Life Sciences Commons^™

Transforming Management Of Tropical Coastal Seas To Cope With Challenges Of The 21st Century, Peter F. Sale, Tundi Agardy, Cameron H. Ainsworth, Blake E. Feist, Johann D. Bell, Patrick Christie, Ove Hoegh-Guldberg, Peter J. Mumby, David A. Feary, Megan I. Saunders, Tim M. Daw, Simon J. Foale, Phillip S. Levin, Kenyon C. Lindeman, Kai Lorenzen, Robert S. Pomeroy, Edward H. Allison, R. H. Bradbury, Jennifer Corrin, Alasdair J. Edwards, David O. Obura, Yvonne J. Sadovy De Mitcheson, Melita A. Samoilys, Charles R.C. Sheppard

Marine Science Faculty Publications

Over 1.3 billion people live on tropical coasts, primarily in developing countries. Many depend on adjacent coastal seas for food, and livelihoods. We show how trends in demography and in several local and global anthropogenic stressors are progressively degrading capacity of coastal waters to sustain these people. Far more effective approaches to environmental management are needed if the loss in provision of ecosystem goods and services is to be stemmed. We propose expanded use of marine spatial planning as a framework for more effective, pragmatic management based on ocean zones to accommodate conflicting uses. This would force the holistic, regional-scale …

Real‐Time Oceanographic Data: From Safety To Science, Steven D. Meyers, Jeffrey Scudder, Mark E. Luther

Marine Science Faculty Publications

Coastal areas such as bays and estuaries host 30%–50% of the global human population and shipping ports that handle 80% of world trade. These areas are increasingly vulnerable to chemical and biological contamination and to storm surge in the short term and to sea level rise in the long term.

The Show Cave Of Diros Vs. Wild Caves Of Peloponnese, Greece - Distribution Patterns Of Cyanobacteria, Vasiliki Lamprinou, Daniel B. Danielidis, Adriani Pantazidou, Alexandra Oikonomou, Athena Economou-Amilli

International Journal of Speleology

The karst cave ‘Vlychada’of Diros, one of the oldest show caves in Peloponnese, sustains extended phototrophic biofilms on various substrata – on rocks inside the cave including speleothems, and especially near the artificial lighting installation (‘Lampenflora’). After a survey of the main abiotic parameters (Photosynthetically Active Radiation -PAR, Temperature -T, Relative Humidity -RH, Carbon Dioxide -CO₂) three clusters of sampling sites were revealed according to Principal Component Analysis (PCA): i) the water gallery section predominately influenced by CO₂, ii) the dry passages influenced by RH and PAR, and iii) the area by the cave exit at …

Ontogenetic Diet Shifts And Prey Preference Of A Generalist Predatory Fish, Brittany Jalene Scharf

USF Tampa Graduate Theses and Dissertations

Marine ecosystems are highly dynamic and contain a diverse faunal assemblage that are subject to various natural and anthropogenic variability. Globally, seagrass ecosystems are located adjacent to coastal areas that are heavily impacted by human development and urbanization potentially altering the community structure within these ecosystem. Complex food webs connect many components of these systems, often in unexpected ways, and are ultimately based on one of two pathways: benthic (i.e., seagrass, epiphytes, microalgae, detritus) and planktonic (i.e., phytoplankton). Understanding the pathway which the food web is based gives further insight regarding the biological balance of the ecosystem; thus it is …

"Wake Up The Knowledge That You Have": An Assessment Of Community Food Security In Fellsmere, Florida, Susan Marie Tyler

USF Tampa Graduate Theses and Dissertations

In the global industrial agricultural system many people lack access to high-quality nutritious foods and food production techniques are often inefficient and reliant on harsh chemical inputs. While numerous strategies exist to address the disparities present in the global food system, increasingly researchers and practitioners are looking to local food systems for solutions to strengthen community food security (CFS). CFS emphasizes small-scale production strategies such as farmer's markets, community gardens, and consumer supported agriculture. As these efforts evolve, research is needed to understand how these strategies affect communities. To explore a local CFS initiative, qualitative data were collected from community …

Development Of An Efficient Human Hepatocyte Culture Platform For Assessing Novel Therapeutic Efficacy Against Plasmodium Liver Parasites, Steven Patrick Maher

