Digital Commons Network^™

Improving Far-Uv Cd Prediction With The Dipole Interaction Model, Akongnwi Cheo Jungong

Theses and Dissertations

Among the physical methods available for studying protein structures, CD stands out as a property that is easy to measure yet remarkably difficult to predict theoretically. The basic principle underlying the CD of polypeptides and proteins is reasonably understood: the mixing of electronic transitions of monomer groups in the context of a chiral environment of helices gives rise to transitions that are both electronically and magnetically allowed. Despite knowledge on the fundamentals of CD, accurate theoretical prediction is still a major challenge. A better theoretical understanding of protein CD would facilitate a fuller interpretation of protein CD experiments.

Extensive theoretical …

The Impact Of Trauma On Children’S Functioning And The Utility Of The Cbcl Ptsd Profile, Nicola Ashton Herting

Theses and Dissertations

The high rates of trauma exposure among children and adolescents is a major public health concern due to the many ways trauma can adversely impact cognitive, emotional, and social development and functioning. The high rates of comorbidity between posttraumatic stress symptoms (PTSS) and other mental health disorders translate to complex diagnostic pictures. When conducting psychological, educational, or neuropsychological evaluations it is therefore imperative that clinicians assess for trauma to accurately diagnose, but ultimately to ensure appropriate recommendations for treatment and interventions are made. Several challenges to screening and assessing PTSS among children and adolescents have prompted the identification of efficient …

Comparisons Of Lygus Lineolaris Populations From The Mississippi Delta And Hills Agricultural Regions, Daniel Edward Fleming

Theses and Dissertations

Lygus lineolaris (Palisot de Beauvois) is a pest of cotton (Gossypium hirsutum L.) in Mississippi, particularly in the Delta region of the state. It is estimated that 3.1old more insecticide applications are needed to control this pest and it costs producers 3.6old more in the Delta region than in the Hills region. These differences have been attributed to increased insecticide resistance in the Delta and the possibility of a biotype of L. lineolaris in the Delta that is better adapted to cotton than the population in the Hills. A series of experiments were undertaken to evaluate these differences. The first …

Effects Of Intercropping Switchgrass In Managed Pine Stands On Plant Communities And White-Tailed Deer Forage Production, Bradley Robert Wheat

Theses and Dissertations

Interest in renewable energy and governmental mandates has motivated land managers to consider cellulosic feedstocks for bioenergy. I investigated plant community response to a system including switchgrass (Panicum virgatum) as a feedstock intercropped with loblolly pine (Pinus taeda). I estimated plant species evenness, richness, and diversity and biomass production, with emphasis on white-tailed deer (Odocoileus virginianus) forages. I detected 225 species in 2,220 1-m2 quadrats, and 7,495 biomass samples (96.4 kg dry weight) from 960 quadrats. Intercropping reduced plant species diversity, total non-pine tree biomass, and biomass of deer forages during switchgrass establishment. These effects were no longer apparent at …

Impact Of Environmental And Cellular Factors On The Bioactivity Of A Novel Antifungal, Occidiofungin, Chase Alexander Robinson

Theses and Dissertations

Occidiofungin is a novel glycolipopeptide, synthesized and secreted by Burkholderia contaminans MS14, demonstrating broad-spectrum antifungal activity and potential for successful clinical applications. Its mechanism of action has not yet been determined but is known to exhibit fungicidal activity via the induction of apoptosis in a manner unique from that of currently approved antifungals. As an early investigation into occidiofungin’s mechanism of action, we aimed to identify environmental and cellular factors that significantly alter the susceptibility of the model organism, Saccharomyces cerevisiae. To that end, we have demonstrated that occidiofungin’s bioactivity requires active cellular growth, that new protein synthesis is necessary …

Suitability Of Great South Bay, New York To Blooms Of Pfiesteria Piscicida And P. Shumwayae Prior To Superstorm Sandy, October 29, 2012, Pawel Tomasz Zablocki

Theses and Dissertations

Pfiesteria piscicida and P. shumwayae are toxic dinoflagellates implicated in massive fish kills in North Carolina and Maryland during 1990s. A set of physical, chemica l, and biological factors influence population dynamics of these organisms. This study employs i nformation gathered from relevant literature on temperature, salinity, dissolved oxygen, pH, turbulent mixing, and dissolved nutrients, bacteria, algae, microzooplankton, mesozooplankton, bivalve m ollusks, finfish, and other toxic dinoflagellates, which influence Pfiesteria population dynamics. The research focused on whether conditions in the Great South Bay, Long Island, New York were suitable to blooms of Pfiesteria species prior to the passage of superstorm …

