A Dynamic Programming Algorithm For Finding The Optimal Placement Of A Secondary Structure Topology In Cryo-Em Data, Abhishek Biswas, Desh Ranjan, Mohammad Zubair, Jing He

Computer Science Faculty Publications

The determination of secondary structure topology is a critical step in deriving the atomic structures from the protein density maps obtained from electron cryomicroscopy technique. This step often relies on matching the secondary structure traces detected from the protein density map to the secondary structure sequence segments predicted from the amino acid sequence. Due to inaccuracies in both sources of information, a pool of possible secondary structure positions needs to be sampled. One way to approach the problem is to first derive a small number of possible topologies using existing matching algorithms, and then find the optimal placement for each …

Fabrication Of Tissue Precursors Induced By Shape-Changing Hydrogels, Olukemi O. Akintewe

USF Tampa Graduate Theses and Dissertations

Scaffold based tissue reconstruction inherently limits regenerative capacity due to inflammatory response and limited cell migration. In contrast, scaffold-free methods promise formation of functional tissues with both reduced adverse host reactions and enhanced integration. Cell-sheet engineering is a well-known bottom-up tissue engineering approach that allows the release of intact cell sheet from a temperature responsive polymer such as poly-N-isopropylacrylamide (pNIPAAm). pNIPAAm is an ideal template for culturing cell sheets because it undergoes a sharp volume-phase transition owing to the hydrophilic and hydrophobic interaction around its lower critical solution temperature (LCST) of 32°C, a temperature close to physiological temperature. Compared to …

Glomalin Accumulated In Seagrass Sediments Reveals Past Alterations In Soil Quality Due To Land-Use Change, Lourdes López-Merino, Oscar Serrano, María Fernanda Adame, Miguel-Ángel Mateo, Antonio Martínez Cortizas

Research outputs 2014 to 2021

Arbuscular mycorrhizal fungi (AMF), symbionts with most terrestrial plants, produce glomalin-related soil protein (GRSP), which plays a major role in soil structure and quality. Both fungi hyphae and protein production in soils are affected by perturbations related to land-use changes, implying that GRSP is a sensitive indicator of soil quality. Unfortunately, GRSP degrades within years to decades in oxic environments, preventing its use as palaeoecological proxy. However, GRSP is transported to marine, near-shore anoxic sediments, where it accumulates and remains non-degraded, enabling the assessment of its potential as a palaeoecological proxy for soil ecosystem's health. Exploiting this fact, we have …

Assessment Of Public Health Risks Associated With Petrochemical Emissions Surrounding An Oil Refinery, Erin L. Pulster

USF Tampa Graduate Theses and Dissertations

Refinery operations have been associated with a wide variety of atmospheric emissions consisting of criteria air pollutants, volatile organic components, hazardous air pollutants as well as other pollutants. With approximately 100 oil refineries in the Wider Caribbean region (WCR), hydrocarbons in this region pose significant environmental and human health risks. One of the oldest and largest refineries in the WCR is the Isla Refineriá, which is located on the island of Curaçao, and has been the basis of historical debates and conflict between the public and the local government over the environmental and human health risks. This research aims to …

Ikaros Deficiency Leads To An Imbalance In Effector And Regulatory T Cell Homeostasis In Murine Pancreatic Cancer, Nadine D. Nelson

USF Tampa Graduate Theses and Dissertations

Pancreatic cancer is one of the deadliest cancers with a five-year survival rate of 6%. Pancreatic cancer is resistant to conventional chemotherapy and is usually diagnosed at late stages. Current treatment options have minimal effects in extending patients' lives beyond 10 months. One significant limitation in developing treatments to combat pancreatic cancer is its immunosuppressive microenvironment. Pancreatic cancer secretes factors that activate immunosuppressive cells, such as regulatory T cells (Tregs). These Tregs suppress effector CD4⁺ and CD8⁺ T cell anti-tumor immune responses. Therefore, novel treatment options to reduce Treg-mediated immune suppression and increase the numbers and functions of …

Individual Differences In The Dopaminergic Reward System: The Effect Of Genetic Risk On Neural Reward Sensitivity And Risky Choice, Heather E. Soder

USF Tampa Graduate Theses and Dissertations

When making decisions, individuals evaluate several possible outcomes of their choice; however, some display heightened reward sensitivity, despite the potential for future negative consequences, which can lead one to make risky choices. Rewards are processed in the mesolimbic dopamine reward system, and this system is in part modulated by genetic polymorphisms that are associated with dopamine transmission. The current study tested if genetic polymorphisms that are associated with enhanced dopamine neurotransmission will be more neurally reward sensitive, score higher on self-reported impulsivity, and make riskier choices. In a sample of 85 participants, five genetic polymorphisms were genotyped and used to …

The Role Of Brct-Containing Proteins Brca1 And Paxip1 In Cancer, Ankita Jhuraney

USF Tampa Graduate Theses and Dissertations

Modular domains of proteins are important in cellular signaling processes. Eukaryotic cells are constantly undergoing DNA damage due to exogenous and endogenous sources of damage. The DNA damage response (DDR) involves a complex network of signaling events mediated by modular domains such as the BRCT (BRCA1 C-terminal) domains. Therefore, proteins containing BRCT domains are important for DNA damage detection and signaling. In this dissertation, we focus on two BRCT-containing proteins BRCA1 and PAXIP1. BRCA1 is a gene that is known to be associated with increased risk of hereditary breast and ovarian cancer. Germline variants of BRCA1 are assessed to determine …

Population Dynamics Of The Little Gulper Shark (Centrophorus Uyato) And Community Analyses Of Elasmobranch Species In The Northern Gulf Of Mexico, Jacquelin Joye Hipes