USF Tampa Graduate Theses and Dissertations

Malaria is a critical and global public health problem, affecting over 200 million people every year, resulting in over 500,000 deaths. A vaccine is not currently available and only one drug, primaquine, is effective against the dormant stages of Plasmodium vivax. Preclinical assessment of novel therapeutic drugs and vaccines is hampered by the lack of an in vitro liver model for P. falciparum and P. vivax. To provide a stable human hepatocyte-based culture platform for parasite development, we engineered a microfluidic bilayer device capable of both simple and complex culture methods, including perfusion and co-culture, to better understand the requirements …

A Multi-Scale Approach To Study Predator-Prey Interactions And Habitat Use Of Pinfish, Lagodon Rhomboids, Dinorah Helena Chacin

USF Tampa Graduate Theses and Dissertations

Biological processes like species interactions and patterns such as abundance and distribution observed in nature can vary depending on the scale at which the subject of interest is evaluated. Knowing that there is no single natural scale at which systems should be studied, in this thesis, I conducted a series of basic and applied ecological approaches in order to examine the phenomena that can occur at different scales of space, time, and ecological organization.

Species abundances can vary over large spatial and temporal scales. By studying the habitat use of an abundant species, which uses a wide range of habitats, …

The Effect Of Music Cadence On Step Frequency In The Recreational Runner, Micaela A. Galosky

USF Tampa Graduate Theses and Dissertations

Music appears to have advantageous effects during exercise as it has been shown to increase motivation, decrease ratings of perceived exertion (RPE), and improve exercise performance. The improvement of running performance in particular, is the main effect recreational runners want to focus on as many want to improve their time in road races. Running velocity, indicated by a faster time to completion is thought to improve with an increase in step frequency, step length, or a combination of these variables. Currently, there is limited research that observes methods to help increase step frequency or step length. The manipulation of music …

Bi-Directional Signaling Between Melanoma And The Microenvironment Generates A Protective Niche That Mediates Therapeutic Escape, Inna Fedorenko

USF Tampa Graduate Theses and Dissertations

Very few cancer patients are cured through drug therapy alone, with the majority exhibiting acquired resistance. To date, most studies of therapeutic escape have focused upon tumor-intrinsic mechanisms of drug resistance with little attention paid to the role of normal host cells in preventing complete tumor eradication. In the present study we implicate co-operative bi-directional signaling between melanoma cells and fibroblasts in the generation of a pro-survival niche that mediates drug resistance. Mass-spectrometry based phosphoproteomics was used to show that BRAF inhibition and chemotherapy drugs enhanced the survival of both melanoma cells and fibroblasts through the induction of fibronectin (FN)/integrin …

Feeding Performance Of King Mackerel, Scomberomorus Cavalla, Amber Rose Ferguson

USF Tampa Graduate Theses and Dissertations

Although bite force is a commonly used metric of feeding performance, other factors such as bite pressure and strike speed are also likely to affect prey capture. Therefore, this study investigated static bite force, dynamic speeds, and predator and prey forces resulting from ram strikes, as well as bite pressure of the king mackerel, Scomberomorus cavalla, in order to examine their relative contributions to overall feeding performance. Theoretical posterior bite force ranged from 14.0-318.7 N. Ram speed, recorded with a rod and reel incorporated with a line counter and video camera, ranged from 3.3-15.8 BL/s. Impact forces on the …

Bartonella Henselae Infection And Host Response In The Zebrafish Embryo Model, Amorce Lima

USF Tampa Graduate Theses and Dissertations

The Gram-negative bacterium Bartonella henselae (Bh) is an emerging zoonotic pathogen that has been associated with a variety of human diseases including bacillary angiomatosis which is characterized by vasoproliferative tumor-like lesions on the skin and internal organs of some immunosuppressed individuals. Several virulence factors associated with Bartonella-induced pathogenesis have been characterized. However, the study of those virulence factors has been limited to in vitro cell culture systems due to the lack of a practical animal model. Therefore, we wanted to investigate whether the zebrafish embryo (Danio rerio) could be used to model human infection with Bh. We investigated …

Can Anyone With Low Income Be Food Secure?: Mitigating Food Insecurity Among Low Income Households With Children In The Tampa Bay Area, Edgar Allan Amador

USF Tampa Graduate Theses and Dissertations

In the US over the last few years, approximately 14.5% of households experience food insecurity at some point throughout the year. While studies on food insecurity in the US have determined that household income and specifically income available to spend on food is of critical importance to food security, it is still unclear why some households with low income are able to maintain food security while others experience food insecurity in a pattern characterized as not constant but recurrent. This dissertation compares households with children at different levels of food security and insecurity using the USDA Core Food Security Module …

