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Understanding How Cancer Adapts To Stress And Therapy Using Evolutionary Game Theory, Mariyah Pressley

USF Tampa Graduate Theses and Dissertations

Adaptive responses in cancer promote disease initiation, progression, and resistance to treatment. Understanding the underlying evolutionary dynamics behind these adaptive responses is crucial for developing effective therapeutic strategies. Evolutionary game theory (EGT) has proven a useful tool in analyzing how different cellular behaviors and evolutionary forces shape the dynamics of tumor growth, response to therapy, and the emergence of resistance. In this dissertation, we utilize EGT to understand the adaptive responses of cancer through the lens of ecology and evolution. By employing fitness-generating models and exploring various ecological contexts, we aimed to unveil critical factors influencing aggressive cell phenotypes, treatment …

Mixed Method Analysis Of Undergraduate Student Interpretation Of Different Phylogenetic Trees, Faith Frings

USF Tampa Graduate Theses and Dissertations

Phylogenetic trees are common tools used to visualize evolutionary concepts such as historical patterns of ancestry, divergence of species, and descent of species. However, students have misconceptions when reading these abstract diagrams. The purpose of this study was to compare student performance and evolutionary thinking when using two styles of phylogenetic trees: cladograms and phylograms. The study also assessed the validity of a hierarchal theoretical framework evaluating student phylogenetic tree interpretation. Introductory biology students from two research universities were assigned to two groups, one solely given assessments with phylograms, and one solely given assessments with cladograms. One-on-one student interviews were …

Evolution Of Targeted Therapy Resistance In Eml4-Alk Positive Non-Small Cell Lung Cancer, Robert Vander Velde

USF Tampa Graduate Theses and Dissertations

Targeted therapies have emerged as potent treatments that lead to the remission of many tumors. However, they rarely cure cancers in advanced, metastatic settings. This is due to the evolution of resistance, which in turn can be ascribed to the survival of small subpopulations of tolerant and/or resistant cells. Here we investigated the evolution of resistance to EML4-ALK inhibitors in non-small cell lung cancer (NSCLC) and demonstrated that resistance evolves gradually, from unique pre-treatment sub-populations, as multiple resistance mechanisms accumulate in a Darwinian fashion. Despite accumulating multiple changes, cells evolved, in parallel, toward similar inhibitor specific phenotypes. Evolving cells have …

The Distribution In Native Populations From Mexico And Central America Of The C677t Variant In The Mthfr Gene, Lucio A. Reyes

USF Tampa Graduate Theses and Dissertations

Objectives: To explore evolutionary hypotheses for the high frequencies of a substitution in the methylenetetrahydrofolate reductase (MTHFR) gene, in Mexican and Central American Indigenous populations.

Materials and methods: We obtained allele frequencies for the C677T variant in the MTHFR gene and ecological information for 37 indigenous samples from Mexico and Central America. We calculated Hardy–Weinberg equilibrium and computed Fst statistics. We computed correlations between the samples' allele frequencies and ecological and geochemical variables.

Results: Many of the samples have extremely high frequencies of the T allele (q̄ = 0.62, median = 0.66). In this region, the frequency of the T …

Structure, Dynamics, And Evolution Of The Intrinsically Disordered P53 Transactivation Domain, Wade Michael Borcherds

USF Tampa Graduate Theses and Dissertations

in numerous disease states, including cancers and neurodegenerative diseases. All proteins are dynamic in nature, occupying a range of conformational flexibilities. This inherent flexibility is required for their function, with ordered proteins and IDPs representing the least flexible, and most flexible, respectively. As such IDPs possess little to no stable tertiary or secondary structure, they instead form broad ensembles of heterogeneous structures, which fluctuate over multiple time scales. Although IDPs often lack stable secondary structure they can assume a more stable structure in the presence of their binding partners in a coupled folding binding reaction.

