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Dubious Role Of Mycobacterium Paratuberculosis In Pathogenesis Of Type I Diabetes, Saisathya Thanigachalam Jan 2012

Dubious Role Of Mycobacterium Paratuberculosis In Pathogenesis Of Type I Diabetes, Saisathya Thanigachalam

Electronic Theses and Dissertations

Background: Type 1 Diabetes mellitus (TIDM) is a chronic disorder in which the insulin producing beta cells are selectively self-destroyed. Although the etiology of the disease has not been determined, genetic dispositions such as SLC11A1 polymorphism in suffering patients have been reported. The role of pathogenic microorganisms such as Mycobacterium avium subspecies paratuberculosis (MAP) in TIDM has also been recently debated. MAP is already known to cause paratuberculosis in cattle and now it is a strong suspect of causing autoimmune diseases in humans such as Crohn’s disease, multiple sclerosis, autoimmune Thyroiditis, rheumatoid arthritis and autoimmune diabetes. We hypothesis that molecular …

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Community Participation And Travel Choice: An Analysis Of Central Florida New Urban And Conventional Suburban Residents, Laura P. Mikovsky Jan 2012

Community Participation And Travel Choice: An Analysis Of Central Florida New Urban And Conventional Suburban Residents, Laura P. Mikovsky

Electronic Theses and Dissertations

Previous research has demonstrated a relationship between the built environment and social and transportation outcomes when comparing traditional and conventional suburban neighborhoods, but much remains to be learned about whether New Urbanism can produce similar results. Among studies where new urban neighborhoods have been assessed, most have centered on regions with highly-utilized public transit systems and with climates that are amenable to utilitarian physical activity. This research sought to build on the existing research base through direct comparison of new urban and conventional suburban neighborhoods in central Florida, a region with an under-developed transit system and a climate that renders …

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Transplantation Of Pluripotent Stem Cells Confers Cardiac Protection In Dox-Induced Heart Failure Through Notch-1 Pathway, Hilda Merino-Chavez Jan 2012

Transplantation Of Pluripotent Stem Cells Confers Cardiac Protection In Dox-Induced Heart Failure Through Notch-1 Pathway, Hilda Merino-Chavez

Electronic Theses and Dissertations

Doxorubicin (DOX) is the antineoplastic drug of preference used to treat a wide variety of malignancies, with high survival rates among treated patients. However, the benefits of this drug have become less appealing due to the side effects that occur such as DOX-induced cardiomyopathy (DIC) and an increased risk of myocardial infarction (MI). Therefore, there is an urgent need to explore the therapeutic options to treat DIC. In this context, adult stem cells have been used as a source to reduce cardiomyocyte apoptosis in DIC; however, the effects of transplanted embryonic stem (ES) cells and induced pluripotent stem (iPS) cells …

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The Gender Gap In Technical Communication: How Women Challenge The Predominant Objectivist Paradigm, Nathan Bower Jan 2012

The Gender Gap In Technical Communication: How Women Challenge The Predominant Objectivist Paradigm, Nathan Bower

Electronic Theses and Dissertations

Women are currently underrepresented in the Science, Technology, Engineering, and Mathematics (STEM) fields. The purpose of this thesis is to explore how this underrepresentation translates to a gender gap in the field of technical communication and how this gap causes women to challenge the predominant objectivist paradigm in the field. Through an investigation of peer-reviewed journal articles, periodicals, critical theory, and articles published in online magazines such as Slate, I identify the gendered nature of modern technology and discuss to what extent a shift in the predominant paradigm has occurred in the professional arena. In looking at several theoretical approaches …

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Limk1 Promotes Mt1-Mmp Expression And Localization To The Plasma Membrane, Richard Ottman Jan 2012

Limk1 Promotes Mt1-Mmp Expression And Localization To The Plasma Membrane, Richard Ottman