Analysis And Application Of Passive Gait Rehabilitation Methods, Ismet Handzic

USF Tampa Graduate Theses and Dissertations

Human gait is elegant and efficient in propelling the body forward. While a healthy human gait is symmetric, any deviation from symmetry can cause inefficiencies to the entire body. Such asymmetries may present themselves in hemiplegic patients, prosthetic users, lower limb injuries, limb height and weight discrepancies, or abnormal overground foot rolling. In this dissertation, practical passive methods to alleviate such asymmetric walking dynamics are presented. The novel concepts presented in this manuscript can all be related and applied to passive gait rehabilitation, that is, the rehabilitation of a person's gait through methods that do not require external power. One …

Are Gopher Tortosies (Gopherus Polyphemus Daudin) Comapatible With Cows?, Thomas William Hentges

USF Tampa Graduate Theses and Dissertations

Many Gopher Tortoise populations are in steep decline throughout Florida, and various measures have been attempted to curb the trend. One such measure is to relocate tortoises to protected recipient sites on private lands. The majority of private lands in Florida are used for cattle, however, production and the effect of cattle production on tortoises is not known. Here, I tested six parameters of tortoise behavior by monitoring 1403 gopher tortoises released at the Barthle Brothers Ranch, Pasco County Florida, between August 2009 and December 2012. The parameters tested were (1) burrow density, (2) burrow spacing, (3) burrow relocation, (4) …

Problems Associated With A Lipofuscin Extraction Method Used To Age Blue Crabs Callinectes Sapidus Cultured In Florida, Usa, Claire E. Crowley, Ryan L. Gandy, Kendra L. Daly, Edward S. Van Vleet

Marine Science Faculty Publications

The blue crab Callinectes sapidus is an ecologically and economically important component of marine and estuarine ecosystems of the western Atlantic and Gulf of Mexico. Current stock assessments lack a clear understanding of the age structure of blue crab populations in Florida (USA). Blue crabs and other crustaceans are especially difficult to age because of the complex nature of their discrete, rather than continuous, growth patterns. Chesapeake Bay researchers developed a method of aging blue crabs by assaying the aging pigment lipofuscin extracted from eyestalk nerve tissue. Here we investigated the usefulness of that method in determining the age of …

Airborne Microorganisms In Lascaux Cave (France), Pedro M Martin-Sanchez, Valme Jurado, Estefania Porca, Fabiola Bastian, Delphine Lacanette, Claude Alabouvette, Cesareo Saiz-Jimenez

International Journal of Speleology

Lascaux Cave in France contains valuable Palaeolithic paintings. The importance of the paintings, one of the finest examples of European rock art paintings, was recognized shortly after their discovery in 1940. In the 60’s of the past century the cave received a huge number of visitors and suffered a microbial crisis due to the impact of massive tourism and the previous adaptation works carried out to facilitate visits. In 1963, the cave was closed due to the damage produced by visitors’ breath, lighting and algal growth on the paintings. In 2001, an outbreak of the fungus Fusarium solani covered the …

The Interrelationship Of Brca1 185delag, Interleukin-1Β, And Ovarian Oncogenesis, Kamisha Woolery

USF Tampa Graduate Theses and Dissertations

While the etiology of ovarian cancer (OC) is not completely understood, evidence suggests that chronic inflammation may promote malignant transformation. However, familial history remains the strongest risk factor for developing OC and is associated with germline BRCA1 mutations, such as the 185delAG mutation. Normal human ovarian surface epithelial cells expressing the 185delAG mutant, BRAT, exhibit molecular and pathological changes that may contribute to OC oncogenesis. In the current study, I sought to determine whether BRAT could promote an inflammatory phenotype by investigating BRAT's impact on the expression of the proinflammatory cytokine, Interleukin-1β (IL-1β). Using a culture model system of normal …

Manipulating The Tumor Microenvironment For Therapeutic Benefit, Kate M. Bailey

USF Tampa Graduate Theses and Dissertations

The physical tumor microenvironment contributes significantly to carcinogenesis, cancer progression and metastatic dissemination. Two main components of the tumor microenvironment, hypoxia and acidosis, are present in nearly every solid tumor and act as powerful selection forces against the tumor. Hypoxia and acidosis promote tumor heterogeneity and contribute to chemotherapy and radiotherapy resistance. This dissertation interrogates methods to target the tumor microenvironment including two novel studies describing mechanisms of buffer therapy resistance and targeting tumor hypoxia with vasodilators to enhance the efficacy of a hypoxia activated prodrug, TH-302.