USF Tampa Graduate Theses and Dissertations

In chapter 1 I describe the population dynamics of an understudied species of gulper shark, Centrophorus uyato (common name, the Little Gulper), found in the Northern Gulf of Mexico. Sharks in the family Centrophoridae are mid-sized, demersal fish, with seven species identified in North American waters. These deepwater species can be difficult to study due to the extreme depths at which they occur. During four longlining cruises from 2012-2014, 593 sharks were landed, predominantly in the Mississippi Canyon off the Louisiana coast. Mean depth of capture was 290 m. Supplementing these data are catch records for C. uyato from a …

Genetic Moderation Of Phenotypic And Neural Indicators Of Peer Influenced Risk-Taking Behavior: An Experimental Investigation, Troy Alan Webber

USF Tampa Graduate Theses and Dissertations

Risk-taking behavior (RTB) is defined as behavior involving the probability of reward with concurrent probability of some negative outcome. Peer influence is among the most robust predictors of RTB, such that greater peer influence, particularly deviant or delinquent peer influence, is associated with increased RTB. Evidence suggests that those with genetic predispositions for RTB may also be more susceptible to peer influence as a function of genotype. Given that genetic polymorphisms within the dopaminergic system have evidenced associations with various forms of RTB and delinquent peer affiliation, it is possible that these genes may interact with peer influence to predict …

Southern Chivalry: Perception Of Health & Environmental Justice In A Small Southern Neighborhood, Brian S. Brijbag

USF Tampa Graduate Theses and Dissertations

This paper analyzes heath risk and how it is communicated to, and understood within, a predominantly African American neighborhood in central Florida. Residents accuse the county department of public works of purposeful contamination and discrimination over a period of 30 years. I raise the questions of how risk is perceived and what roles race or class may play. I also developed a model for risk communication that includes all stakeholders. Finally, I expand the conversation of health disparities to include issues of widening gaps in perceptions of health.

This was examined by looking at the following:

1. The lack of …

Understanding The Role Of Colloidal Particles In Electroporation Mediated Delivery, Alisha Peterson

USF Tampa Graduate Theses and Dissertations

Electroporation (EP) is a physical non-viral technique used to deliver therapeutic molecules across the cell membrane. During electroporation an external electric field is applied across a cell membrane and it causes pores to form. These pores then allow the surrounding media containing the therapeutics to diffuse across the membrane. This technique has been specifically studied as a promising gene and drug delivery system. Colloidal particles have also proven to be promising for a variety of biological applications including molecular delivery, imaging, and tumor ablation, due to their large surface area and tunable properties. In more recent years researchers have explored …

Comparison Of Gastropod Assemblages From Natural And Phosphate Mine Lakes Of Central Florida, William A. Mailand

USF Tampa Graduate Theses and Dissertations

Investigations were made examining the relationships between gastropod species richness and abundance across 20 phosphate and 20 natural lakes in Central Florida. In additional to lake category, age of phosphate lakes was used to determine if phosphate lakes ever approximate natural lakes. Additional physical, chemical, and biological parameters, including chlorophyll a, Ca, secchi, phosphorous, conductance, fish predation, and recreational lake use were investigated in order to determine if they affected gastropods with lake age. Comparisons were also made between gastropod species richness and average abundance and two groups of dominant vegetation categories: Panicum, a structurally complex macrophyte, and Typha …

Direct Membrane Filtration Of Domestic Wastewater: Implications For Coupling With Anaerobic Membrane Bioreactor (Df-Anmbr) For Wastewater Resource Recovery, George H. Dick

USF Tampa Graduate Theses and Dissertations

With the growing use of membranes in the water industry, different methods for using membranes to treat water is still occurring. Enhancing membrane performance is generally performed with extensive pretreatment methods before the feedwater is filtered by the membrane. With the utilization of direct membrane filtration (DF), no pretreatment is performed and the membrane is exposed to raw wastewater. While this may suggest that membrane performance and permeate quality would suffer in the process, DF testing with a 0.03 µm ultrafiltration PVDF membrane showed that relatively high membrane flux was sustained while producing a high quality effluent. Due to the …

Targeting T-Bet For Prevention Of Graft-Versus-Host Disease And Leukemia Relapse After Allogeneic Hematopoietic Stem Cell Transplantation, Jianing Fu

USF Tampa Graduate Theses and Dissertations

Allogeneic hematopoietic stem cell transplantation (allo-HSCT) is an effective therapeutic option for many malignant diseases. However, the efficacy of allo-HSCT is limited by the occurrence of destructive graft-versus-host disease (GVHD). Since allogeneic T cells are the driving force in the development of GVHD, their activation, proliferation, and differentiation are key factors to understanding GVHD pathogenesis. On the other hand, antigen-presenting cells (APCs) are essential for allogeneic T-cell priming and the development of GVHD. The T-box transcription factor T-bet is a master regulator for IFN-γ production and Th1 differentiation. T-bet also regulates the functions of APCs including dendritic cells (DCs) and …

Efficacy And Resistance Potential Of Jpc-3210 In Plasmodium Falciparum, Siobhan Marie Flaherty

USF Tampa Graduate Theses and Dissertations

Combating drug resistant malaria has been historically challenging, and remains so today. Recent reports from Southeast Asia show that Plasmodium falciparum is developing resistance to even our best defenses; artemisinin-based therapies. This development threatens to become a significant challenge in controlling malaria infections worldwide, making research into developing and characterizing new antimalarial drugs increasingly important. The purpose of this study was to characterize the resistance potential of novel antimalarial compound JPC-3210 in vitro using P. falciparum clones. JPC-3210 is a new long acting drug with potential to be used in combination with fast-acting drugs like artemisinins to cure drug resistant …