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Reproductive Life History Of Fundulus Jenkensi And Comparative Development Of Five Sympatric Fundulid Species, Eric Thomas Lang

Master's Theses

Fundulus jenkinsi is recognized federally and within the state of Mississippi as a Species of Concern. Little is known about the life history of this coastal killifish, but a detailed reproductive histology study of F. jenkinsi and a diagnostic key of the early life stages of select members of Fundulidae can provide the foundation needed to accurately identify it and quantify reproductive parameters in this rare species in need of conservation. Monthly gonadosomatic index (GSI) of male and female F. jenkinsi were documented, and spawning phases and oocyte stages were examined using reproductive histology. In addition, various stages of …

Information Acquisition And Sociality Among Migratory Birds, Zoltán Németh

Dissertations

Information use is a key feature of adaptive behavior: the better informed an individual, the better it is able to adjust its behavior to meet the demands of a variable world. Therefore, most animals attempt to reduce environmental uncertainty by gathering information when it is available. However, tracking unpredictable ecological factors may carry costs as individuals invest valuable time and energy in the process of information acquisition. Social learning (i.e., use of social information inadvertently produced by other individuals) enables the individual to gain rapid and more complete assessment of its novel environment. This process may be particularly important for …

Patterns Of Diversity, Zoogeography, And Ecological Gradients In Honduran Freshwater Fishes, Wilfredo Antonio Matamoros

Dissertations

Nineteen major river drainages across Honduras were sampled from 2005-2009 in order to understand Honduran geographical patterns of freshwater fish distribution, to delineate the Honduran freshwater fishes ichthyographical provinces, and to understand patterns of species assemblage at the drainage level. A total of 166 species of freshwater fishes were sampled, a 64% increase over previously published reports. Eight species belong to primary freshwater families, 47 to secondary, and 111 to peripherals. In order to understand the species-drainages relationships, a presence-absence matrix was built for the 19 major drainages and 55 primary and secondary freshwater fishes. Correspondence and cluster analysis clearly …

Algal Community Structure In Water Bodies Of Mississippi: The Role Of Environmental Factors In Its Spatial And Temporal Dynamics, Nestor Raul Anzola

Dissertations

A meta-analysis was done on studies that included six major taxa groups: Cyanobacteria, Chlorophyta, Chrysophyta (primarily diatoms), Euglenophyta, Pyrrophyta, and Rhodophyta and six aquatic habitats of Mississippi to determine the abundance and richness of the algal community and to identify relevant environmental drivers of algal assemblage composition. Twenty algae data sets on small order streams, large streams and rivers, lakes and reservoirs, fish production ponds, brackish water, and marine water were analyzed. Chlorophyta was dominant in lakes and reservoirs and was the most diverse taxa in the phytoplankton of small order streams and large streams and rivers. Cyanobacteria were the …

Relationships Between Particle Properties And Scattering In Coastal Waters Of The Northern Gulf Of Mexico Influenced By The Mississippi River, Bruce Alan Spiering

Dissertations

This study was conducted to determine how the characteristics of an assemblage of suspended particles, including their composition and size affect the relationship between the optical scattering coefficient b (m-1), and the dry mass of the particles in suspension. Knowledge of the scattering to total suspended matter (TSM) ratio, i.e. the mass specific scattering coefficient b* (m2/g), is important because the light detected by optical imaging sensors used for remote sensing is the light that has been scattered by particles back through the water surface. If this ratio is not known or varies within the region of interest, accurate estimates …

Determining The Relationship Of Human Enteric Viruses In Clinical, Wastewater, And Environmental Samples Utilizing Molecular And Cell Culture Techniques, Jacquelina Susann Williams Woods

Dissertations

This study was the first to examine five significant enteric viruses in human fecal material, sewage, and oysters to show a genetic relationship between human enteric viruses and different sample matrices. Fecal samples were collected from an area hospital and examined for norovirus genotype I (NoV GI), norovirus genotype II (NoV Gil), hepatitis A virus (HA V), adenovirus (ADV), and enteroviruses. During this study, sewage samples were collected from a Waster Water Treatment Plant (WWTP) in Mobile, ALand oyster sentinels were placed at 0.1 nautical miles (nm) (station 1 ), 0.2nm (station 2}, 1.5nm (station 3), and 4nm (station 4) …

Development Of Representative Species-Level Molecular Markers And Morphological Character Analysis Of Leucothoid Amphipods (Crustacea: Amphipoda), Kristine Nicolle White

