Digital Commons Network^™

Targeting Autopalmitoylation To Modulate Protein S-Palmitoylation, Laura Dawn Hamel

USF Tampa Graduate Theses and Dissertations

Palmitoylation refers to the covalent attachment of fatty acids, such as palmitate, onto the cysteine residues of proteins. This process may subsequently alter their localization and function. Nearly all of the enzymes that catalyze palmitoylation, zDHHC protein acyl transferases (PATs), are implicated in neurological disorders, infectious diseases, and cancer in humans. Of particular interest to those who study palmitoylation are Ras family GTPas and zDHHC9-GCP16, the zDHHC PAT that palmitoylates Ras proteins. Erf2-Erf4 is the zDHHC PAT that palmitoylates Ras proteins in Saccharomyces cerevisiae. Currently, there are no methods to therapeutically target palmitoylation for the treatment of disease. One …

Use Of Spirometry For Medical Clearance And Surveillance In Occupations Requiring Respirator Use, Ushang Prakshbhai Desai

USF Tampa Graduate Theses and Dissertations

Medical certification of workers for respirator use is an important activity of occupational medicine health professionals. Spirometry is a diagnostic tool to evaluate respiratory distress/insufficiency that may affect respirator use. In this study, we analyzed the pulmonary function data of 337 workers from different occupations which required medical evaluation to wear a respirator. The American Thoracic Society and National Fire Protection Association criteria were used to evaluate employees. Of 337 workers who were cleared for respiratory use on the basis of medical questionnaires for respirator compliance, 14 (4.15%) failed to pass respirator compliance on the basis of NFPA criteria and …

Molecular And Phenotypic Studies Validating The Role Of The Ecdysone Receptor In The Human Parasite Brugia Malayi, Amruta Mhashilkar

USF Tampa Graduate Theses and Dissertations

Filariasis and onchocerciasis are debilitating diseases affecting 120 million people globally. The massive socio-economic impact of these diseases energized the international community to declare a goal of eliminating filariasis 2020. This resulted in a dramatic increase in the efforts to eliminate filariasis and onchocerciasis, employing a strategy of mass drug administration (MDA). However, these programs rely upon the small arsenal of drugs. This leaves these programs vulnerable to failure in the face of developing resistance and local intolerance to the current drug regimens. Thus, new drugs against these infections are critically needed. A homologue of the ecdysone receptor (EcR), a …

Near-Field Microwave Microscopy For Surface And Subsurface Characterization Of Materials, Maria Fernanda Cordoba Erazo

USF Tampa Graduate Theses and Dissertations

This dissertation presents an investigation on the capabilities of Near-Field Microwave Microscopy (NFMM) for the characterization of surface and subsurface materials. Subsurface characterization refers to the detection, differentiation and imaging of dielectric, and metallic features that are coated with an insulating layer. The design, simulation and modeling, and testing of a dielectric resonator (DR)-based NFMM and a coaxial transmission line resonator-based NFMM are discussed in detail in this work. Additionally, materials differentiation and imaging capabilities of each microscope are examined using several bulk samples, liquids, GaAs MMIC circuits, and gold/glass testing patterns.

The 5.7 GHz DR-based NFMM uses a microwave …

Computational Methods For Biomarker Identification In Complex Disease, Amin Ahmadi Adl

USF Tampa Graduate Theses and Dissertations

In a modern systematic view of biology, cell functions arise from the interaction between molecular components. One of the challenging problems in systems biology with high-throughput measurements is discovering the important components involved in the development and progression of complex diseases, which may serve as biomarkers for accurate predictive modeling and as targets for therapeutic purposes. Due to the non-linearity and heterogeneity of these complex diseases, traditional biomarker identification approaches have had limited success at finding clinically useful biomarkers. In this dissertation we propose novel methods for biomarker identification that explicitly take into account the non-linearity and heterogeneity of complex …

Hepatic Nutrient And Hormonal Regulation Of The Pancreatic-Derived Factor (Pander) Promoter, Whitney Ratliff

USF Tampa Graduate Theses and Dissertations

PANcreatic-DERived factor (PANDER, FAM3B) has been shown to regulate glycemic levels via interactions with both pancreatic islets and the liver. Although PANDER is predominantly expressed from the endocrine pancreas, recent work has provided sufficient evidence that the liver may also be an additional tissue source of PANDER production. At physiological levels, PANDER is capable of disrupting insulin signaling and promoting increased hepatic glucose production. As shown in some animal models, strong expression of PANDER, induced by viral delivery within the liver, induces hepatic steatosis. However, no studies to date have explicitly characterized the transcriptional regulation of PANDER from the liver. …