Electronic Theses and Dissertations

LIM Kinase 1 (LIMK1), a serine/threonine kinase, modulates actin polymerization and microtubule assembly. The function of LIMK1 is regulated by kinases that are activated by Rho and Rac GTPases. LIMK1 is overexpressed in various cancerous cell types and tissues and its overexpression promotes increased invasion and metastasis of breast and prostate cancer cells. Membrane-Type Matrix Metalloproteinase 1 (MT1-MMP) is a member of the zinc-binding collagenase family, which is involved in extracellular matrix breakdown and activation of secreted MMP-2. The balance between activation and inhibition of MT1- MMP and MMP-2 helps maintaining normal extracellular matrix turnover. However, it has been shown …

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A Novel Link Between Akt1 And Twist1 In Ovarian Tumor Cell Motility And Invasiveness, Nirav Shah Jan 2012

A Novel Link Between Akt1 And Twist1 In Ovarian Tumor Cell Motility And Invasiveness, Nirav Shah

Electronic Theses and Dissertations

Ovarian cancer results in more deaths per year than any other cancer of the female reproductive system. The low survival rate is partly due to the lack of early detection and the susceptibility to relapse. The AKT serine threonine kinase plays a pivotal role in hallmark cellular processes for the progression of ovarian cancer, including tumor cell growth and migration. Therapeutic targeting of pan-AKT has been problematic, in part due to feedback mechanisms and crosstalk with other pathways. The hypothesis for this study is that AKT 1, -2 and -3 isoforms may have different roles and regulate cell processes in …

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Species And Habitat Interactions Of The Gopher Tortoise: A Keystone Species?, Christopher Catano Jan 2012

Species And Habitat Interactions Of The Gopher Tortoise: A Keystone Species?, Christopher Catano

Electronic Theses and Dissertations

Species-species and species-habitat interactions have been demonstrated to be important in influencing diversity across a variety of ecosystems. Despite generalities in the importance of these interactions, appropriate mechanisms to explain them are absent in many systems. In sandhill systems of the southeast U.S., gopher tortoises have been hypothesized to be a crucial species in the maintenance of diversity and function. However, the mechanisms and magnitude in which they influence their communities and habitats have rarely been empirically quantified. I examined how habitat structure influences tortoise abandonment of burrows and how tortoise densities influence nonvolant vertebrate community diversity. Tortoise burrow abandonment …

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Determining The Impacts Of Beach Restoration On Loggerhead (Caretta Caretta) And Green Turtle (Chelonia Mydas) Nesting Patterns And Reproductive Success Along Florida's Atlantic Coast, Allison Whitney Hays Jan 2012

Determining The Impacts Of Beach Restoration On Loggerhead (Caretta Caretta) And Green Turtle (Chelonia Mydas) Nesting Patterns And Reproductive Success Along Florida's Atlantic Coast, Allison Whitney Hays

Electronic Theses and Dissertations

Artificial beach nourishment, the most common method to mitigate coastal erosion in the United States, is also considered the most ecologically friendly alternative for shoreline stabilization. However, this habitat alteration has the potential to impact nesting marine turtles and developing hatchlings. The first objective of this study was to determine how nourishing beaches with two different design templates affects loggerhead (Caretta caretta) and green turtle (Chelonia mydas) nesting success, the ratio of nests to the total number of nests and non-nesting emergences, and reproductive success, the ratio of hatched and emerged hatchlings to the total number of eggs deposited. Two …

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Phylogenetic Community Structure Of Aquatic Beetle Assemblages In A Multi-Wetland Experiment, Sandor Lawrence Kelly Jan 2012

Phylogenetic Community Structure Of Aquatic Beetle Assemblages In A Multi-Wetland Experiment, Sandor Lawrence Kelly

Electronic Theses and Dissertations

Phylogenetic Community Structure (PCS) metrics are becoming more common in community ecology. PCS metrics estimate the phylogenetic relatedness among members of an ecological community or assemblage. If ecological traits are conserved, then phylogenetic clustering (i.e., taxa are more closely related than expected by chance) indicates habitat filtering as the key process in community assembly. On the other hand, a pattern of phylogenetic overdispersion (i.e., taxa are more distantly related than expected by chance) suggests competition is dominant. Most studies to date have used PCS of unmanipulated ecosystems, but the value of PCS metrics will be best revealed in experiments. This …