Dissertations

Leucothoid amphipods were investigated using morphology and molecular rDNA gene sequence fragments. The morphological diagnostic characters for traditional taxonomy have been clarified, a molecular marker for representative species has been developed, and one of the current anamorph-leucomorph connections has been confirmed with molecular sequence data. Ultimately this study has combined traditional morphological and modern molecular methods to clarify the taxonomy and to propose a preliminary phylogeny of the Leucothoidae. Analysis of 18S rDNA gene fragments from 13 species in two genera supported the current morphological species designations and the separation of the family into two clades. Combined analysis of 18S …

Systematic Revision Of The Kalliapseudidae (Crustacea: Peracarida: Tanaidacea) And The Population Genetic Structure And Phylogeography Of A Species Along The Southeastern And Gulf Coasts Of North America, David Thomas Drumm

Dissertations

The Kalliapseudidae is a family of shallow burrow-dwelling marine and estuarine tanaidaceans. There are currently 39 known species of 12 genera and three subfamilies. They are primarily circumtropical in distribution; however, several species are found in temperate waters. The phylogeny of Kalliapseudidae is assessed to test the monophyly of currently accepted subfamilies and genera, based largely on examination of material loaned from various museums and institutions. Multiple exemplars from other apseudomorph families were also included in the ingroup to test the monophyly of the family. Parsimony analyses included 41 terminal taxa and 64 binary and multistate morphological characters. Analyses based …

Conservation And Ecology Of The Yellow-Blotched Sawback (Graptemys Flavmaculata), William Winsyl Selman Ii

Dissertations

The role of species conservation is becoming increasingly important due to the mounting pressures from humans on habitats and populations of organisms. This is particularly evident in riverine ecosystems throughout the world where the human demand for freshwater resources is increasing, and consequently, the number of imperiled aquatic organisms is also growing. The seven chapters of this dissertation primarily focus on the Yellow-blotched Sawback, Graptemys flavimaculata, an endangered riverine turtle that is endemic to the Pascagoula River system of southeast Mississippi, USA. At the population level, we aimed to study the impacts of Hurricane Katrina on two study populations within …

Remote Sensing Of Harmful Algal Blooms In The Mississippi Sound And Mobile Bay: Modelling And Algorithm Formation, Dan Martin Holiday

Dissertations

The incidence and severity of harmful algal blooms have increased in recent decades, as have the economic effects of their occurrence./The diatom Pseudo-nitzschia spp. caused fisheries closures in Mobile Bay during 2005 due to elevated levels of domoic acid. In the previous 4 years Karenia brevis counts of >5,000 cells L"1 have occurred in Mobile Bay and the Mississippi Sound. Population levels of this magnitude had previously been recorded only in 1996. Increases in human populations, urban sprawl, development of shoreline properties, sewage effluent and resultant changes in NP ratios of discharge waters, and decline in forest and marsh lands, …

Conservation Genetics And Systematics Of Several Turtles Species In The Southeastern United States, Joshua Robert Ennen

Dissertations

Chelonians (i.e., turtles) are an imperiled group of reptiles with about 66% of the recognized species listed as threatened by the IUCN. Most chelonian species have a unique set of life history traits (i.e., longevity, delayed sexual maturity, and low juvenile survivorship), which makes their populations exceedingly sensitive to increases in adult and juvenile moralities. With numerous anthropogenic effects (e.g., habitat alteration, exploitation, and over harvesting) negatively influencing mortality rates, chelonians have experienced global precipitous declines and extinctions.

This dissertation focuses on species within two chelonian genera, Gopherus and Graptemys. Although these two genera are vastly different ecologically, they are …

Bridging Functional Genomics And Toxicogenomics Through Dna Microarrays In A Fish Model, Shuzhao Li

Dissertations

In a case study of finding gene expression signatures for environmental stressors in Cyprinodon variegatus, this dissertation examines several important issues of applying DNA microarray technology to fish toxicogenomics. The most relevant disciplines, fish toxicogenomics and computational systems biology are reviewed in Chapter 1. Chapter 2 reviews major aspects of DNA microarray technology.