Now, We Hear Through A Voice Darkly: New Media And Narratology In Cinematic Art, James Anthony Ricci

USF Tampa Graduate Theses and Dissertations

This dissertation explores the intersection of new media and narrative, as it is presented through a cinematic aesthetic. The narrative language of film is analyzed through the theoretical framework of Bakhtin’s concepts of Heteroglossia, Chronotope, and Dialogism. Bakhtin’s ideas of classifying language act as strong tools for demonstrating how cinematic narrative can inform and alter the perception of its spectators. Lev Manovich’s principles of New Media, specifically Variability, Modularity, and Automation are also utilized to demonstrate how cinema is a constantly evolving paradigm.

Chapter one focuses on the theoretical terminology, outlining the conceptual definitions and illustrating their relevance in precise …

Novel Enzyme Perspectives: Arylalkylamine N-Acyltransferases From Bombyx Mori & 1-Deoxy- D-Xylulose-5-Phosphate Synthase From Plasmodium Falciparum And Plasmodium Vivax, Matthew R. Battistini

USF Tampa Graduate Theses and Dissertations

This dissertation is dedicated to the research and investigation of novel enzymes and the methods used to study them, with physiological roles ranging from isoprenoid biosynthesis to neurotransmitter production. Using a combination of bioinformatics, recombinant cloning, enzymology, and proteomics, we have contributed to the understanding and exploration of several human illnesses, including malaria, cancer, and endocrine dysfunction.

Our first project involved studying the enzymes responsible for N-acylarylalkylamide biosynthesis in Bombyx mori. Very little is known how these potent signaling molecules are produced in vivo, however, one possible pathway is the direct conjugation of an acyl-CoA to a corresponding …

Population Genetics And Epigenetics Of Two Salt Marsh Plant Species Along An Environmental Gradient, Christy M. Foust

USF Tampa Graduate Theses and Dissertations

Phenotypic plasticity is the ability of a given genotype to exhibit different phenotypes in response to environmental variables, which can impact population level processes. Plasticity of ecologically-relevant traits is important to an organism’s environmental response; however, the underlying mechanisms of plasticity are largely unknown. Ecological epigenetics may offer mechanisms (e.g. DNA methylation) underlying phenotypic plasticity. Epigenetics can be defined as the underlying molecular mechanisms that allow one genotype to exhibit different phenotypes. Differential DNA methylation is one epigenetic mechanism that has been correlated with a number of ecologically-relevant traits; including, differential herbivory in Viola cazorlensis, spinescence in Ilex aquifolium …

Phosphorus Sorption Dynamics In Shallow Groundwater, Coastal Everglades, Florida, Usa, Hilary Flower

USF Tampa Graduate Theses and Dissertations

For this dissertation I studied phosphorus (P) sorption dynamics in the shallow groundwater of the southern Everglades. In particular, I examined how the ambient water type governs soluble reactive P (SRP) availability through adsorption/desorption reactions with the aquifer matrix. Chapter 2 investigated how P sorption dynamics of the mangrove root zone sediment are affected by high bicarbonate brackish groundwater compared to both fresh groundwater and saltwater. The results from chapter 2 show that the sediment exhibited exceptionally low sorption efficiency in the high bicarbonate brackish water, which would allow ambient water SRP concentration to be maintained at a higher level. …

Analysis Of Rheumatoid Arthritis Data Using Logistic Regression And Penalized Approach, Wei Chen

USF Tampa Graduate Theses and Dissertations

In this paper, a rheumatoid arthritis (RA) medicine clinical dataset with an ordinal response is selected to study this new medicine. In the dataset, there are four features, sex, age,treatment, and preliminary. Sex is a binary categorical variable with 1 indicates male, and 0 indicates female. Age is the numerical age of the patients. And treatment is a binary categorical variable with 1 indicates has RA, and 0 indicates does not have RA. And preliminary is a five class categorical variable indicates the patient’s RA severity status before taking the medication. The response Y is 5 class ordinal variable shows …

Understanding How Young People Experience Risk With Online-To-Offline Sexual Encounters: A Second Qualitative Phase For The Ch@T Project, Elizabeth Vp Marwah

