Life Sciences Commons^™

Ferric Reductases And Transporters That Contribute To Mitochondrial Iron Homeostasis, Anshika Jain

Theses and Dissertations

Iron (Fe) is the fourth most abundant element in the Earth’s crust, yet the availability of Fe to plants is often limited. This is because in most soil types, Fe precipitates as ferric-oxyhydroxy complexes, making it unavailable for uptake by plants. While the mechanisms involved in Fe uptake from the soil are relatively well understood, the mechanisms involved in its further distribution to the aerial portion of the plant and to subcellular compartments are not fully understood. During Fe deprivation, plants up-regulate root Fe acquisition machinery. How plants sense Fe deprivation and tie the Fe status of the plant to …

Molecular Mechanisms Of Gap Junction Regulation By The E3 Ubiquitin Ligase Wwp1, Measho Hagos Abreha

Theses and Dissertations

Ubiquitylation is a post-translational modification that influences a wide variety of cellular processes including protein degradation, protein subcellular localization, cell cycle progression, transcription, and DNA damage repair. Covalent attachment of the small ubiquitin molecule to a target protein involves the sequential action of three enzymes (E1, E2, and E3). In this process, substrate specificity is conferred by the E3 ligase. Our work has focused on the function of one such E3 ubiquitin ligase, WWP1. Known targets of WWP1 include cell cycle proteins, tumor suppressors, and transcription factors that promote differentiation of mesenchymal stem cells to the osteoid lineage. Recently, we …

The Role Of Lis1 In Adult Mammalian System, Xu Gao

Theses and Dissertations

Lis1 haploinsufficiency in humans results in a “smooth brain” phenotype called lissencephaly, and also causes severe cognitive and motor impairments and epilepsy. Seizure severity and frequency typically worsens with time; patients often die within the first decade due to seizure-induced aspiration and pneumonia. Various mouse models have been used to examine the role of Lis1 during brain development, and it is clear that Lis1 regulates a microtubule motor, cytoplasmic dynein. Intriguingly, Lis1 expression remains high in adult brains indicating that it plays a role in mature systems. Indeed, our group found that Lis1 and several related proteins regulate dynein-dependent axon …

Understanding The Evolutionary History Of Biochemical Innovation, Madeline Opal St. Julien

Theses and Dissertations

The serine protease (SP) gene family is an ecologically important gene family because of observed involvement in innate immunity, digestive processes, and embryological development of arthropods. In the past decade, all genes of the serine protease family have been classified in a number of arthropods, with the exception of crustacean. Possible evolutionary mechanisms have been observed based off of varying selectional pressures acting on recent SP expansions in respect to varying diets. Daphnia is the first crustacean to have its genome sequenced, and their genomes were analyzed in this study to elucidate the expansion and divergence of the SP gene …

Diversity, Genetics, And Health Benefits Of Sorghum Grain, Davina Rhodes

Theses and Dissertations

Staple cereal crops provide the majority of nutrients to the world's population, and thus, can significantly impact human nutrition and health. Phenotypic and genetic diversity within a crop can be useful for biofortification and crop improvement, but quantitative phenotyping is needed to identify varieties with high or low concentrations of a nutrient of interest, and to identify alleles responsible for quantitative trait variation of the nutrient. Sorghum [Sorghum bicolor (L.) Moench] is a diverse and widely adapted cereal crop that provides food for more than 500 million people in sub-Saharan Africa and Asia, and is becoming increasingly popular in specialty …

Thermal Ecology And Physiology Of An Intertidal Predator-Prey System: Pisaster Ochraceus And Mytilus Californianus, Cristian J. Monaco

Theses and Dissertations

Untangling natural systems’ complexity requires understanding the mechanisms responsible for organisms’ responses to environmental change. Recently, significant advances have been made by recognizing the relevance of direct and indirect effects, which take place when multiple biotic and abiotic factors influence each other. I examined potential direct effects of environmental variables on a predator-prey interaction, as well as potential indirect effects of these variables on the interaction itself. I placed emphasis on behavioral and physiological adaptations, which would potentially contribute/modify these effects. My study system was comprised of a rocky intertidal keystone predator, the sea star Pisaster ochraceus, and its main …

Compositional Traits In Sorghum Bicolor Characterized By Transcriptome, Ionome And Genome-Wide Association Analysis, Nadia Shakoor