God's Eye News: The Use Of Drones In Journalism, A Documentary Film, Robert Lance Carroll

Theses and Dissertations

This thesis uses the format of documentary film to investigate the aesthetic, legal, and ethical issues surrounding the use of Unmanned Aircraft Systems, commonly known as drones, in journalism. Particularly important are the topics of public perception, safety, freedom of speech, and privacy. Do journalists' First Amendment protections extend to the right to gather images using drones? How will the privacy of citizens be protected against aerial cameras that can go virtually unnoticed? Can drones be safely integrated into the National Airspace System? The goal of the documentary is not necessarily to answer these questions, but to gather opinions from …

Genetic Population Structure And Dynamics Of Nearctic Bering Cisco And Applied Mixed-Stock Analysis Of The Yukon River Commercial Fishery, Ora L. Russ

Theses and Dissertations

Bering cisco (Coregonus laurettae) are anadromous salmonids with only three known spawning populations located in the Yukon, Kuskokwim, and Susitna river drainages, respectively in Alaska. Bering cisco are actively harvested in both subsistence and commercial fisheries in Alaska. The work presented herein was a genetic study conducted on Bering cisco with three main objectives: 1) to develop genetic markers for Bering cisco; 2) to evaluate the population structure of the Yukon, Kuskokwim, and Susitna spawning aggregations and 3) to use genetic mixed-stock analysis to estimate the contributions of baseline cisco populations to the Yukon Delta commercial harvest during 2010, 2011, …

Syntheses And Characterization Of Bis(Amino)Cyclodiphosphazane Complexes Of Group 4- And -15 Elements, Mathew Etang Otang

Theses and Dissertations

In the first part of this work, the interaction of sodium tert-butoxide and sulfur with Group 4 metal bis(tert-butylamido)cyclodiphosph(III)azanes dichlorides, {[tBuNP)2tBuN)2]MCl2}, where M is Zr or Hf, is reported. The reaction of two equivalents of NaOtBu with {[tBuNP)2tBuN)2]MCl2}, M = Zr, Hf, resulted in the isolation of the first metal alkoxide complexes {[tBuNP)2tBuN)2]M(OtBu)2}, 35 (M =Zr) and 36 (M = Hf) of cyclodiphosphazanes. The oxidation of compounds 35 and 36 with elemental sulfur yielded {[tBuNP=S)2tBuN)2]M(OtBu)2}, 37 (M = Zr) and 38 (M = Hf), respectively. Similarly, the oxidation of {[tBuNP)2tBuN)2]MCl2}, M = Zr, Hf, with elemental sulfur led to the …

Towards A Dynamic View Of Genetic Networks: A Kalman Filtering Framework For Recovering Temporally-Rewiring Stable Networks From Undersampled Data, Jehandad Khan

Theses and Dissertations

It is widely accepted that cellular requirements and environmental conditions dictate the architecture of genetic regulatory networks. Nonetheless, the status quo in regulatory network modeling and analysis assumes an invariant network topology over time. We refocus on a dynamic perspective of genetic networks, one that can uncover substantial topological changes in network structure during biological processes such as developmental growth and cancer progression. We propose a novel outlook on the inference of time-varying genetic networks, from a limited number of noisy observations, by formulating the networks estimation as a target tracking problem. Assuming linear dynamics, we formulate a constrained Kalman …

Functional Identification Of A Ligase In The Red Sea Atlantis Ii Deepest Layer, Mahera Mohammed

Theses and Dissertations

Red sea, described as one of the unique marine ecosystems, incorporates up to 25 deep-sea brine pools. These pools posses multiple extreme conditions influencing the evolution and survival of their inhabiting microbial community. The combination of maximum depth (2194 m), high temperature (68C), anoxia, high salinity (26%), high pressure and high concentrations of heavy metals in the lower convective layer (LCL) of the Atlantis II brine pool makes it an ideal environment for identification of novel enzymes with unique characteristics and potential biotechnological applications. Here we describe the identification and the preliminary in vivo functional investigation of the ligase domain …

Studies On Rationally Designed, Allosteric, Coagulation Inhibitors, Rio Boothello