USF Tampa Graduate Theses and Dissertations

This study investigates how heterosexual young people understand and manage risks related to meeting sexual partners online in the United States. The purpose of this study is to help inform the development of culturally-appropriate sexual risk communication and health promotion messages for young people by linking public health knowledge of adolescent sexual health and eHealth with anthropological theories of risk. With qualitative data from two rounds of semi-structured interviews and two group interviews with university students in central Florida, this study shows how young people experience and prioritize more social-emotional risks in meeting online-to-offline sexual partners compared to physical risks. …

North American River Otter (Lontra Canadensis) Presence And Habitat Analysis In Florida As Compared To Historical Data, Samantha Wilber

USF Tampa Graduate Theses and Dissertations

North American river otters are considered common in the state of Florida, but their populations have not been studied since the 1980’s. Since that time, Florida’s human population has more than doubled, and many natural areas of Florida have been developed. The aim of this study was to determine the presence or absence of river otters at locations in Florida which they historically inhabited. Forty-six sample sites where otters were historically found were obtained from the Florida Museum of Natural History Mammals Master Database (FMNH MMD). These sites were condensed to two focus areas, in and around Alachua and Collier …

Ensemble Learning Method On Machine Maintenance Data, Xiaochuang Zhao

USF Tampa Graduate Theses and Dissertations

In the industry, a lot of companies are facing the explosion of big data. With this much information stored, companies want to make sense of the data and use it to help them for better decision making, especially for future prediction. A lot of money can be saved and huge revenue can be generated with the power of big data. When building statistical learning models for prediction, companies in the industry are aiming to build models with efficiency and high accuracy. After the learning models have been developed for production, new data will be generated. With the updated data, the …

Influence Of Water Column Stratification And Nutrient Gradients On The Migratory Behavior Of The Red Tide Dinoflagellate, Karenia Brevis, Matthew Garrett

USF Tampa Graduate Theses and Dissertations

Diel vertical migration (DVM) can offer motile phytoplankton a competitive advantage over other phytoplankton species. DVM has been well documented in the harmful dinoflagellate, Karenia brevis; however, the extent to which changes in nutrient regimes and density stratification modify migration patterns has not been thoroughly investigated. A 2 m experimental column was constructed with sensors and sampling ports at four depths to obtain fluorescence and temperature measurements and discrete water samples. The environmental parameters of the experimental column represented temperature and nutrient conditions found on the West Florida Shelf (WFS), where Karenia blooms frequently occur. Results demonstrated a clear …

School-Based Concussion Management: Implementation Characteristics Of Student Services Personnel, Jeffrey Garofano

USF Tampa Graduate Theses and Dissertations

Concussion is an injury that disproportionately affects children and adolescents and has the potential to negatively impact school performance. Currently, a significant proportion of youth with concussion go unreported due to a lack of effective concussion surveillance procedures. Additionally, many individuals who have daily contact with youth (e.g., parents, teachers) lack training in how to assess or manage a concussion. Schools may be the ideal setting to address both of these problems as they have a high level of access to students and employ personnel (e.g., school psychologists, nurses, social workers, counselors) with experience in assessment and intervention. What is …

At The Intersection Of Human Agency And Technology: Genetically Modified Organisms, James Libengood

USF Tampa Graduate Theses and Dissertations

Since the Neolithic period and the rise of agriculture along Mesopotamia’s “Fertile Crescent,” greater societies have formed thus requiring laws and governance to ensure their continued preservation. The Babylonian Code of Hammurabi is one such example of how agricultural technologies directly created new social and institutional structures in codifying slavery into law, or how mercantile transactions are to be conducted. Similarly, GMOs are the result of modern agricultural technologies that are altering laws and society as a result of their implementation. This transformation informs the central inquiries of my research question: Why are GMOs necessary, and what influences do they …

Land-Use & Water Quality In The Headwaters Of The Alafia River Watershed, Jaime Alison Swindasz

USF Tampa Graduate Theses and Dissertations

The objective of this study is to investigate land-use changes and water quality trends within the headwaters of the Alafia River watershed. Water quality data were obtained from the Environmental Protection Commission of Hillsborough County (EPCHC). Eleven water quality parameters selected for analysis included: temperature (˚C), dissolved oxygen (DO), percent saturation of DO, conductivity, pH, total phosphorous (TP), total nitrogen (TN), ammonium, chlorophyll-a (uncorrected), fecal coliforms, and enterococci. ArcMap® & SWFWMD data were used to map EPCHC sampling stations, calculate contributing watershed size, and determine land-use changes over the course of the sampling period; 17 stations were chosen for this …