On DNA microarrays, even for probes that target the same transcript, large variations are seen in the probe signals. These variations are partly dependent and partly independent on probe sequences. Chapter 3 estimates the sequence independent variation by combining experimental and computational approaches. Chapter 4 and …

Reverse Engineering Of Gene Regulatory Networks For Discovery Of Novel Interactions In Pathways Using Gene Expression Data, Tanwir Habib

Dissertations

A variety of chemicals in the environment have the potential to adversely affect the biological systems. We examined the responses of Rat (Rattus norvegicus) to the RDX exposure and female fathead minnows (FHM, Pimephales promelas) to a model aromatase inhibitor, fadrozole, using a transcriptional network inference approach. Rats were exposed to RDX and fish were exposed to 0 or 30mg/L fadrozole for 8 days. We analyzed gene expression changes using 8000 probes microarrays for rat experiment and 15,000 probe microarrays for fish. We used these changes to infer a transcriptional network. The central nervous system is remarkably plastic in its …

Oceanic-Atmospheric Modes Of Variability And Their Effect On River Flow And Blue Crab (Callinectes Sapidus) Abundance In The Northcentral Gulf Of Mexico, Guillermo Humberto Sanchez-Rubio

Dissertations

Oceanic-atmospheric modes of variability occur on interdecadal, multidecadal, decadal, and interannual timescales and their influence on climate around the world has been confirmed. The present study investigates Mississippi River and Pascagoula River flows in response to the influence of one or more of the four oceanic-atmospheric modes of variability: the Pacific Decadal Oscillation (PDO), the Atlantic Multidecadal Oscillation (AMO), the North Atlantic Oscillation (NAO), and the El Nino Southern Oscillation (ENSO). These modes of variability are present in phases: PDO warm (PDOw) and cold (PDOc), AMO warm (AMOw) and cold (AMOc), NAO positive (NAOp) and negative (NAOn), and ENSO warm …

Yellow Head Virus: Transmission And Genome Analyses, Hongwei Ma

Dissertations

Yellow head virus (YHV) is an important pathogen to shrimp aquaculture. Among 13 species of naturally YHV-negative crustaceans in the Mississippi coastal area, the daggerblade grass shrimp, Palaemonetes pugio, and the blue crab, Callinectes sapidus, were tested for potential reservoir and carrier hosts of YHV using PCR and real time PCR. The YHV replicated in the daggerblade grass shrimp, and was still detectable on 36 d post-inoculation, causing 8% mortality after injection. However, YHV did not replicate in the blue crab. These data suggest that the daggerblade grass shrimp could act as a reservoir host for YHV. Storage conditions of …

Biochemical Characterization Of Two Yeast Paralogous Proteins Mth1 And Std1, Satish Pasula

Dissertations

Glucose is the most abundant monosaccharide and preferred carbon and energy source for most cells. Many organisms have evolved sophisticated means to sense glucose and respond to it appropriately. The budding yeast, Saccharomyces cerevisiae senses glucose through two transmembrane proteins, Snf3 and Rgt2. In the presence of extracellular glucose Snf3 and Rgt2 generate an intracellular signal that leads to the degradation of Mthl and Stdl, thereby inducing the expression of hexose transporter genes (EXT) by inhibiting the function of Rgtl, a transcriptional repressor of HXT genes. Mthl and Stdl are degraded via the Yckl/2 Kinase-SCFGrrl-26S proteasome pathway triggered by the …

The Role Of Msa In The Global Regulation Of Virulence In Staphylococcus Aureus, Vijayaraj Nagarajan

Dissertations

Staphylococcus aureus is an important pathogen causing life threatening diseases in humans. Previously we showed that msa modulates the activity of sarA (Staphylococcal accessory regulator), which is one of a major global regulator of virulence in S. aureus. The objective of this study is to characterize the role of msa (Modulator of SarA) in the global regulation of virulence in S. aureus. Structure and function predictions were done using several computational tools and approaches to understand the nature of msa. A novel S. aureus microarray meta-database (SAMMD) was designed and developed to compare and contrast other transcriptomes with msa transcriptome. …

Knowledge-Based Analysis Of Genomic Expression Data By Using Different Machine Learning Algorithms For The Purpose Of Diagnostic, Prognostic Or Therapeutic Application, Venkata Jagan Mohan Thodima

Dissertations

With more and more biological information generated, the most pressing task of bioinformatics has become to analyze and interpret various types of data, including nucleotide and amino acid sequences, protein structures, gene expression profiling and so on. In this dissertation, we apply the data mining techniques of feature generation, feature selection, and feature integration with learning algorithms to tackle the problems of disease phenotype classification, clinical outcome and patient survival prediction from gene expression profiles.