Theses and Dissertations

Heparin is a natural allosteric modulator, with numerous structural and conformational variations leading to many reports of bleeding complications and variations in anticoagulant effects. A flurry of research has been directed towards understanding this puzzle. This work entails the utilization of three unique strategies to further our understanding of this complex issue. Traditional synthetic, biosynthetic and biophysical approaches have failed to conquer the GAG-protein complexity. Computational analysis however could serve as a powerful approach to decipher this dilemma. A dual filter algorithm was incorporated to identify unique hexasaccharide sequences for HCII and AT. Our experimental studies exhibit a good correlation …

Part I: An Approach To The Synthesis Of Plakortethers A-E Part Ii: Rhodium-Catalyzed Intramolecular C-H Insertion On Diazosulfonates And Its Synthetic Applications, Duminda Shiromalee Liyanage

Theses and Dissertations

This research work consists of two independent studies. The first study is the development of a synthetic route to plakortethers A-E along with possible derivatives. The second study focuses on the synthetic applications of rhodium-catalyzed intramolecular C-H insertion on diazosulfonates.

Plakortethers (A-G) represent a set of marine natural products, which contain of a characteristic tetrasubstituted tetrahydrofuran fragment. This group of compounds was isolated from the Caribbean sponge Plakortis simplex. Their selective cytotoxic activity against the RAW 264-7 cell lines (murine macrophage) makes them promising candidates for biological studies and, along with their unusual structure, warrants the synthesis of these natural …

Isolation And Characterization Of Multipotent Lung Stem Cells From P53 Mutant Mice Models, Venkat Sundar Gadepalli

Theses and Dissertations

Recent advances in understanding lung biology have shown evidence for the existence of resident lung stem cells. Independent studies in identifying and characterizing these somatic lung stem cells have shown the potential role of these cells in lung repair and regeneration. Understanding the functional characteristics of these tissue resident stem/progenitor cells has gained much importance with increasing evidence of cancer stem cells, cells in a tumor tissue with stem cell characteristics. Lung cancer is most commonly characterized by loss of p53 function which results in uncontrolled cell divisions. Incidence of p53 point mutations is highest in lung cancer, with a …

Characterization Of A Putative Tonb Deficient Porphyromonas Gingivalis Mutant, Soheil Rostami

Theses and Dissertations

Porphorymonas gingivalis is one of the major bacterial pathogens responsible for the initiation and progression of periodontal disease. The bacterium requires hemin uptake for its growth and has developed sophisticated mechanisms to extract hemin from hemin containing proteins in the oral cavity. Hemin first binds to receptors on the surface of P. gingivalis and is then taken up in an energy dependent manner. TonB is an inner membrane bound protein that spans the periplasm and is believed to be involved in the passage of hemin through the double membrane of P. gingivalis. However, the TonB protein in P. gingivalis is …

A Pollination Network Of Cornus Florida, James H. Lee

Theses and Dissertations

From the agent-based, correlated random walk model presented, we observe the effects of varying the parameter values of maximum insect turning area, ��_max, density of trees, ω, maximum pollen carryover, ��_max, and probability of fertilization, P_��, on the distribution of pollen within a population of Cornus florida (flowering dogwood). We see that varying ��_max and ��_max changes the dispersal distance of pollen, which greatly affects many measures of connectivity. The clustering coefficient of fathers is maximized when ��_max is between 60° and 90°. Varying ω does not have a major …

Novel Compounds As Potential Alzheimer's Disease Therapeutics And Inhibitors Of The Nlrp3 Inflammasome, Jeremy E. Chojnacki

Theses and Dissertations

Alzheimer’s disease is a devastating neurodegenerative disorder and the leading cause of dementia. The disease manifests via several pathologies including neuroinflammation, oxidative stress, metal ion dyshomeostasis, and cell death. To address the multifaceted nature of this disorder, the design of several diverse compounds, targeting many pathological effects, was generated. First, a series of compounds based on curcumin and diosgenin were synthesized following the bivalent design strategy. Two compounds were discovered to have neuroprotective ability, anti-oxidative function, and anti-Aß oligomerization (AßO) properties. A second set of molecules was also designed, wherein a hybrid compound strategy was utilized. Three hybrids were to …

Light Mediated Drug Delivery Using Photocaged Molecules And Photoswitchable Peptides, Deboleena Mitra

Theses and Dissertations

There are many different types of targeted therapy for cancer treatment. The method of light mediated targeted therapy that we have developed uses photocaged molecules and photoswitchable peptides.