Theses and Dissertations

To address the challenge of global mineral malnutrition, current biofortification research in crop plants aims to improve mineral concentration and micronutrient bioavailablity via genetic and traditional breeding methods. Many staple food crops are also used as biofuels, and the chemical and mineral composition of these energy crops directly affect biomass quality and subsequent energy output. Identification of genes and QTL that impact mineral and compositional traits in the grain and biomass of major cereals, including sorghum, is fundamental to developing breeding and selection methods aimed at increasing bioavailable minerals and improving biofuel suitability and seed nutritional quality. A combinatorial strategy …

Neodymium Isotopic Signature Of The Deep Western Boundary Current And The Distribution Of Neodymium Isotopes And Concentrations Across Line W, Brian Daniel Duggan

Theses and Dissertations

The capacity of the neodymium (Nd) 143Nd/144Nd ratio to trace modern ocean circulation accurately allows for the assumption that the ratio can also accurately trace paleo ocean circulation. Therefore, a complete understanding of Nd cycling and its effect on the isotopic composition in the oceans is vital. Traditionally, Nd isotopic composition (Nd IC) is considered a conservative property in the open ocean, while coastal and margin environments tend to be dictated by nonconservative exchange processes. However, Nd concentrations ([Nd]) in the open ocean typically display a nutrient like profile, increasing with depth. Such a discrepancy between Nd IC and [Nd] …

An Efficient Algorithm To Explore Liquid Association On A Genome-Wide Scale, Tina Gunderson, Yen Yi Ho

Faculty Publications

Background: The growing wealth of public available gene expression data has made the systemic studies of how genes interact in a cell become more feasible. Liquid association (LA) describes the extent to which coexpression of two genes may vary based on the expression level of a third gene (the controller gene). However, genome-wide application has been difficult and resource-intensive. We propose a new screening algorithm for more efficient processing of LA estimation on a genome-wide scale and apply its use to a data set. Results: On a test subset of the data, the fast screening algorithm achieved >99.8 agreement with …

Using Phylogenetically-Informed Annotation (Pia) To Search For Light-Interacting Genes In Transcriptomes From Non-Model Organisms, Daniel Isaac Speiser, M Sabrina Pankey, Alexandera K. Zaharoff, Barbara A. Battelle, Heather D. Bracken-Grissom, Jesse W. Breinholt, Seth M. Bybee, Thomas W. Cronin, Anders Garm, Annie R. Lindgren, Nipam H. Patel, Megan L. Porter, Meredith E. Protas, Ajna S. Rivera, Jeanne M. Serb, Kirk S. Zigler, Keith A. Crandall, Todd H. Oakley

Faculty Publications

Background

Tools for high throughput sequencing and de novo assembly make the analysis of transcriptomes (i.e. the suite of genes expressed in a tissue) feasible for almost any organism. Yet a challenge for biologists is that it can be difficult to assign identities to gene sequences, especially from non-model organisms. Phylogenetic analyses are one useful method for assigning identities to these sequences, but such methods tend to be time-consuming because of the need to re-calculate trees for every gene of interest and each time a new data set is analyzed. In response, we employed existing tools for phylogenetic analysis …

A Comparison Of The Caulobacter Na1000 And K31 Genomes Reveals Extensive Genome Rearrangements And Differences In Metabolic Potential, Kurt Ash, Theta Brown, Tynetta Watford, Latia E. Scott, Craig Stephens, Bert Ely

Faculty Publications

The genus Caulobacter is found in a variety of habitats and is known for its ability to thrive in low-nutrient conditions. K31 is a novel Caulobacter isolate that has the ability to tolerate copper and chlorophenols, and can grow at 4°C with a doubling time of 40 h. K31 contains a 5.5 Mb chromosome that codes for more than 5500 proteins and two large plasmids (234 and 178 kb) that code for 438 additional proteins. A comparison of the K31 and the Caulobacter crescentus NA1000 genomes revealed extensive rearrangements of gene order, suggesting that the genomes had been randomly scrambled. …

Toxicity Of Engineered Nanomaterials And Their Transformation Products Following Wastewater Treatment On A549 Human Lung Epithelial Cells, Yanjun Ma, Subbiah Elankumaran, Linsey C. Marr, Eric P. Vejerano, Amy Pruden

