Physical Sciences and Mathematics Commons^™

Design And Synthesis Of Cationic Steroid Antimicrobial Compounds, Synthesis Of Glycolipids Recognized By Natural Killer T Cells And Development Of Tlr-1, Tlr-6 Heterodimer Binders And Studies Of Their Immunology Activities, Yanshu Feng

Theses and Dissertations

Cationic steroid antimicrobial agents (CSAs) are a family of bile acid derivatives. These compounds are amphiphilic and mimic endogenous antimicrobial peptides. The antimicrobial activities of CSA-13 have been investigated and due to portent bactericidal activities and low toxicity, a large amount of CSA-13 is demanded for clinic trails and other antimicrobial applications. During our studies, we optimized the synthetic route of CSA-13, so that it can be prepared at the kilogram, even in tons scale. We investigated three routes and one of them is suitable for industry, because only recrystallization is needed in the synthesis. Natural killer T cells (NKT …

Multivariate Models And Algorithms For Systems Biology, Lipi Rani Acharya

University of New Orleans Theses and Dissertations

Rapid advances in high-throughput data acquisition technologies, such as microarraysand next-generation sequencing, have enabled the scientists to interrogate the expression levels of tens of thousands of genes simultaneously. However, challenges remain in developingeffective computational methods for analyzing data generated from such platforms. In thisdissertation, we address some of these challenges. We divide our work into two parts. Inthe first part, we present a suite of multivariate approaches for a reliable discovery of geneclusters, often interpreted as pathway components, from molecular profiling data with replicated measurements. We translate our goal into learning an optimal correlation structure from replicated complete and incomplete …

Influence Of Weak Interactions On Supramolecular Binding: Characterization Of Cucurbituril Complexes With Alkylmonoammonium Ions Using Fourier Transform Ion Cyclotron Resonance Mass Spectrometry, Ruijan Shi

Theses and Dissertations

This thesis focuses on using mass spectrometry-based techniques for characterizing the structure and behavior of cucurbituril complexes in the gas phase. Both solvent and counter ion effects can be completely eliminated in the gas phase and the intrinsic interactions in the system are directly shown in the experimental results. Chapter 1 introduces the structures, properties and host-guest chemistry of cucurbituril, and FTICR mass spectrometry including instrumentation, performance and working principles. Two mass spectrometry-based methods for supramolecular characterization, sustained off-resonance irradiation collision induced dissociation (SORI CID) and ion molecule equilibrium measurements, are also discussed in this chapter. Chapter 2 characterizes the …

Mechanism Of G Protein Beta-Gamma Assembly Mediated By Phosducin-Like Protein 1, Chun Wan Jeffrey Lai

Theses and Dissertations

G-protein coupled receptor signaling (GPCR) is essential for regulating a large variety of hormonal, sensory and neuronal processes in eukaryotic cells. Because the regulation of these physiological responses is critical, GPCR signaling pathways are carefully controlled at different levels within the cascade. Phosducin-like protein 1 (PhLP1) can bind the G protein βγ dimer and participate in GPCR signaling. Recent evidence has supported the concept that PhLP1 can serve as a co-chaperone of the eukaryotic cytosolic chaperonin complex CCT/TRiC to mediate G βγ assembly. Although a general mechanism of PhLP1-mediated G βγ assembly has been postulated, many of the details about …

Lesson Not Learned: Deepwater Horizon Research And Media Coverage Exposes Gaps In Knowledge And Risky Protocol Within The Oil Industry, Lauren Haller

Honors Theses

An insatiable thirst for oil has led poorly coordinated, risk-prone megasystems deeper into the ocean in search of new oil reserves. Profit-driven agendas at the corporate level have a top-down effect within these megasystems. Cost-cutting and risk-downplaying leaves the field employees unprepared to handle emergencies. A series of costly mistakes led to the 2010 BP Deepwater Horizon oil spill, which caused extensive damage to an already fragile ecosystem in the Gulf of Mexico. The wealth and political influence of the oil industry overpowers lax regulatory agencies and legislation-even though media and research has exposed frustrating parallels between the Deepwater Horizon …

An Evaluation Of Disturbance-Induced Nutrient Changes And Climate Responses Of Loblolly Pine Xylem, Rebecca Lynne Stratton

Doctoral Dissertations

Dendrochronological techniques are currently limited to the identification of visible fire scars. However, through the development of new dendrochemical techniques, the potential exists to provide insight into a broader array of pyric ecosystems. In addition, the ability to identify historic climate-growth responses provides a better understanding of the conditions under which historic fire regimes occurred.