The phenomenon of the dynamic …

Complete Genome Sequences And Phylogeny Of West Nile Virus Isolates From Southeastern United States, 2003-2012, Crystal Wedin

USF Tampa Graduate Theses and Dissertations

The study of the evolution and phylogeny of West Nile virus (WNV) has been an important area of research since the introduction of WNV in 1999. However, genome sequencing of isolates from the Southeastern part of the United States has been somewhat limited. To determine how WNV has evolved at a more localized level, ten isolates from Florida and Georgia from 2003-2012 were completely sequenced using Illumina's next-generation technology. In addition, a phylogenetic comparison of both the complete genome and select partial genomes was completed to ensure consistency among the results. This study further demonstrated the dominance of the North …

Paleobiological Assessment Of Controls Underlying Long-Term Diversity Dynamics, Andrés L. Cárdenas

USF Tampa Graduate Theses and Dissertations

Deciphering the factors underlying both long-term patterns of diversity and taxonomic turnover rates (i.e., extinction, and origination) has been one of Paleobiology's major foci for the past three decades. The importance of documenting these components is that they will expand our ability to interpret and model the evolutionary processes underlying those trends, highlight the evolutionary impact of historical events, and contribute to the formulation of robust predictions about the future of global diversity in response to the current anthropologically driven environmental changes. Accordingly, the first part of this study examines the possible occurrence of global marine evolutionary environmental controls into …

Socioscientific Issues: A Path Towards Advanced Scientificliteracy And Improved Conceptual Understanding Of Socially Controversial Scientific Theories, Dean William Pinzino

USF Tampa Graduate Theses and Dissertations

Abstract

This thesis investigates the use of socioscientific issues (SSI) in the high school science classroom as an introduction to argumentation and socioscientific reasoning, with the goal of improving students' scientific literacy (SL). Current research is reviewed that supports the likelihood of students developing a greater conceptual understanding of scientific theories as well as a deeper understanding of the nature of science (NOS), through participation in informal and formal forms of argumentation in the context of SSI. Significant gains in such understanding may improve a student's ability to recognize the rigor, legitimacy, and veracity of scientific claims and better discern …

Psycho-Socio-Cultural Risk Factors For Breech Presentation, Caroline Peterson

USF Tampa Graduate Theses and Dissertations

The Breech Baby Study is a mixed methods study which combines qualitative and quantitative inquiry. This study explores psycho-social-cultural risk factors for breech presentation from an evolutionary perspective. The quantitative component of the study uses Florida birth certificate and Medicaid data sets from 1992-2003 to evaluate the influence of ethnicity and socio-economic status on breech presentation.

Ethnicity and socio-economic status account for less than two percent of the variance of risk factors for breech presentation. The qualitative study includes 114 mothers of breech and cephalic presentation babies who completed the State Trait Personality Inventory and a socio-demographic survey. Of these, …

Analysis Of Glycerol 3-Phosphate Dehydrogenase And Sarco/Endoplasmic Reticulum Calcium Ion Channel Atpase For Use In Deep Metazoan Phylogenetics, Terry G. Campbell

USF Tampa Graduate Theses and Dissertations

Genetic sequence data have been widely used to analyze metazoan phylogenies for two decades, and numerous datasets have been generated for testing relationships at many different taxonomic levels. The rapid divergence of major metazoan body plans during the Cambrian explosion confounds the determination of phylogenetic relationships among metazoan phyla. Few molecular analyses at this level have used both multiple genes and broad taxonomic representation. Furthermore, most studies have relied exclusively on the small ribosomal subunit rRNA gene (SSU). Many of the other genes that have been examined have possessed substitution rates that are inappropriate for resolving the relationships among metazoan …

The Realism Of Hans Morgenthau, Brian A. Keaney

USF Tampa Graduate Theses and Dissertations

This thesis analyzes the life and career of Hans J. Morgenthau, commonly accepted as the father of the realist paradigm within the field of international relations. It does so by offering a dynamic revisionist account of the nature of Morgenthau's classical realism and suggests how the approach discussed might have wider application in the field of international relations. Traditional perspectives of Morgenthau suggest that in the course of his career, he changed from holding what would generally be labeled a conservative political viewpoint to a liberal political viewpoint. This thesis takes a different starting point. It does so by suggesting …

The Position Of The Ophiuroidea Within The Phylum Echinodermata, Mary C. Harmon

USF Tampa Graduate Theses and Dissertations

Cladistic analyses of the interclass relationships of the phylum Echinodermata have not provided a phylogeny that is separately supported by both larval and adult characters. Similar to the reported incongruence with cladistic analyses, molecular analyses of ribosomal RNA (rRNA) genes have also given ambiguous results, which could be due to a number of factors. The use of short sequences, systematic errors such as long branch attraction, and mis-alignments of the data that are introduced by programs which are unsuitable for non-protein coding genes, have resulted in a controversy as to the true nature of echinoderm relationships. Historically, it is the …