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Direct Measurement Of Thicknesses, Volumes Or Compositions Of Nanomaterials By Quantitative Atomic Number Contrast In High-Angle Annular Dark-Field Scanning Transmission Electron Microscopy, Biao Yuan Jan 2012

Direct Measurement Of Thicknesses, Volumes Or Compositions Of Nanomaterials By Quantitative Atomic Number Contrast In High-Angle Annular Dark-Field Scanning Transmission Electron Microscopy, Biao Yuan

Electronic Theses and Dissertations

The sizes, shapes, volumes and compositions of nanoparticles are very important parameters determining many of their properties. Efforts to measure these parameters for individual nanoparticles and to obtain reliable statistics for a large number of nanoparticles require a fast and reliable method for 3-D characterization. In this dissertation, a direct measurement method for thicknesses, volumes or compositions of nanomaterials by quantitative atomic number contrast in High-Angle Annular Dark-Field (HAADF) Scanning Transmission Electron Microscopy (STEM) is presented. A HAADF detector collects electrons scattered incoherently to high angles. The HAADF signal intensity is in first-order approximation proportional to the sample thickness and …

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Third Order Nonlinearity Of Organic Molecules, Honghua Hu Jan 2012

Third Order Nonlinearity Of Organic Molecules, Honghua Hu

Electronic Theses and Dissertations

The main goal of this dissertation is to investigate the third-order nonlinearity of organic molecules. This topic contains two aspects: two-photon absorption (2PA) and nonlinear refraction (NLR), which are associated with the imaginary and real part of the third-order nonlinearity (χ (3)) of the material, respectively. With the optical properties tailored through meticulous molecular structure engineering, organic molecules are promising candidates to exhibit large third-order nonlinearities. Both linear (absorption, fluorescence, fluorescence excitation anisotropy) and nonlinear (Z-scan, two-photon fluorescence, pump-probe) techniques are described and utilized to fully characterize the spectroscopic properties of organic molecules in solution or solid-state form. These properties …

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Molecular Mechanisms Involved In Inflammatory Angiogenesis Induced By Monocyte Chemotactic Protein Induced Protein-1 (Mcpip1), Arpita Roy Jan 2012

Molecular Mechanisms Involved In Inflammatory Angiogenesis Induced By Monocyte Chemotactic Protein Induced Protein-1 (Mcpip1), Arpita Roy

Electronic Theses and Dissertations

Major diseases such as cardiovascular diseases, diabetes, obesity and tumor growth are known to involve inflammatory angiogenesis. MCP-induced protein 1 (MCPIP1) encoded by ZC3H12A gene, was reported to promote angiogenesis and is addressed in my dissertation as MCPIP. The mechanism/s involved in the angiogenic differentiation induced by MCPIP was however unknown. The aim of this study was to bridge this gap in our knowledge and delineate the molecular mechanisms and sequential processes involved in angiogenesis mediated via MCPIP. To determine if angiogenesis induced by inflammatory cytokines, TNF-, IL-1 and IL-8 is mediated via induction of MCPIP, knockdown of MCPIP by …

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Infraded Surface Plasmon Polaritons On Semiconductor, Semimetal And Conducting Polymer, Monas Shahzad Jan 2012

Infraded Surface Plasmon Polaritons On Semiconductor, Semimetal And Conducting Polymer, Monas Shahzad

Electronic Theses and Dissertations

Conductors with IR (infrared) plasma frequencies are potentially useful hosts of surface plasmon polaritons (SPPs) with subwavelength mode confinement for sensing applications. The underlying aim of this work is to identify such conductors that also have sharp SPP excitation resonances for biosensor applications at infrared (3-11 m) wavelengths, where biological analytes are strongly differentiated by their IR absorption spectra. In this work, various materials were investigated such as a heavily doped semiconductor, a semimetal, a conducting polymer and its composite. Heavily doped silicon was investigated by tuning its plasma frequency to the infrared region by heavily doping. The measured complex …