This study provides the groundwork for the identification of a dendrochemical nutrient fire signature in xylem and identifies the climate-radial growth responses of loblolly pine (Pinus taeda L.) on five sites in the Piedmont of South Carolina. Changes in N, P, K, Ca, Mg, …

Development And Application Of Liquid Chromatography-Tandem Mass Spectrometry Methods To The Understanding Of Metabolism And Cell-Cell Signaling In Several Biological Systems, Jessica Renee Gooding

Doctoral Dissertations

Liquid chromatography tandem mass spectrometry has become a powerful tool for investigating biological systems. Herein we describe the development of both isotope dilution mass spectrometry methods and targeted metabolomics methods for the study of metabolic and cell-cell signaling applications.

A putative yeast enzyme was characterized by discovery metabolite profiling, kinetic flux profiling, transcriptomics and structural biology. These experiments demonstrated that the enzyme shb17 was a sedoheptulose bisphosphatase that provides a thermodynamically dedicated step towards riboneogenesis, leading to the redefinition of the canonical pentose phosphate pathway.

An extension of metabolic profiling and kinetic flux profiling methods was developed for a set …

Synthesis Of An Antimicrobial Textile Coating, William M. Morris

Chemistry and Biochemistry

A titania nanosol was synthesized and coated onto nylon/cotton blended textile substrates. The substrates were characterized via SEM for adhesion and nanoparticle formation, then subjected to antimicrobial efficacy tests. The titania nanosol was successfully coated on to textiles samples. Particles were observed to be around 2 by 3 micrometers and formed between the interstitial space of textile fibers. Although larger than typical nanoparticles, the coatings exhibited what seemed to be antimicrobial activity. Titania nanosol coated textile samples were subjected to Kirby Bauer Assay in the presence of S. aureus. The coated textile sample exhibited an inhibition of growth around its …

Simulated Effects Of Varied Landscape-Scale Fuel Treatments On Carbon Dynamics And Fire Behavior In The Klamath Mountains Of California, Kevin J. Osborne

Master's Theses

I utilized forest growth model (FVS-FFE) and fire simulation software (FlamMap, Randig), integrated through GIS software (ArcMap9.3), to quantify the impacts varied landscape-scale fuel treatments have on short-term onsite carbon loss, long-term onsite carbon storage, burn probability, conditional flame length, and mean fire size. Thirteen fuel treatment scenarios were simulated on a 42,000 hectare landscape in northern California: one untreated, three proposed by the US Forest Service, and nine that were spatially-optimized and developed with the Treatment Optimization Model in FlamMap. The nine scenarios developed in FlamMap varied by treatment intensity (10%, 20%, and 30% of the landscape treated) and …

Environmental Impact Of The Three Kids Mine Tailings, Henderson, Nv, Ji Hye Park

UNLV Theses, Dissertations, Professional Papers, and Capstones

This research focused on the distribution of the Three Kids Mine tailings in surface soils in and around the mine in Henderson, Nevada. It is situated next to the communities of Calico Ridge and Lake Las Vegas Resort, and, just the west of the Lake Mead Recreation area. Even though the mine has been inactive for almost 50 years (1917-1961), tailing piles and other sources of contamination on the mine are currently exposed to the atmosphere. In this study, surface soil samples were collected along eight transects emanating from the center of Three Kids Mine tailing piles up to five …

Modelling Β2ar Regulation, Sharat J. Vayttaden

Dissertations & Theses (Open Access)

The β2 adrenergic receptor (β2AR) regulates smooth muscle relaxation in the vasculature and airways. Long- and Short-acting β-agonists (LABAs/SABAs) are widely used in treatment of chronic obstructive pulmonary disorder (COPD) and asthma. Despite their widespread clinical use we do not understand well the dominant β2AR regulatory pathways that are stimulated during therapy and bring about tachyphylaxis, which is the loss of drug effects. Thus, an understanding of how the β2AR responds to various β-agonists is crucial to their rational use. Towards that end we have developed deterministic models that explore the mechanism of drug- induced β2AR regulation. These mathematical models …

A Landscape Approach To Late Prehistoric Settlement And Subsistence Patterns In The Mojave Sink, Tiffany Ann Thomas

UNLV Theses, Dissertations, Professional Papers, and Capstones

The environment of the Late Prehistoric period (1200 A.D. to Historic Contact) Mojave Sink was wetter than modern conditions. The settlement and subsistence patterns of the occupants of the region during this period were driven by the availability of water, subsistence resources, raw material sources, and tradition. These people utilized the regional landscape based upon the seasonal availability of these resources. Supplemental agricultural production has been proposed for the Mojave River Delta due to the more favorable environmental conditions of this period. If agriculture was being practiced it would have affected the regional land-use patterns. For this thesis I propose …

