Digital Commons Network^™

Biochemical And Structural Studies Of Aav-2 Rep68-Aavs1 Complex Assembly, Clayton Bishop

Theses and Dissertations

Multiple DNA transactions are at the center of almost all processes regulating the AAV life cycle. A common feature shared by all transactions is the binding of the large AAV Rep proteins Rep78/Rep68 onto DNA sites harboring multiple GCTC repeats. AAV mediated site-specific integration is contingent upon the formation of a productive complex between Rep78/Rep68 and the AAVS1 site located at chromosome 19. In order to understand the mechanistic details of the initial assembly process we carried out equilibrium binding experiments of Rep68 and its individual domains with a 42-mer AAVS1 site. Results show that although Rep68 binds AAVS1 with …

Clusters Bridging Disciplines, Swayamprabha Behera

Theses and Dissertations

Clusters constitute an intermediate state of matter between molecules and solids whose properties are size dependent and can be tailored. In recent years, cluster science has become one of the most exciting areas of research since their study can not only bridge our understanding between atoms and their bulk but also between various disciplines. In addition, clusters can serve as a source of new materials with uncommon properties. This dissertation deals with an in-depth study of clusters as a bridge across physics, chemistry, and materials science and provides a fundamental understanding of the structure-property relationships by focusing on three different …

Modified Seed Growth Of Iron Oxide Nanoparticles In Benzyl Alcohol: Magnetic Nanoparticles For Radio Frequency Hyperthermia Treatment Of Cancer, Stanley E. Gilliland Iii

Theses and Dissertations

Iron oxide nanoparticles have received sustained interest for biomedical applications as synthetic approaches are continually developed for precise control of nanoparticle properties. This thesis presents an investigation of parameters in the benzyl alcohol synthesis of iron oxide nanoparticles. A modified seed growth method was designed for obtaining optimal nanoparticle properties for magnetic fluid hyperthermia. With a one or two addition process, iron oxide nanoparticles were produced with crystallite sizes ranging from 5-20 nm using only benzyl alcohol and iron precursor. The effects of reaction environment, temperature, concentration, and modified seed growth parameters were investigated to obtain precise control over properties …

Experimental Development Of Advanced Air Filtration Media Based On Electrospun Polymer Fibers, Negar Ghochaghi

Theses and Dissertations

Electrospinning is a process by which polymer fibers can be produced using an electrostatically driven fluid jet. Electrospun fibers can be produced at the micro- or nano-scale and are, therefore, very promising for air filtration applications. However, because electrospun fibers are electrically charged, it is difficult to control the morphology of filtration media. Fiber size, alignment and uniformity are very important factors that affect filter performance. The focus of this project is to understand the relationship between filter morphology and performance and to develop new methods to create filtration media with optimum morphology.

This study is divided into three focus …

Fabrication And Characterization Of High Surface Area Gold Electrodes, Madhura S. Damle

Theses and Dissertations

High surface area gold electrodes are very good substrates for biosensors, catalysis and drug delivery. Their performance is characterized by good sensitivity, low detection limit and high signal. As a result, extensive research is being carried out in this field using different approaches of fabrication to generate high surface area porous electrodes of different morphology, pore size and structure. The morphology of the electrodes can be changed based on whether the approach involves a template or not, types of metal deposition, method and time of dealloying etc. The deposition of metal can be carried out using various approaches such as …

Snd1 Mediated Downregulation Of Ptpn23 In Hcc, Nidhi Jariwala

Theses and Dissertations

SND1 MEDIATED DOWNREGULATION OF PTPN23 IN HEPATOCELLULAR CARCINOMA

By Nidhi Jariwala, MS

A thesis submitted in partial fulfillment of the requirements for the degree of Master of Science at Virginia Commonwealth University, 2014.

ADVISOR: Dr. Devanand Sarkar

Associate Professor, Department of Human and Molecular Genetics Blick Scholar Associate Scientific Director, Cancer Therapeutics VCU Institute of Molecular Medicine Massey Cancer Center

ABSTRACT

Staphyloccocal nuclease domain containing protein 1 (SND1) is identified as an oncogene in multiple cancers, including hepatocellular carcinoma (HCC). SND1 regulates gene expression at transcriptional as well as post-transcriptional level and mediates molecular pathways that culminate into carcinogenesis. SND1 …

Tissue Engineering Scaffold Fabrication And Processing Techniques To Improve Cellular Infiltration, Casey Grey

Theses and Dissertations

Electrospinning is a technique used to generate scaffolds composed of nano- to micron-sized fibers for use in tissue engineering. This technology possesses several key weaknesses that prevent it from adoption into the clinical treatment regime. One major weakness is the lack of porosity exhibited in most electrospun scaffolds, preventing cellular infiltration and thus hosts tissue integration. Another weakness seen in the field is the inability to physically cut electrospun scaffolds in the frontal plane for subsequent microscopic analysis (current electrospun scaffold analysis is limited to sectioning in the cross-sectional plane). Given this it becomes extremely difficult to associate spatial scaffold …