In photocaging, a biologically active molecule is made inactive by the attachment of a photocleavable blocking group. On exposure to UV radiation the photocleavable entity is removed and the biologically active molecule is released. Using this concept we have designed a prodrug that consists of a cell impermeable hydrophilic molecule attached to a photocaged doxorubicin. Upon irradiation with UV light the photosensitive group is removed and cytotoxic doxorubicin is released at the …

A Novel Assembly Algorithm That Optimizes For Rna-Seq Data, Yi Yang

Theses and Dissertations

The advent of next-generation sequencing (NGS) technology has shown unprecedented promise for accurately identifying and quantifying genomic variants for living organisms. For species whose genome sequences are unknown, the first step of RNA sequencing data analysis is to assemble all short reads. The de Bruijn graph-based algorithms, such as Oases, are usually used for short reads assembly to resolve the issue of computational complexity. However, de Bruijn graph-based assemblers normally generate high error rates when assembling RNA-Seq data. We have developed a novel assembly algorithm that can be used jointly with any other assembly methods for RNA-Seq short reads. The …

Differentiation Of Fungal Phytopathogens By Ft-Ir And Maldi-Tof Ms, Curtis Muldrow Atkinson

Theses and Dissertations

The use of matrix assisted laser desorption ionization time-oflight mass spectrometry, Fourier transform infrared spectroscopy, and other analytical means of identifying and differentiating microorganisms hold much promise. These analytical tools have been extensively assessed for their ability to differentiate bacteria and fungi. Most of this research has been coordinated in medically relevant microorganisms, but the technology can work just as well with agriculturally important microorganisms. In this thesis, these technologies were reviewed and then subsequently studied for their ability to differentiate Aspergillus species (that devastate corn and other crops yearly with aflatoxin contamination), as well as Macrophomina phaseolina and Thielaviopsis …

Analysis Of Humeral And Femoral Cross-Sectional Properties At Morton Shell Mound (16ib3), Sarah Marie Zaleski

Theses and Dissertations

Using the concept of bone functional adaptation, this study analyzes femoral and humeral cross-sectional properties of human skeletal materials from Morton Shell Mound on the Louisiana coast. This work helps fill a gap in such analyses in the southern U.S. and contributes to an understanding of the functional adaptation of the human skeleton. Properties were compared to those of other prehistoric Southeastern fisher-hunter-gatherers from Gold Mine, Plash Island, and several Georgia coast sites to assess mobility and activity patterns among inland and coastal groups. Less sexual dimorphism of femoral midshaft shape among coastal Morton and Plash, compared to inland Gold …

Design Of Engineered Biomaterial Architectures Through Natural Silk Proteins, Nicholas Kurland

Theses and Dissertations

Silk proteins have provided a source of unique and versatile building blocks in the fabrication of biomedical devices for addressing a range of applications. Critical to advancing this field is the ability to establish an understanding of these proteins in their native and engineered states as well as in developing scalable processing strategies, which can fully exploit or enhance the stability, structure, and functionality of the two constituent proteins, silk fibroin and sericin. The research outlined in this dissertation focuses on the evolution in architecture and capability of silks, to effectively position a functionally-diverse, renewable class of silk materials within …

“The Flow Of Blood In Nature” Franz Marc’S Animal Theory, Morgan Rinehart

Theses and Dissertations

This thesis argues for a coherent theory of the animal in the written and visual works of the German Expressionist painter, Franz Marc. By contextualizing Marc’s animal theory within the history of animal studies, this thesis will analyze how Marc’s animal theory corresponds with several central concepts within this field. One of these concepts—a theory of animal death—is central to the artist’s greater theory of the animal and to the analysis this thesis provides. In examining Marc’s theory of animal death, the following work will propose that the artist’s theory of animal spirituality is his greatest legacy within the field …

Studies Toward The Synthesis Of Lyconadin A And Cranomycin, Brad M. Loertscher

Theses and Dissertations

Lyconadin A is a pentacyclic Lycopodium alkaloid isolated from the club moss Lycopodium companatum with anticancer activity. Our approach sought to incorporate a 7-exo–6-exo acyl radical cyclization cascade to access the bicyclo[5.4.0]undecane framework of lyconadin A. Our studies created methodology for the synthesis of 5-alkyl and 3,5-dialkyl-6-carbomethoxy-2-pyridones and sterically demanding epoxide substrates. These epoxide substrates underwent an unanticipated Payne rearrangement.Cranomycin is a potent antibiotic with antiprotozoal activity. Structurally it is a cyclopentane ring system with substitution at each carbon in the ring. Another interesting structural aspect is the existence of three contiguous quaternary stereocenters including two tertiary alcohols and a …