Visualizing The Spatial Localization Of Active Matrix Metalloproteinases (Mmps) Using Maldi Imaging Ms, Sasirekha Muruganantham

Graduate Theses and Dissertations

Biomaterial implantation induces the foreign body response (FBR). Development of longer-term implants relies on the thorough understanding of the FBR. The progression of the FBR is regulated by a number of biomolecules including cytokines, chemokines, and matrix metalloproteinases (MMPs). The nature of the FBR requires the spatial and temporal regulation of these mediators. MMPs are an extremely large and diverse group of enzymes that play key roles in regulating the FBR. Precise spatiotemporal regulation of MMPs defines their proteolytic activities. The aim of this project is to develop a new bioanalytical method to visualize the localization of active MMPs at …

Analyzing Spring Freeze Impacts On Deciduous Forest Productivity Using Modis Satellite Imagery, Karl Lintvedt

Graduate Theses and Dissertations

The impacts of an April 2007 spring freeze event on the productivity of deciduous broadleaf forest were analyzed using geographic information system (GIS) tools. Forest productivity was modeled using the Enhanced Vegetation Index (EVI), as recorded by the Moderate Resolution Imaging Spectroradiometer (MODIS) satellite sensor. Measures of spatial autocorrelation were used to quantify the degree of spatial congruence between a map depicting the severity of the freeze event, and maps modeling forest productivity throughout the year. The results show a geographic correlation between the unseasonably low minimum temperatures sustained during the freeze and the unusually low forest productivity that followed. …

Subcritical Water Hydrolysis Of Whey Proteins, Ashley Dawn Espinoza

Graduate Theses and Dissertations

Hydrolyzing food by-products is a unique approach to potentially increase by-product value and reduce waste. An abundant by-product of cheese production, whey, contains all essential amino acids and some distinctive peptides with functional and nutraceutical properties. Typically, proteins from whey are tailored for specific uses by chemical or enzymatic hydrolysis; however, subcritical water hydrolysis is a novel alternative used successfully to hydrolyze various substrates. Nevertheless, minimal research exists on: (1) the hydrolysis of whey protein; (2) the incorporation of additives; (3) the hydrolysis of whole whey; and (4) the production of volatiles when using subcritical water hydrolysis.

Therefore, whey protein …

Microbial Impacts On Endocrine Disrupting Contaminants: Las Vegas Wash And Lake Mead, Nevada, Susanna May Blunt

UNLV Theses, Dissertations, Professional Papers, and Capstones

International concern over endocrine disrupting chemicals (EDCs) has become heightened in recent years as more studies reveal their persistence in the environment and their detrimental effects on wildlife. However, little is known about the role of microorganisms in the fate and transport of these compounds in surface waters. Las Vegas Wash, a stream flowing into Lake Mead and fed primarily by treated wastewater effluent, provided a unique experimental system in which to study the role microorganisms play in the dispersal of these compounds in aquatic systems. Samples were collected from the Las Vegas Wash downstream of the Las Vegas Valley's …

Bryoecology In The American Southwest: Patterns Of Biodiversity And Responses To Global Change, John Carroll Brinda

UNLV Theses, Dissertations, Professional Papers, and Capstones

This dissertation combines investigation of the large-scale responses of bryophyte species diversity and distribution with small-scale physiological adaptations to global change. These two areas of inquiry are linked because one way to predict plant species responses to global change is to examine their distribution across current ecological gradients produced by factors such as latitude and elevation. By examining these biogeographic patterns one can identify those species that have a narrow tolerance and therefore are most sensitive to change. Selected bryophytes might then be used as indicator species in long-term monitoring programs. Where historical data exist, these can be used to …

Capture-Recapture Of White-Tailed Deer Using Dna Sampling From Fecal Pellet-Groups, Matthew James Goode

Masters Theses

Reliable density estimates of game and keystone species such as white-tailed deer (Odocoileus virginianus) are desirable to set proper management strategies and for evaluating those strategies over time. However, traditional methods for estimating white-tailed deer density have been inhibited by behavior, densely forested areas that can hamper observation (detection), and invalid techniques of estimating effective trapping area. We wanted to evaluate a noninvasive method of mark-recapture estimation using DNA extracted from fecal pellets as the individual marker and for gender determination, coupled with a spatial detection function to estimate density (Spatially Explicit Capture-Recapture, SECR). We collected pellet groups …