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The Behavior Of Cerium Oxide Nanoparticles In Polymer Electrolyte Membranes In Ex-Situ And In-Situ Fuel Cell Durability Tests, Benjamin Pearman Jan 2012

The Behavior Of Cerium Oxide Nanoparticles In Polymer Electrolyte Membranes In Ex-Situ And In-Situ Fuel Cell Durability Tests, Benjamin Pearman

Electronic Theses and Dissertations

Fuel cells are known for their high efficiency and have the potential to become a major technology for producing clean energy, especially when the fuel, e.g. hydrogen, is produced from renewable energy sources such as wind or solar. Currently, the two main obstacles to wide-spread commercialization are their high cost and the short operational lifetime of certain components. Polymer electrolyte membrane (PEM) fuel cells have been a focus of attention in recent years, due to their use of hydrogen as a fuel, their comparatively low operating temperature and flexibility for use in both stationary and portable (automotive) applications. Perfluorosulfonic acid …

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Landscaping Perceptions And Behaviors: Socio-Ecological Drivers Of Nitrogen In The Residential Landscape, Leesa Souto Jan 2012

Landscaping Perceptions And Behaviors: Socio-Ecological Drivers Of Nitrogen In The Residential Landscape, Leesa Souto

Electronic Theses and Dissertations

Driven by individual influences such as beliefs, attitudes, personal norms, and abilities, as well as by social influences like community norms, mandates, and the market, suburban homeowners are motivated to select and maintain a turf grass landscape. In many areas of Florida, effective suburban lawn maintenance requires regular inputs of nitrogenous fertilizer, some of which is lost to the environment, contributing to water quality degradation and ecosystem dysfunction. Reducing nitrogen inputs to aquatic systems requires a better understanding of the links between residential landscape management and the potential for fertilizer loss. This dissertation examines the linkages between the human behaviors …

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The Relationship Between Identity And Intimacy As Moderated By Culture, Garima Jhingon Jan 2012

The Relationship Between Identity And Intimacy As Moderated By Culture, Garima Jhingon

Electronic Theses and Dissertations

Several important developmental processes occur in the young adulthood period. Young adults form their identities, determine trajectories regarding careers, and typically they form intimate relationships. Erikson (1963) stated that healthy identity development during adolescence is a necessary precursor to intimacy in romantic relationships during emerging adulthood. Although findings from cross-sectional and short-term longitudinal studies somewhat confirm the proposed link between identity and intimacy development, none of them addresses the role of culture in moderating Erikson‘s tenets of developmental ordering. The primary goal of the present investigation was to determine the role of cultural orientation in identity and intimacy development among …

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Understanding Phonological Memory Deficits In Boys With Attention-Deficit/Hyperactivity Disorder (Adhd): Dissociation Of Short-Term Storage And Articulatory Rehearsal Processes, Jennifer Bolden Jan 2012

Understanding Phonological Memory Deficits In Boys With Attention-Deficit/Hyperactivity Disorder (Adhd): Dissociation Of Short-Term Storage And Articulatory Rehearsal Processes, Jennifer Bolden

Electronic Theses and Dissertations

The current study dissociated and examined the two primary components of the phonological working memory subsystem – the short-term store and articulatory rehearsal mechanism – in boys with ADHD (n = 18) relative to typically developing boys (n = 15). Word lists of increasing length (2, 4, and 6 words per trial) were presented to and recalled by children following a brief (3 s) interval to assess their phonological short-term storage capacity. Children’s ability to utilize the articulatory rehearsal mechanism to actively maintain information in the phonological short-term store was assessed using word lists at their established memory span but …