In the first study, mechanisms of buffer therapy resistance were identified and detailed. …

Cancer And Infection, Kathleen Hope Plummer

USF Tampa Graduate Theses and Dissertations

E. coli is the most frequently isolated Gram negative pathogen from bacteremia in cancer patients and is repeatedly recovered from many other extraintestinal illnesses. These infections are commonly endogenous in nature and interfere with the treatment of cancer resulting in increased healthcare costs, morbidity, and mortality rates. Cancer and the treatments related to cancer cause alterations in the microbiome of the gut and other organs. Despite this point, there is a serious lack of knowledge about the genetic types of E. coli infecting cancer patients. This gap results in vague prevention strategies and limited treatment options for cancer patients. Multi …

Rna Detection Technology For Applications In Marine Science: Microbes To Fish, Robert Michael Ulrich

USF Tampa Graduate Theses and Dissertations

The accurate identification of taxa from mixed assemblages using genetic analysis remains an important field of molecular biology research. The common principle behind the development of numerous documented genetic detection technologies is to exploit specific nucleotide sequences inherent to each taxon. This body of work focuses on practical applications of real-time nucleic acid sequence-based amplification (RT-NASBA) in marine science, and is presented in four case studies. Each study represents novel work in the genetic identification of respective taxa of interest using RT-NASBA. Two case studies documented the development of an assay targeting mitochondrial 16S rRNA to discern legally salable grouper …

Consistency Of The Current Global Ocean Observing Systems From An Argo Perspective, K. Von Schuckmann, J.-B. Sallée, D. Chambers, P.-Y. Le Traon, C. Cabanes, F. Gaillard, S. Speich, M. Hamon

Marine Science Faculty Publications

Variations in the world's ocean heat storage and its associated volume changes are a key factor to gauge global warming and to assess the earth's energy and sea level budget. Estimating global ocean heat content (GOHC) and global steric sea level (GSSL) with temperature/salinity data from the Argo network reveals a positive change of 0.5 ± 0.1 W m⁻² (applied to the surface area of the ocean) and 0.5 ± 0.1 mm year⁻¹ during the years 2005 to 2012, averaged between 60° S and 60° N and the 10–1500 m depth layer. In this study, we present an …

Synthesis, Characterization And Mechanistic Studies Of Biomolecules@Mesomofs, Yao Chen

USF Tampa Graduate Theses and Dissertations

Encapsulation of biomolecules is of great interest to research advances related to biology, physiology, immunology, and biochemistry, as well as industrial and biomedical applications such as drug delivery, biocatalysis, biofuel, food and cosmetics. Encapsulation provides functional characteristics that are not fulfilled by free biomolecules and stabilizes the fragile biomolecules. In terms of biocatalysis, solid support can often enhance the stability of enzymes, as well as facilitate separation and recovery for reuse while maintaining activity and selectivity. Various kinds of materials have been used for encapsulation of biomolecules, among which, porous materials are an important group. Metal-organic frameworks (MOFs) have attracted …

Topological Data Analysis Of Properties Of Four-Regular Rigid Vertex Graphs, Grant Mcneil Conine

USF Tampa Graduate Theses and Dissertations

Homologous DNA recombination and rearrangement has been modeled with a class of four-regular rigid vertex graphs called assembly graphs which can also be represented by double occurrence words. Various invariants have been suggested for these graphs, some based on the structure of the graphs, and some biologically motivated.

In this thesis we use a novel method of data analysis based on a technique known as partial-clustering analysis and an algorithm known as Mapper to examine the relationships between these invariants. We introduce some of the basic machinery of topological data analysis, including the construction of simplicial complexes on a data …

From Co2 To Cell: Energetic Expense Of Creating Biomass Using The Calvin-Benson-Bassham And Reductive Citric Acid Cycles Based On Genomic Data, Mary Ann Mangiapia

USF Tampa Graduate Theses and Dissertations

Abstract

The ubiquity of the Calvin-Benson-Bassham cycle (CBB) amongst autotrophic organisms suggests that it provides an advantage over a wide range of environmental conditions. However, in some habitats, such as hydrothermal vents, the reductive citric acid cycle (rCAC) is an equally predominant carbon fixation pathway. It has been suggested that the CBB cycle poses a disadvantage under certain circumstances due to being more energetically demanding compared to other carbon fixation pathways. The purpose of this study was to compare the relative metabolic cost of cell biosynthesis by an autotrophic cell using either the CBB cycle or the rCAC. For both …