Identifying Humanized Ecosystems: Anthropogenic Impacts, Intentionality, And Resource Acquisition At Crystal River (8ci1) And Roberts Island (8ci41), Charles Trevor Duke

USF Tampa Graduate Theses and Dissertations

The impact of human activity on ecosystems is an issue at the forefront of global concern. Marine ecosystems are a particular concern, given their importance for human sustenance. Through the removal of species that are highly susceptible to the effects of overfishing, global fisheries have been driven to near collapse in recent decades. The long-term effects of such practices has resulted in declines in mean trophic level of aggregate fish catches over time, as well as decreasing diversity of species available for regular harvest (Jackson et al. 2001; Pauly et al. 1998). These supposedly “modern” problems have been recently identified …

In Situ Studies Of Limestone Dissolution In A Coastal Submarine Spring, Rachel Marie Schweers

USF Tampa Graduate Theses and Dissertations

Limestone dissolution in karst environments is likely due to geochemistry of the water, the actions of microbial communities, and the effect of water flow. We explored the rate of limestone dissolution and will examine here the microbial communities associated with the limestone. A conduit within the brackish cave, Double Keyhole Spring, on the coast of central west Florida was the site of the experiment. PVC pipes (5cm x 16cm) were filled with crushed limestone that was screened to a 1.9cm – 2.54cm size range. There were three treatments (5 replicates each): Control - sealed autoclaved controls with limestone and conduit …

Basal Salivary Oxytocin And Skin To Skin Contact Among Lactating Mothers Of Premature Infants, Jessica Marie Gordon

USF Tampa Graduate Theses and Dissertations

This dissertation research explored mechanisms of human milk (HM) expulsion by describing the effects of skin to skin contact (SSC) on maternal basal oxytocin (OT) secretion among 20 premature mothers with hospitalized premature infants. This one-group, repeated measures design consisted of: 1) daily SSC with covariant data via self-report diary and 2) maternal salivary OT with and without SSC at 4 time points were collected over a 7 day time frame. Results indicate that mean levels of basal OT increase over time (M 234 pg/ml, SD 108 pg/ml time point 1; M 257 pg/ml, SD 125 pg/ml time point 3). …

Adolescent Females With High-Functioning Asd: Self And Mothers’ Perspectives Of Their School And Social Experiences, Lindsey Land

USF Tampa Graduate Theses and Dissertations

Although the prevalence of Autism Spectrum Disorder (ASD) is currently 1 in 68 (Centers for Disease Control, 2015) and research in this area is growing, high-functioning individuals on the spectrum are often overlooked. This is because of their relatively milder symptoms. The recent collapse of Asperger Syndrome (AS) with autism in the most recent version of the Diagnostic and Statistical Manual (DSM-5; APA, 2013) also has obscured the differences that may exist between those with higher vs. lower levels of functioning. Among youth with High-Functioning Autism Spectrum Disorder (HFASD), girls are a particularly understudied and potentially vulnerable group. Previous research …

Emergent Insect And Neotropical Migratory Bird Interactions And Responses To Habitat, Hydrology, And Progressive Urbanization In The Tampa Bay Region, Nathaniel Lee Goddard

USF Tampa Graduate Theses and Dissertations

The growing human population threatens the many of the earth’s biological systems. In the last 600 years extinction rates risen from 1 extinction per million species per year (E/MSY) in the 1400’s to 50 E/MSY today. During this time period 1.5% of all known birds have gone extinct, because they could not adapt quickly enough to human mediated changes. The goal of this dissertation was to determine how urbanization and anthropogenic services needed to support urban areas impact cypress dome wetland aquatic insect and migratory bird populations that depend on them. In Central Florida cypress dome hydroperiods are driven by …

Prediction Of The Optimum Binder Content Of Open-Graded Friction Course Mixtures Using Digital Image Processing, Yolibeth Mejias De Pernia

USF Tampa Graduate Theses and Dissertations

Florida Department of Transportation (FDOT) has been using Open Graded Friction Course (OGFC) mixture to improve skid resistance of asphalt pavements under wet weather. The OGFC mixture design strongly depends on the Optimum Binder Content (OBC) which represents if the mixture has sufficient bonding between the aggregate and asphalt binder. At present, the FDOT designs OGFC mixtures using a pie plate visual draindown method (FM 5-588). In this method, the OBC is determined based on visual inspection of the asphalt binder draindown (ABD) configuration of three OGFC samples placed on pie plates with pre-determined trial asphalt binder contents (AC). The …

Getting Ahead: Socio-Economic Mobility, Perceptions Of Opportunity For Socio-Economic Mobility, And Attitudes Towards Public Assistance In The United States, Alissa Klein

USF Tampa Graduate Theses and Dissertations

In this research I first examine how Americans’ perceptions of what it takes to get ahead are influenced by their income and then compare those perceptions to measured levels of intergenerational socio-economic mobility. By better understanding these relationships I hope to gain insight into the paths people see to upward mobility, how this varies by income, and to what extent this belief is reflected in past mobility measurements. Additionally, I compare perceptions of what it takes to get ahead with responses regarding attitudes towards public assistance. The results of such a comparison could have important implications for public policy.