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Predictors Of Immunosuppressant Adherence In Long-Term Renal Transplant Recipients, Sandra J. Galura Jan 2012

Predictors Of Immunosuppressant Adherence In Long-Term Renal Transplant Recipients, Sandra J. Galura

Electronic Theses and Dissertations

To sustain the health and viability of renal transplants, adherence to immunosuppressant therapy (IST) medications is critical. Studies continue to identify decreased adherence rates as time from transplant increases (Chisholm-Burns, Kwong, Mulloy & Spivey, 2008; Chisholm, Lance, Mulloy, 2005; Chisholm, Mulloy, & DiPiro, 2005; Nivens & Thomas, 2009). While previous research has explored the effect of variables known to influence IST adherence in adult renal transplant recipients, limited studies have explored these variables in a population of renal transplant recipients with longer time posttransplant intervals. The purpose of this study was to examine demographic variables, time posttransplant, immunosuppressive agents, health …

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The Dynamic Functions Of Bax Are Dependent On Key Structural And Regulatory Features, Rebecca Boohaker Jan 2012

The Dynamic Functions Of Bax Are Dependent On Key Structural And Regulatory Features, Rebecca Boohaker

Electronic Theses and Dissertations

Bax is an essential mediator of cell fate. Since its discovery in 1985 as a protein that interacts with the anti-apoptotic protein, Bcl-2, key elements related to its function, structure and regulation remains to be determined. To this end, mitochondrial metabolism was examined in non-apoptotic Bax-deficient HCT-116 cells as well as primary hepatocytes from Bax-deficient mice. Although mitochondrial density and mitochondrial DNA content was the same in Bax-containing and Bax -deficient cells, MitoTracker staining patterns differed, suggesting the existence of Bax -dependent functional differences in mitochondrial physiology. Oxygen consumption and cellular ATP levels were reduced in Bax -deficient cells, while …

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Algorithms For Community Identification In Complex Networks, Mahadevan Vasudevan Jan 2012

Algorithms For Community Identification In Complex Networks, Mahadevan Vasudevan

Electronic Theses and Dissertations

First and foremost, I would like to extend my deepest gratitude to my advisor, Professor Narsingh Deo, for his excellent guidance and encouragement, and also for introducing me to this wonderful science of complex networks. Without his support this dissertation would not have been possible. I would also like to thank the members of my research committee, professors Charles Hughes, Ratan Guha, Mainak Chatterjee and Yue Zhao for their advice and guidance during the entire process. I am indebted to the faculty and the staff of the Department of Electrical Engineering and Computer Science for providing me the resources and …

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A Laser Radar Employing Linearly Chirped Pulses From A Mode-Locked Laser For Long Range, Unambiguous, Sub-Millimeter Resolution Ranging And Velocimetry, Mohammad Umar Piracha Jan 2012

A Laser Radar Employing Linearly Chirped Pulses From A Mode-Locked Laser For Long Range, Unambiguous, Sub-Millimeter Resolution Ranging And Velocimetry, Mohammad Umar Piracha

Electronic Theses and Dissertations

Light detection and ranging (lidar) is used for various applications such as remote sensing, altimetry and imaging. In this talk, a linearly chirped pulse source is introduced that generates wavelength-swept pulses exhibiting ~6 nm optical bandwidth with > 20 km coherence length. The chirped pulses are used in an interferometric lidar setup to perform distance measurements with sub-millimeter resolution (using pulses that are a few meters long), at target distances > 10 km, with at least 25 dB signal-to-noise ratio at the receiver. A pulse repetition rate of 20 MHz provides fast update rates, while chirped pulse amplification allows easy amplification of …

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Evolution Through The Search For Novelty, Joel Lehman Jan 2012