Faculty Publications

Here we characterize the toxicity of environmentally-relevant forms of engineered nanomaterials (ENMs), which can transform during wastewater treatment and persist in aqueous effluents and biosolids. In an aerosol exposure scenario, cytotoxicity and genotoxicity of effluents and biosolids from lab-scale sequencing batch reactors (SBRs) to A549 human lung epithelial cells were examined. The SBRs were dosed with nanoAg, nano zero-valent iron (NZVI), nanoTiO2 and nanoCeO2 at sequentially increasing concentrations from 0.1 to 20 mg/L. Toxicities were compared to outputs from SBRs dosed with ionic/bulk analogs, undosed SBRs, and pristine ENMs. Pristine nanoAg and NZVI showed significant cytotoxicity to A549 cells in …

2014 Scas Annual Meeting Program

Journal of the South Carolina Academy of Science

No abstract provided.

Genotypic And Phenotypic Characterization Of Aerosolized Bacteria Collected From African Dust Events, Christina A. Wilson, Robin L. Brigmon, Chris Yeager, Garriet W. Smith, Shawn W. Polson

Journal of the South Carolina Academy of Science

Twenty-one bacteria were isolated and characterized from air samples collected in Africa and the Caribbean by the United States Geological Survey (USGS). Isolates were selected based on preliminary characterization as possible pathogens. Identification of the bacterial isolates was achieved using 16S rRNA gene sequence analysis, fatty acid methyl esters (FAMEs) profiling, the BIOLOG Microlog^® System (carbon substrate assay), and repetitive extragenic palindromic (REP)-PCR analysis. The majority of isolates (18/21) were identified as species of the genus Bacillus. Three isolates were classified within the Bacillus cereus senso lato group, which includes Bacillus anthracis, Bacillus thuringiensis, and Bacillus …

Remembering To Perform Actions In The Future: Can Intentions Pop Into Mind?, Gilles O. Einstein

Journal of the South Carolina Academy of Science

No abstract provided.

Role Of Vitamin A In Retinal Diseases, Rosalie K. Crouch, Masahiro Kono, Peter H. Tang

Journal of the South Carolina Academy of Science

Vitamin A has an essential role in vision in that it forms the photosensitive pigments that absorb light and initiate the visual process. However, vitamin A and its analogues also have critical roles in maintaining the structural integrity of the retina. Disruption of the metabolism of vitamin A results in several blinding diseases. This review focuses on our recent studies on the role of a protein critical to the processing of vitamin A, RPE65. The absence or dysfunction of this protein causes the childhood blinding disease Leber congenital amaurosis.

Scas Officers And Council Members 2014-2015

Journal of the South Carolina Academy of Science

No abstract provided.

Table Of Contents

Journal of the South Carolina Academy of Science

No abstract provided.

Effects Of Exercise On Bmi Z-Score In Overweight And Obese Children And Adolescents: A Systematic Review With Meta-Analysis, George A. Kelley, Kristi S. Kelley, Russell R. Pate

Faculty Publications

Background: Overweight and obesity are major public health problems in children and adolescents. The purpose of this study was to conduct a systematic review with meta-analysis to determine the effects of exercise (aerobic, strength or both) on body mass index (BMI) z-score in overweight and obese children and adolescents.

Methods: Studies were included if they were randomized controlled exercise intervention trials ≥ 4 weeks in overweight and obese children and adolescents 2 to 18 years of age, published in any language between 1990–2012 and in which data were available for BMI z-score. Studies were retrieved by searching eleven electronic databases, …

Genetic Background Influences Behavior And Responses To Epigenetic Changes Induced By A Methyl-Donor Diet, Kimberly R. Shorter

Theses and Dissertations

With recent strides in epigenetics, mainstream media informs the public that we can “beat our genes” by, for instance, changing our diet. Genetics, however, still plays a role in phenotype. Folate and other methyl-donor pathway components are widely supplemented due to their ability to prevent neural tube defects during prenatal development. In addition to vitamins, these compounds are also added to commercial flour, energy drinks, and other supplements. Several lines of evidence suggest that these supplements act through epigenetic mechanisms, including altering DNA methylation. Increasing evidence suggests potential deleterious effects of excessive folate. Given the benefits of these compounds, risk …

Utilizing Next Generation Sequencing To Generate Bacterial Genomic Sequences For Evolutionary Analysis, Derrick C. Scott