Immobilized Viologen Polymer For Use In Direct Carbohydrate Fuel Cells, Yining Pan

Theses and Dissertations

Glucose and other carbohydrates are some of the most abundant renewable energy sources in the world. The oxidation of carbohydrates in a fuel cell allows their chemical energy to be converted directly into electrical energy. Viologen has been indentified and shows promising ability as an electron-transfer catalyst or mediator for carbohydrate oxidation in an alkaline carbohydrate fuel cell. Building on the previous results, the objective of this work was to develop an immobilization chemistry of viologen onto an electrode and to investigate the catalytic activity for carbohydrate oxidation in direct carbohydrate fuel cells.The immobilization was achieved by electropolymerizing a novel …

Bridging The Gap: Using The Theory Of Planned Behavior To Predict Hpv Vaccination Intentions In Men, Daniel Snipes

Theses and Dissertations

Genital human papillomavirus (HPV) is the most common sexually transmitted infection (STI) in the US, with an estimated incidence rate of 6.2 million new cases each year. Men have higher instances of certain HPV related outcomes (e.g., head/neck cancers) when compared to women, so male vaccination with the HPV vaccine is also paramount to preventing cancer. The present study examined the theory of planned behavior (TPB) as a model for predicting HPV vaccination intentions among men. Results suggest the TPB was a well-fitting model to the data, but not all aspects of the TPB model were predictive of HPV vaccination …

Development Of High-Throughput Catalyst Screening For Ammonia Based Selective Catalytic Reduction Of Nitric Oxide With Parallel Analysis Using Fourier Transform Infrared Imaging, Shahriar Salim

Theses and Dissertations

Lean-burn engines, which operate under excess air to fuel ratio offer significant fuel efficiency as well as contribute to the reductions of greenhouse gas emissions. However, lean burn engines produce three main pollutants carbon monoxide (CO), nitrogen oxides (NOx) and unburned or partially burned hydrocarbons (HC), which have detrimental effect on both environment and human life. The conventional three way catalyst (TWC) which was designed to reduce NOx under stoichiometric conditions is not effective under lean-burn engine exhaust condition. Recent studies have shown that copper (Cu) exchanged chabazite (CHA) type zeolites are very promising catalysts for urea or ammonia (NH3) …

Phylogeny And Ancestral Genome Reconstruction From Gene Order Using Maximum Likelihood And Binary Encoding, Fei Hu

Theses and Dissertations

Over the long history of genome evolution, genes get rearranged under events such as rearrangements, losses, insertions and duplications, which in all change the ordering and content along the genome. Recent progress in genome-scale sequencing renews the challenges in the reconstructions of phylogeny and ancestral genomes with gene-order data. Such problems have been proved so interesting that a large number of algorithms have been developed rigorously over the past few years in attempts to tackle these problems following various principles. However, difficulties and limitations in performance and scalability largely prevent us from analyzing emerging modern whole-genome data, our study presented …

Insects As Indicators Of Environmental Stress, De Anna Estella Beasley

Theses and Dissertations

In the face of climate change-related events and anthropogenic disturbances, understanding the impacts of these events on species richness, abundance and distribution is important for us to mitigate biodiversity loss and better predict consequences for the environment and for human life. Insects are excellent models for understanding the consequences of environmental stress due to the sensitivity of their development and behavior. The overall focus of my dissertation research is the investigation of fluctuating asymmetry and oviposition behavior as indicators of environmental stress. My research includes a meta-analysis of published literature, and empirical research that was part of a collaborative initiative …

Analysis Of Relaxin And Acute-Phase Proteins In Urine And Feces For Canine Pregnancy Diagnosis, Vanna Gail Mcmillan

Theses and Dissertations

Measurements of relaxin and acute-phase proteins have not been validated for use in canine serum as a method of pregnancy diagnosis. This means that handling and anesthesia is still necessary to check the pregnancy status of most non-domestic canines. Therefore, the intention of this study was to determine whether relaxin and/or acute-phase proteins could be detected in the urine and/or feces of the domestic dog in order to evaluate the potential for a noninvasive pregnancy test in canines. Blood, urine and feces were collected from 18 domestic dogs and assayed for the presence of relaxin, fibrinogen, alpha-1 acid glycoprotein, and …