Field Ecology Patterns Of High Latitude Coral Communities, Kristi A. Foster

HCNSO Student Theses and Dissertations

Some climate models predict that, within the next 30-50 years, sea surface temperatures (SSTs) will frequently exceed the current thermal tolerance of corals (Fitt et al. 2001; Hughes et al. 2003; Hoegh-Guldberg et al. 2007). A potential consequence is that mass coral bleaching may take place (i) during warm El Niño-Southern Oscillation (ENSO) events which are predicted to occur in some regions more frequently than the current 3-7 year periodicity (Hoegh-Guldberg 1999; Sheppard 2003) or (ii) perhaps as often as annually or biannually if corals and their symbionts are unable to acclimate to the higher SSTs (Donner et al. 2005, …

Structure And Dynamics Of The Membrane Protein Bacteriorhodopsin Studied By Mass Spectrometry, Yan Pan

Electronic Thesis and Dissertation Repository

Membrane proteins continue to represent a major challenge for most analytical techniques. Using bacteriorhodopsin (BR) as model system, this work aims to develop mass spectrometry (MS)-based approaches for exploring the structure, dynamics and folding of membrane proteins.

As the first step, BR in its native lipid environment was exposed to hydroxyl radicals, which were produced by laser photolysis of hydrogen peroxide. It was found that the resulting methionine (Met) labeling pattern was consistent with the known BR structure. This finding demonstrates that laser-induced oxidative Met labeling can provide structural information on membrane proteins. In subsequent experiments, the effects of different …

Total Synthesis Of 4'-Ester Resveratrol Analogs And 8.9-Amido Geldanamycin Analog And Toward The Total Synthesis Of (-)-Englerin A, Yong Wang

Theses and Dissertations

Total Synthesis of 4'-ester Resveratrol Analogs and 8, 9-amido Geldanamycin Analog and toward the Total Synthesis of (-)-Englerin A Yong Wang Department of Chemistry and Biochemistry, BYU Doctor of Philosophy The phytoalexin resveratrol and its 4'-ester analogs have been prepared with a decarbonylative Heck reaction. The deprotecting step has been modified and improved to increase yield and avoid chromatography. A set of resveratrol analogs and resveratrol have been tested with melanoma and pancreatic cell assays. The 8, 9-amido Geldanamycin analog has been synthesized with a convergent route, involving 28 simplified steps in its longest linear sequence. Synthetic methodologies, such as …

Circulation Of The Western Antarctic Peninsula: Implications For Biological Production, Maria Andrea Piñones Valenzuela

OES Theses and Dissertations

The western Antarctic Peninsula (wAP) continental shelf is characterized by large persistent populations of Antarctic krill ( Enphausia superba) and by regions of enhanced concentrations of marine mammals and other predators (hot spots). This study focused on understanding the role of ocean circulation in providing retention/connectivity of wAP Antarctic krill populations and in maintaining biological hot spot regions. Numerical Lagrangian particle tracking simulations obtained from the Regional Ocean Modeling System (ROMS) configured for the wAP region provided quantitative estimates of retention, immigration and emigration from the wAP continental shelf. Additional simulations with a one-dimensional temperature-dependent growth model for krill …

Follicular Dendritic Cells, Resting Cd4+ T Cells And Human Immunodeficiency Virus Expression, Changna Wang

Theses and Dissertations

Many events associated with Human Immunodeficiency Virus (HIV) infection/replication occur in and around the germinal centers (GCs) of secondary lymphoid tissues where follicular dendritic cells (FDCs) reside, suggesting that this microenvironment may contribute unique signaling that is important to viral progression. My research focused on characterizing signaling, both positive and negative, contributed by FDCs that affects HIV infection and replication. Specifically, I determined if FDC signals could induce the expression of latent HIV in T cells and if so, to characterize the signaling pathways involved. Moreover, I also examined the ability of FDCs to produce inhibitory signals that might block …

Exploring Bacterial Nanowires: From Properties To Functions And Implications, Kar Man Leung

Electronic Thesis and Dissertation Repository

The discovery of electrically conductive bacterial nanowires from a broad range of microbes provides completely new insights into microbial physiology. Shewanella oneidensis strain MR-1, a dissimilatory metal-reducing bacterium, produces extracellular bacterial nanowires up to tens of micrometers long, with a lateral dimension of ~10 nm. The Shewanella bacterial nanowires are efficient electrical conductors as revealed by scanning probe techniques such as CP-AFM and STM.