Theses and Dissertations

Many important questions in the field of prokaryotic biology cannot be answered due to the low availability of sequenced and finished genomes. Recent improvements in technology and decreases in price have made the ambition of de novo bacterial genomic sequencing a reality for a wide range of researchers. However, with the advancement of sequencing technology comes the need for an evaluation to determine the most reliable bioinformatics methods in generating a complete and accurate assembly. Biases inherent in the sequencing technology and GC-rich genomes complicate genome assemblies. Here, we sequenced bacterial strains from the GC-rich Caulobacter genus and the closely …

Effects Of Individual Phenotypic Variation On Predator-Prey Relationships Of Xanthid Crabs In North Inlet Estuary, South Carolina, Benjamin J. Toscano

Theses and Dissertations

Ecological communities and the biological interactions that regulate community structure are notoriously complex. To make these systems more tractable, ecologists traditionally measure and model communities at the population level, treating individuals as functionally equivalent. While this approach has yielded tremendous insight into the factors governing communities, it remains unclear whether accounting for individual-level variation could improve our capacity to predict the responses of communities to perturbation, a major goal in the midst of unprecedented rates of environmental change.

The objective of this study was to examine the magnitude of individual-level phenotypic variation in predatory crabs (family Xanthidae), and the effects …

Muscarinic Modulation Of Basolateral Amygdala, Lei Liu

Theses and Dissertations

The basolateral amygdala (BL) receives a dense cholinergic innervation from the basal forebrain. Despite the importance of muscarinic acetylcholine receptors (mAChRs) in fear learning, consolidation, and extinction, there have been no studies that have systematically investigated the functional role of mAChRs in regulating emotional processing in the BL. To address this critical knowledge gap we combined brain slice whole-cell recording, optogenetics, and immunohistochemistry to determine how muscarine, acting on mAChRs, regulates neuronal oscillations, synaptic transmission and plasticity in the BL.

Neurons in the BL oscillate rhythmically during emotional processing, which are thought to be important to integrate sensory inputs, allow …

The Effects Of Exercise Training On Cognitive Reserve And Cognitive Function In Healthy Older Women, Katie Marie Becofsky

Theses and Dissertations

Cognitive reserve theory suggests that physical activity may protect individuals from cognitive decline. At the brain level, greater cognitive reserve may manifest as greater neural network efficiency. Our purpose was to investigate 1) whether participation in a 16-week walking program increased brain efficiency, and 2) whether increased brain efficiency correlated with change in fitness and task performance. Our secondary purpose was to investigate whether exercise training improved performance on a battery of cognitive tasks, particularly executive functioning performance. Seventeen healthy but sedentary women aged 60-75 years participated in a supervised walking program; eighteen women served as a non-randomized control group. …

Differential Expression Of Snmps And Their Underlying Transcriptional Regulation In Chemosensory Pathways Of Drosophila, Richard A. Fandino

Theses and Dissertations

Insects possess complex and diverse chemosensory pathways which have specific phenotypes determined by the regulated expression of specific combinations of genes. While many of these genes (e.g. ORs and GRs) have very narrow expression patterns, associating with only a limited number of chemosensory sensilla, SNMPs show a very broad expression pattern. In Drosophila, SNMP1 and SNMP2 associate with the majority of olfactory and gustatory sensilla, but express in different cell types. In olfactory sensilla, SNMP1 and SNMP2 associate with trichoid or coeloconic neurons respectively, and both additionally express in a variety of sensilla support cells; in gustatory sensilla, SNMP2 expresses …

Mechanical Properties Of Diet And Its Effect On Oral Health, Varsha Kapoor

Theses and Dissertations

The predominant diet fed to captive carnivores consists of ground meat formulated to provide full nutritional requirements. However, this ground meat diet completely lacks the mechanical properties such as toughness, hardness and stiffness of the foods the animals would eat in the wild. The goal of this research was to evaluate the effect of mechanical properties of diet on oral health by comparing prevalence of periodontal disease and calculus accumulation in wild and captive felids. One-way ANOVA analysis of variance indicated that these differences are statistically significant (P

Geochemical Analysis Of Eolian Fluxes During The Transition From Greenhouse To Icehouse Conditions In Equatorial Pacific., Daniel Nicholas Miller