Evolution Through The Search For Novelty, Joel Lehman

Electronic Theses and Dissertations

I present a new approach to evolutionary search called novelty search, wherein only behavioral novelty is rewarded, thereby abstracting evolution as a search for novel forms. This new approach contrasts with the traditional approach of rewarding progress towards the objective through an objective function. Although they are designed to light a path to the objective, objective functions can instead deceive search into converging to dead ends called local optima. As a significant problem in evolutionary computation, deception has inspired many techniques designed to mitigate it. However, nearly all such methods are still ultimately susceptible to deceptive local optima because they …

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Bst-Inspired Smart Flexible Electronics, Ya Shen Jan 2012

Bst-Inspired Smart Flexible Electronics, Ya Shen

Electronic Theses and Dissertations

The advances in modern communication systems have brought about devices with more functionality, better performance, smaller size, lighter weight and lower cost. Meanwhile, the requirement for newer devices has become more demanding than ever. Tunability and flexibility are both long-desired features. Tunable devices are ‘smart’ in the sense that they can adapt to the dynamic environment or varying user demand as well as correct the minor deviations due to manufacturing fluctuations, therefore making it possible to reduce system complexity and overall cost. It is also desired that electronics be flexible to provide conformability and portability. Previously, tunable devices on flexible …

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4d-Ct Lung Registration And Its Application For Lung Radiation Therapy, Yugang Min Jan 2012

4d-Ct Lung Registration And Its Application For Lung Radiation Therapy, Yugang Min

Electronic Theses and Dissertations

Radiation therapy has been successful in treating lung cancer patients, but its efficacy is limited by the inability to account for the respiratory motion during treatment planning and radiation dose delivery. Physics-based lung deformation models facilitate the motion computation of both tumor and local lung tissue during radiation therapy. In this dissertation, a novel method is discussed to accurately register 3D lungs across the respiratory phases from 4D-CT datasets, which facilitates the estimation of the volumetric lung deformation models. This method uses multi-level and multi-resolution optical flow registration coupled with thin plate splines (TPS), to address registration issue of inconsistent …

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Rare Earth Oxide Coating With Controlled Chemistry Using Thermal Spray, Virendra Singh Jan 2012

Rare Earth Oxide Coating With Controlled Chemistry Using Thermal Spray, Virendra Singh

Electronic Theses and Dissertations

Cerium oxide (Ceria) at nano scale has gained significant attention due to its numerous technological applications. Ceria in both doped and undoped forms are being explored as oxygen sensor, catalysis, protective coating against UV and corrosion, solid oxide fuel cell (SOFC) electrolyte and newly discovered antioxidant for biomedical applications. Therefore, there is an imminent need of a technology which can provide a cost effective, large scale manufacturing of nanoceria and its subsequent consolidation, specially using thermal spray. This dissertation aims to develop a scientific understanding towards the development of pure and doped ceria- based coating for a variety of technological …

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Virtual Motion Camouflage Based Nonlinear Constrained Optimal Trajectory Design Method, Gareth Basset Jan 2012

Virtual Motion Camouflage Based Nonlinear Constrained Optimal Trajectory Design Method, Gareth Basset

Electronic Theses and Dissertations

Nonlinear constrained optimal trajectory control is an important and fundamental area of research that continues to advance in numerous fields. Many attempts have been made to present new methods that can solve for optimal trajectories more efficiently or to improve the overall performance of existing techniques. This research presents a recently developed bio-inspired method called the Virtual Motion Camouflage (VMC) method that offers a means of quickly finding, within a defined but varying search space, the optimal trajectory that is equal or close to the optimal solution. The research starts with the polynomial-based VMC method, which works within a search …

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Exposure To Silver Nanoparticles Inhibits Selenoprotein Synthesis And The Activity Of Thioredoxin Reductase, Milan Srivastava, Sanjay Singh, William T. Self Jan 2012

Exposure To Silver Nanoparticles Inhibits Selenoprotein Synthesis And The Activity Of Thioredoxin Reductase, Milan Srivastava, Sanjay Singh, William T. Self