Direct electrical transport measurements along Shewanella nanowires reveal a measured nanowire resistivity on the order of 1 Ω∙cm. With electron transport rates up to 10⁹/s at 100 mV, bacterial nanowires can serve as a …

Aryl Acetate Phase Transfer Catalysis: Method And Computation Studies, Meisha A. Binkley

Theses and Dissertations

Brief explanation and history of cinchona based Phase Transfer Catalysis (PTC). Studied aryl acetates in PTC, encompassing napthoyl, 6-methoxy napthoyl, phenyl and protected 4-hydroxy phenyl acetates. Investigated means of controlling the selectivity of the PTC reaction by changing the electrophile size, the ether side group size or by addition of inorganic salts. Found that either small or aromatic electophiles increased enantioselectivity more than aliphatic electrophiles, and that increasing the size of ether protecting group also increased selectivity. Positive effects of salt addition included either decreasing reaction time or increasing enantiomeric excess. Applied findings towards the synthesis of S-equol. Computational experiments …

The Formation And Stability Of Radical-Molecule And Radical-Radical Complexes And Their Importance In Atmospheric Processes, Jared M. Clark

Theses and Dissertations

This research explores the role that radical-molecule complexes play in the chemistry of Earth's atmosphere. The formation of such complexes can have direct and pronounced effects on the reaction and product outcome of atmospheric chemical reactions. Some attention is also given to the formation of radial-radical pre-reactive complexes in the HO + ClO system. Peroxy radicals (RO2) can form stable complexes with polar compounds such as H2O, NH3, and CH3OH. For the simplest RO2 radical, HO2, complex formation (e.g., HO2-H2O, HO2-NH3, and HO2-722;CH3OH) gives rise to a significant increase in the HO2 self-reaction rate constant. Although this phenomenon has been …

Computational Pipeline For Human Transcriptome Quantification Using Rna-Seq Data, Guorong Xu

University of New Orleans Theses and Dissertations

The main theme of this thesis research is concerned with developing a computational pipeline for processing Next-generation RNA sequencing (RNA-seq) data. RNA-seq experiments generate tens of millions of short reads for each DNA/RNA sample. The alignment of a large volume of short reads to a reference genome is a key step in NGS data analysis. Although storing alignment information in the Sequence Alignment/Map (SAM) or Binary SAM (BAM) format is now standard, biomedical researchers still have difficulty accessing useful information. In order to assist biomedical researchers to conveniently access essential information from NGS data files in SAM/BAM format, we have …

Ferritin Diversity: Mechanistic Studies, Disease Implications, And Materials Chemistry, Robert Joseph Hilton

Theses and Dissertations

The study of ferritin includes a rich history of discoveries and scientific progress. Initially, the composition of ferritin was determined. Soon, it was shown that ferritin is a spherical, hollow protein. Eventually, over several decades of research, the structure and some function of this interesting protein was elucidated. However, the ferritin field was not completely satisfied. Today, for example, researchers are interested in refining the details of ferritin function, in discovering the role of ferritin in a variety of diseases, and in using ferritin for materials chemistry applications. The work presented in this dissertation highlights the progress that we have …

Characterization Of The Desorption Electrospray Ionization Mechanism Using Microscopic Imaging Of The Sample Surface, Michael Craig Wood

Theses and Dissertations

Desorption electrospray ionization (DESI) is an ambient ionization technique for mass spectrometry. This solvent based desorption ion source has wide applicability in surface analysis with minimal sample preparation. Interest in improving detection limits, broadening applications, and increasing the spatial resolution for chemical imaging has led to studies of the DESI mechanism. An inverted microscope has been used to image interactions between the DESI spray and test analytes on a glass surface. Microscopic images recorded with millisecond time resolution have provided important insights into the processes governing analyte transport and desorption. These insights are the basis of a rivulet-based model for …

The Characterization Of Avian Polyomavirus, Satellite Tobacco Mosaic Virus, And Bacteriophage Cw02 By Means Of Cryogenic Electron Microscopy, Peter S. Shen

Theses and Dissertations

Viruses are the most abundant biological entity in the biosphere and are known to infect hosts from all domains of life. The aim of my work is to identify conserved and non-conserved features among the capsid structures of related and divergent icosahedral viruses via cryogenic electron microscopy, sequence analysis, molecular modeling, and other techniques. Bird polyomaviruses often cause severe disease in their hosts whereas mammalian polyomaviruses generally do not. Avian polyomavirus is a type of bird polyomavirus with an unusually broad host range compared to the restricted tropism of other polyomaviruses. Although most polyomaviruses have a conserved, rigid capsid protein …