We analyzed the effect of batch noise in microarray data on the performance of classification. Batchmatch, a batch adjusting algorithm based on double scaling method …

A Systematic And Taxonomic Review Of The Family Pseudotanaidae (Crustacea: Peracarida: Tanaidacea) Based Primarily On Morphometry Cladistic Analyses, Jerry Alan Mclelland

Dissertations

Species of the tanaid family Pseudotanaidae, established by Jurgen Sieg in 1973, have been reported from all the world's oceans in depths ranging from near the surface to below 6,000 m. The family currently consists of 46 characteristically small tanaidomorph species residing in two subfamilies, the Cryptocopinae (seven species) and the Pseudotanainae (39 species). Members of the more ancestral Crytocopinae differ from the Pseudotanainae by having females with four rather than three antennule articles and a complete separation of the maxilliped endites. The primary objective of this study was to test the hypothesis that the current structure of the family …

Roosting Ecology Of Rafinesque's Big-Eared Bat, Corynorhinus Rafinesquii, In Southeastern Mississippi, Austin Webb Trousdale Iii

Dissertations

Rafinesque's big-eared bat, Corynorhinus rafinesquii, is considered rare and/or declining throughout its range. Concrete bridges are potentially important roosts for C. rafinesquii, especially in the Gulf Coastal Plain where the species' natural roosts (caves and large hollow trees) are inherently scarce. Successful efforts to monitor and conserve this species must account for its movements among multiple roosts and determine the duration of its roost use (including bridges) at different temporal scales. Therefore, I investigated roosting ecology of C. rafinesquii from 2000-2005 within a mixed hardwood-pine (Pinus spp.) system in southeastern Mississippi. I conducted surveys of concrete bridges to determine phenological …

In Vitro And In Vivo Techniques For Screening New Natural Product-Based Fungicides For Control Of Strawberry Anthracnose, Maritza Abril

Dissertations

Seven plant pathogenic fungi (Botrytis cinerea, Colletotrichum acutatum, C. fragariae, C. gloeosporioides, Fusarium oxysporum, Phomopsis obscurans, and P. viticola) valuable in screening fungicide efficacy were tested. Optimal and reproducible conditions for germination of these selected fungi were established by incorporating Roswell Park Memorial Institute 1640 (RPMI) as a medium of known composition and washing conidia to remove innate germination inhibitors. This step reduced average fungal germination times between 3.5 h and 21.2 h. The natural product-based fungicide, sampangine, seven sampangine analogs (4-bromo-sampangine, 4-methoxysampangine, benzo[4,5]sampangine, liriodenine Mel AMC-XIII-103, onychine, cryptolepine, and liriodenine CDH-II-37), plus seven conventional fungicides (benomyl, captan, cyprodinil, fenbuconazole, …

Reverse Recruitment: Activation Of Yeast Genes At The Nuclear Periphery, Terry Marvin Haley

Dissertations

The regulation of genes at the nuclear periphery is an evolutionarily conserved phenomenon in eukaryotes. The reverse-recruitment model of transcriptional activation postulates that genes are activated by moving to and contacting transcription machinery located at subnuclear structures. In Saccharomyces cerevisiae it has been reported that this platform for gene regulation may reside at the nuclear periphery. To test this hypothesis, I utilized a GFP-gene tagging technique, which uses LacI-GFP to visualize a tandem array of its DNA-binding sequence, to monitor localization ofSUC2 and GALL I found that both genes preferentially localized to the nuclear periphery when transcriptionally active. By developing …

Use Of Monoclonal ∆-9-Tetrahydrocannabinol Antibodies Chemically Bound To A Polystyrene Surface Using Glutaraldehyde For The Purpose Of Extracting ∆-9-Tetrahydrocannabinol And ∆-9-Tetrahydrocannabinol Carboxylic Acid From Postmortem Whole Blood Samples For Analysis By Gas Chromatography Mass Spectrometry, Thomas Sidney Pittman

Dissertations

Quantitations of drugs and their respective metabolites in postmortem blood samples using gas chromatographic instrumentation is a primary analytical practice used to determine if drugs played a role in or were the cause of a victim's death. Postmortem blood samples often prove difficult to work with due to interfering substances formed during the putrefaction process. Attempts to eliminate interfering substances with present day extraction methods can be time-consuming, costly and often ineffective when dealing with drugs that exhibit toxicity or impairment at very low concentrations. This study was conducted using monoclonal antibodies chemically bound to a polystyrene surface to extract …