Faculty Bibliography 2010s

BACKGROUND: Silver nanoparticles (AgNPs) and silver (Ag)-based materials are increasingly being incorporated into consumer products, and although humans have been exposed to colloidal Ag in many forms for decades, this rise in the use of Ag materials has spurred interest into their toxicology. Recent reports have shown that exposure to AgNPs or Ag ions leads to oxidative stress, endoplasmic reticulum stress, and reduced cell proliferation. Previous studies have shown that Ag accumulates in tissues as silver sulfides (Ag2S) and silver selenide (Ag2Se). OBJECTIVES: In this study we investigated whether exposure of cells in culture to AgNPs or Ag ions at …

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Virk Is A Periplasmic Protein Required For Efficient Secretion Of Plasmid-Encoded Toxin From Enteroaggregative Escherichia Coli, Gabriela Tapia-Pastrana, Lucia Chavez-Dueñas, Humberto Lanz-Mendoza, Ken Teter, Fernando Navarro-Garcí Jan 2012

Virk Is A Periplasmic Protein Required For Efficient Secretion Of Plasmid-Encoded Toxin From Enteroaggregative Escherichia Coli, Gabriela Tapia-Pastrana, Lucia Chavez-Dueñas, Humberto Lanz-Mendoza, Ken Teter, Fernando Navarro-Garcí

Faculty Bibliography 2010s

Despite the autotransporter (AT) moniker, AT secretion appears to involve the function of periplasmic chaperones. We identified four periplasmic proteins that specifically bound to plasmid-encoded toxin (Pet), an AT produced by enteroaggregative Escherichia coli (EAEC). These proteins include the 17-kDa Skp chaperone and the 37-kDa VirK protein. We found that the virK gene is present in different Enterobacteriaceae. VirK bound to misfolded conformations of the Pet passenger domain, but it did not bind to the folded passenger domain or to the beta domain of Pet. Assays with an EAEC Delta virK mutant and its complemented version showed that, in the …

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Detection Of Toxin Translocation Into The Host Cytosol By Surface Plasmon Resonance, Michael Taylor, Tuhina Banerjee, Neyda Vanbennekom, Ken Teter Jan 2012

Detection Of Toxin Translocation Into The Host Cytosol By Surface Plasmon Resonance, Michael Taylor, Tuhina Banerjee, Neyda Vanbennekom, Ken Teter

Faculty Bibliography 2010s

AB toxins consist of an enzymatic A subunit and a cell-binding B subunit(1). These toxins are secreted into the extracellular milieu, but they act upon targets within the eukaryotic cytosol. Some AB toxins travel by vesicle carriers from the cell surface to the endoplasmic reticulum (ER) before entering the cytosol(2-4). In the ER, the catalytic A chain dissociates from the rest of the toxin and moves through a protein-conducting channel to reach its cytosolic target(5). The translocated, cytosolic A chain is difficult to detect because toxin trafficking to the ER is an extremely inefficient process: most internalized toxin is routed …

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Detecting Transcription Of Ribosomal Protein Pseudogenes In Diverse Human Tissues From Rna-Seq Data, Peter Tonner, Vinodh Srinivasasainagendra, Shaojie Zhang, Degui Zhi Jan 2012

Detecting Transcription Of Ribosomal Protein Pseudogenes In Diverse Human Tissues From Rna-Seq Data, Peter Tonner, Vinodh Srinivasasainagendra, Shaojie Zhang, Degui Zhi

Faculty Bibliography 2010s

Background: Ribosomal proteins (RPs) have about 2000 pseudogenes in the human genome. While anecdotal reports for RP pseudogene transcription exists, it is unclear to what extent these pseudogenes are transcribed. The RP pseudogene transcription is difficult to identify in microarrays due to potential cross-hybridization between transcripts from the parent genes and pseudogenes. Recently, transcriptome sequencing (RNA-seq) provides an opportunity to ascertain the transcription of pseudogenes. A challenge for pseudogene expression discovery in RNA-seq data lies in the difficulty to uniquely identify reads mapped to pseudogene regions, which are typically also similar to the parent genes. Results: Here we developed a …

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