Theses and Dissertations

To assess the atmospheric conditions during times of differing pole to equator thermal gradients through the middle Eocene to early Oligocene, 42 to 30 Ma, samples from deep-sea sediment cores U1331, U1332, U1333 from IODP Expedition 320/321 in the eastern equatorial Pacific (EEP) have been chemically leached to isolate the operationally defined eolian dust (ODED; <63 μm fraction). The ODED was analyzed for neodymium (Nd) isotopic compositions and rare earth element (REE) concentrations in order to determine the provenance of the ODED fraction and to elucidate the environmental conditions (e.g. predominant wind patterns) during deposition over the interval of study. The variations in the ODED fraction are expected to be controlled by changes in sources delivered via eolian input. However, negative cerium anomalies in the Post Achaean Australian Shale (PAAS) normalized rare earth element profiles of the ODED show a biasing geochemical seawater phase to the ODED signature. It is found that εNd values and cerium anomalies (Ce/Ce*) of ODED are consistent with fossil fish teeth values that record bottom water signatures from the same location and time period until ~36-37 Ma; around the Priabonian/Bartonian boundary marked by increased thermal gradients due to the emplacement of high elevation glaciers on Antarctica (Scher et. al., 2014). Moreover, the more negative cerium anomalies correlate to more radiogenic εNd values. The geochemical seawater signature in the ODED samples is believed to be caused by a change in sedimentary phase regulated by the spatial paleoposition of the sites relative to the biological high productivity zone and/or the depth of the CCD. Subsequently these regulators on the sedimentary phases of the ODED were investigated for biasing the geochemical signatures of the ODED, assumed to be changes in sources thereby provenance. Together, the Nd and REE results from the study temporally indicate that the ODED fraction may be a mixing between two sources, that of a biasing biogenic and/or authigenic source that records seawater conditions, and that of an older, less radiogenic continental source, inferred as Asian loess, as an increased thermal gradient prevails over the course of the study. Further research needs to be performed to make more robust and conclusive linkages between sources, mixing of sources, and atmospheric eolian delivery patterns, highlighting the necessity for a better understanding of atmospheric conditions during important climatic events throughout the history of the Earth.

Functional Characterization Of Fro4 And Fro5: Two Members Of The Ferric Chelate Reductase Family Of Arabidopsis, Grandon Thomas Wilson

Theses and Dissertations

Iron (Fe) is the fourth most abundant element within the earth’s crust and is an essential micronutrient for plants and animals. Fe plays key roles in photosynthesis, respiration and chlorophyll biosynthesis in plants and in hemoglobin in animals. Like Fe, copper (Cu) is also an important micronutrient in plants and is needed for photosynthesis and respiration, especially in the important copper-containing protein plastocyanin. Copper also is important in scavenging reactive oxygen species and ethylene perception. The reduction of Fe3+ to Fe2+ at the root surface of Arabidopsis thaliana during times of Fe deficiency has been a well-characterized process; however, reduction …

An Investigation Of Mitochondrial Bioenergetics And The Turnover Of Succinated Proteins In The Adipocyte During Diabetes, Ross Tanis

Theses and Dissertations

We previously identified the chemical modification S-(2-succino)cysteine (2SC), which is formed when the Krebs cycle metabolite fumarate reacts with protein cysteine residues, also termed protein succination. Protein succination is increased in the adipose tissue of ob/ob and db/db mice in vivo and in 3T3-L1 adipocytes grown in high glucose in vitro. The increase in 2SC in the 3T3-L1 adipocyte occurs as a direct result of glucotoxicity and increased mitochondrial stress. We have shown that uncoupling agents, which lower mitochondrial stress, prevent the increase in succinated proteins.

In this study we examined the relationship between increased succination and mitochondrial bioenergetics in …

Role Of Apelin And Endothelin Systems In The Pain Associated With Sickle Cell Disease, Terika Smith

Theses and Dissertations

Sickle cell disease (SCD) is a common genetic blood disorders that is characterized by painful vaso-occlusive episodes (VOEs), which are the major cause of hospitalizations for these patients. One of the mechanisms that may contribute to the development of painful VOEs is the imbalance between vasoconstrictors and vasodilators. This thesis focuses on the vasoconstrictors endothelin-1 (ET-1), which is elevated during VOEs and is pro-nociceptive, and angiotensin II (Ang II) and the vasodilator apelin, which has anti-nociceptive properties. This thesis tested two hypotheses: 1) an imbalance between the vasoconstrictive and pro-nociceptive systems and vasodilatory and anti-nociceptive systems contributes to pain in …