The …

High-Solids Anaerobic Digestion Of The Organic Fraction Of Municipal Solid Waste State Of The Art, Outlook In Florida, And Enhancing Methane Yields From Lignocellulosic Wastes, Gregory Richard Hinds

USF Tampa Graduate Theses and Dissertations

Anaerobic digestion (AD) is a biotechnology that employs natural microbial metabolism under oxygen-free conditions to stabilize organic waste. AD has been shown to be the most environmentally sustainable technology for treating the organic fraction of municipal solid waste (OFMSW), as it allows for the recovery of energy and nutrients from the waste. AD of OFMSW also saves landfill space and reduces leachate generation and fugitive methane emissions from landfills. High-solids AD (HS-AD) technologies (those designed to process feedstocks with >15% total solids content) have been shown to yield additional benefits when compared with liquid AD (L-AD) for treating OFMSW, including …

A Bat-Guano-Derived Δ15N And Δ13C Record Of Paleoenvironmental Change: Zidită Cave, Romania, Daniel Martin Cleary

USF Tampa Graduate Theses and Dissertations

Because nitrogen isotopes are fractionated along the soil-plant-insect-bat-guano pathway, it may be possible to reconstruct environmental and climatic changes reflected in the nitrogen isotopic composition of guano. A 1.5-m core of bat guano from Zidită Cave (western Romania) provides a record of climatic and anthropogenic influence on the regional nitrogen cycle and paleoenvironmental controls on nitrogen transforming processes. Increasing and decreasing trends of nitrogen isotopic composition (δ¹⁵N values) correspond well with changes in the influence of farming practices, deforestation, and forest expansion. These influences likely had a significant effect on the openness of the nitrogen cycle, resulting in …

Smartphone Based 3d Printed Colorimeter For Biomedical Applications, Karthik Raj Konnaiyan

USF Tampa Graduate Theses and Dissertations

Here we present a novel Smartphone-based colorimeter and demonstrate its application to the measurements of glucose and protein concentrations in biological samples. The key innovation of our approach was to combine powerful image processing encoded into a mobile phone application with a low cost 3D printed sample holder that allowed to control lighting conditions and significantly improved sensitivity. Different solutions with protein and glucose concentrations ranging from 0 to 2000 mg/dL were prepared and analyzed using our system. The Smartphone-based colorimeter always correctly classified the corresponding reagent strip pads, what confirms that it can be used as a low cost …

Dissolved Nutrient Distributions In The Gulf Of Mexico Following The Deepwater Horizon Oil Spill, Ashley Ann Parks

USF Tampa Graduate Theses and Dissertations

The Deepwater Horizon (DWH) oil spill in the Gulf of Mexico (GoM) in the spring of 2010 introduced 4.4 million of barrels of oil to the ecosystem. Some biodegradation of the oil occurs when microorganisms, particularly bacteria, metabolize the oil as a carbon source. During this process, the microbes also require nutrients for energy. An introduction of oil at this magnitude has the ability to induce large blooms of microbes, which in turn can affect nutrient concentrations. Microbial petroleum degradation decreases nutrient concentrations, whereas the microbial assimilation and decay of organic matter increase nutrient concentrations. This study assessed whether any …

Restricted And Repetitive Behaviors As Strengths, Not Weaknesses: Evaluating The Use Of Social Stories That Embed Restricted Interests On The Social Skills Of Children With Autism Spectrum Disorder, Maya Nasr

USF Tampa Graduate Theses and Dissertations

The purpose of this study was to investigate the extent to which the use of social stories that integrate a child’s particular restricted and repetitive behaviors results in differential social outcomes compared to the use of social stories that do not integrate restricted and repetitive behaviors. A non-concurrent multiple baseline experimental design across participants was used to examine the effects of two Social Story interventions on the frequency of appropriate social behaviors made by participants in a school setting. Field notes were also completed during each day of data collection in order to document the social context, events, activities, moods …