Early Developmental Impacts On Male Traits And Female Preference In Zebra Finches (Taeniopygia Guttata), Martyna Boruta

USF Tampa Graduate Theses and Dissertations

Some male sexually selected traits are sensitive to stressors early in life and provide females with information to discriminate among males with different developmental experiences. Moreover, female early life experiences could also impact which males they choose. Females might either choose honest traits indicative of male quality, no matter their own experiences, or they might choose mates to match or compensate for their own experiences. To determine how developmental stressors alter male sexually-selected traits and female preference thereof, I exposed zebra finches (Taeniopygia guttata, ZEFI) to i) lipopolysaccharide (LPS), an immunogenic, Gram-negative bacterial component, ii) corticosterone (CORT), an avian stress …

Nitrogen Inputs And Losses In Response To Chronic Co2 Exposure In A Subtropical Oak Woodland, B. A. Hungate, B. D. Duval, P. Dijkstra, D. W. Johnson, M. E. Ketterer, Peter Stiling, W. Cheng, J. Millman, A. Hartley, D. B. Stover

Integrative Biology Faculty and Staff Publications

Rising atmospheric CO₂ concentrations may alter the nitrogen (N) content of ecosystems by changing N inputs and N losses, but responses vary in field experiments, possibly because multiple mechanisms are at play. We measured N fixation and N losses in a subtropical oak woodland exposed to 11 years of elevated atmospheric CO₂ concentrations. We also explored the role of herbivory, carbon limitation, and competition for light or nutrients in shaping the response of N fixation to elevated CO₂. Elevated CO₂ did not significantly alter gaseous N losses, but lower recovery and deeper distribution in the …

Investigating The Diversity Of Single-Stranded Dna Bacteriophages In Marine Environments, Max Stephen Hopkins

USF Tampa Graduate Theses and Dissertations

There are estimated to be 1030 virus-like particles in the world's oceans. Most are viruses that infect bacteria, called `bacteriophages' or simply `phages'. Phages exert tremendous influence on marine biogeochemical cycling because they are responsible for about half of all bacterial death in the oceans, causing nutrient release into the dissolved and particulate organic matter pools. Traditional paradigms of phage biology held that most of these ocean phages belonged to the Caudovirales group: phages that contain a double-stranded DNA genome within a geometric capsid `head' to which a `tail' is joined, in one of several morphological variants, that is the …

Novel Cell Cycle Proteins In Apicomplexan Parasites, Carrie Butler

USF Tampa Graduate Theses and Dissertations

Apicomplexans are responsible for major human diseases such as toxoplasmosis caused by Toxoplasma gondii (T. gondii) and the deadliest form of malaria caused by Plasmodium falciparum (P. falciparum). The genomes of these pathogens are now sequenced ushering in a new era of drug development. A major hurdle to exploiting this genome resource is that a large number of the encoded genes are "hypotheticals" and have yet to be characterized. Hypothetical proteins comprise roughly half of the predicted gene complement of T. gondii and P. falciparum and represent the largest class of uniquely functioning proteins in these parasites.

Following the idea …

Using Otolith Elemental Composition To Track The Habitat Use, Movements, And Life History Patterns Of Common Snook (Centropomus Undecimalis) And Red Drum (Sciaenops Ocellatus) In The Tampa Bay Estuary, Holly Jacqueline Rolls

USF Tampa Graduate Theses and Dissertations

Knowledge of fish habitat use and connectivity is critical for understanding the structure and dynamics of fish populations and, therefore, necessary for the implementation of successful fisheries management strategies. Tagging is an effective means of providing such information, and the elemental composition contained within fish otoliths is increasingly being used as a natural tag. The chemical composition of otoliths reflects the incorporation of elements from different water bodies and can thus be used to understand the habitat use, movements, and life history patterns of fishes. To assess the applicability of otolith elemental composition as a tagging technique within the Tampa …

Statistical Analysis, Modeling, And Algorithms For Pharmaceutical And Cancer Systems, Bong-Jin Choi

USF Tampa Graduate Theses and Dissertations

The aim of the present study is to develop a statistical algorithm and model associ- ated with breast and lung cancer patients. In this study, we developed several statistical softwares, R packages, and models using our new statistical approach.

In the present study, we used the five parameters logistic model for determining the optimal doses of a pharmaceutical drugs, including dynamic initial points, an automatic process for outlier detection and an algorithm that develops a graphic user interface(GUI) program. The developed statistical procedure assists medical scientists by reducing their time in determining the optimal dose of new drugs, and can …