Using Structural Analysis To Investigate The Function Of Suppressor Of Ikk-Epsilon (Sike), Sean W. Mckinley

Theses and Dissertations

The innate immune system provides the body’s first line of defense against pathogenic challenge through pathogen recognition and initiation of the immune response. Among the various cellular mechanisms of pathogen recognition in mammals, Toll-like receptor 3 (TLR3) recognizes viral dsRNA. Stimulation of TLR3 signaling pathway leads to transcription of pro-inflammatory cytokines and type-1 Interferons. Suppressor of IKKε (SIKE) interacts with two kinases in the signaling pathway, IKKε and TANK binding kinase 1 (TBK1), inhibiting the transcription of type I interferons. Recently, the Bell Laboratory discovered that SIKE blocks TBK1-mediated activation of type I interferons by acting as a high affinity, …

Group Via Calcium-Independent Phospholipase A2 Regulates Bcl-Xl Protein Levels In Mice Lung, Sang-Jin Nam

Theses and Dissertations

With previous indication of the Group VIA phospholipase A2 (iPLA2β) enzyme regulating ER-stress induced apoptosis in β-cells by regulating the anti-apoptotic protein Bcl-xL via alternative splicing, our lab postulated iPLA2β to be utilizing a similar mechanism to regulate apoptosis in mice lung. Our previous lab work has shown implications of lung function compromise in iPLA2β-/- mice, and we speculated the cause to be due altered lung architecture stemming from the attenuation of apoptosis. The western blot analysis in this study suggested that iPLA2β is involved in the regulation of Bcl-xL, but the mRNA ratios of the splice variants suggested that …

Queer Alchemies: Radical Futurity In The Shell Of The Now, Elizabeth R. Canfield

Theses and Dissertations

This work operates at the intersection of academics, art, and activism. Within queer studies there is a tension between assimilation and liberation, sometimes situated as between pragmatism and utopia. This work re-examines Frankfurt school Marxist views of utopia through a queer theoretical lens in order to employ the radical imagination and queer futurity to examine new ways of practicing liberation. Drawing from theorists like Judith Butler, Jose Esteban Munoz, and Gloria Anzaldua, this work uses art (film, writing, zine-making, and sound) as a way to envision and enact a better world situated in the present.

Investigating The Role Of The Synaptic Transcriptome In Ethanol-Responsive Behaviors, Megan A. O'Brien

Theses and Dissertations

Alcoholism is a complex neurological disorder characterized by loss of control in limiting intake, compulsion to seek and imbibe ethanol, and chronic craving and relapse. It is suggested that the characteristic behaviors associated with the escalation of drug use are caused by long-term molecular adaptations precipitated by the drug’s continual administration. These lasting activity-dependent changes that underlie addiction-associated behavior are thought, in part, to depend on new protein synthesis and remodeling at the synapses. It is well established that mRNA can be transported to neuronal distal processes, where it can undergo localized translation that is regulated in a spatially restricted …

Traceability Implementation In Organic Farming: Case Study, Chamomile Tea Production, Shaima Ibrahim

Theses and Dissertations

Implementing a traceability plan in an herbal production plant is a complex task. In this study an attempt to integrate food safety, quality and traceability through the different stages of the organic German Chamomile (Matricaria recutita) production chain was made. First, all the current relevant international laws, regulations and standards regarding traceability, safety and quality, with emphasis on how and why they are necessary for any food production chain, were set forward. Second, physico-chemical and microbiological analyses were run throughout the different processing stages of production, for four different Chamomile batches produced over the same season using the same farming …

Role Of Micro Rna 148/152 Family In Cancer Progression, Anusha Chaparala

Theses and Dissertations

Micro RNA are small single stranded RNA that regulate the expression of various genes. MiRNA guide the mRNA disintegrating RISC complex to the complimentary sequence in the target mRNA. Each micro RNA has multiple targets and can play a different biological role depending on the population of targets at the particular stage of the cell or a physiological state. Several miRNA show elevated or decreased levels of expression in various cancers because of their role in tumor initiation and progression. MiRNA belonging to mir148/152 family are examples of such MicroRNA. This family includes miR148a, miR148b and miR152. MiR148a and miR152 …

The Development Of A Performance Progression For Science Teachers' Implementation Of Model-Based Teaching, Christopher Bogiages

Theses and Dissertations

The Next Generation Science Standards (NGSS) call for science teachers to implement pedagogical strategies that can approximate authentic scientific practices. One such strategy, Model-Based Teaching, engages students in learning the disciplinary core ideas of science through the process of developing and using Scientific Models. Model-Based Teaching is a difficult pedagogical strategy for teachers to learn and implement. Factors such as Knowledge of Scientific Models and Modeling (KSM), understanding of the Nature of Science (NOS), and use of questioning to facilitate whole class discussions play important roles in the development of teachers' ability to implement Model-Based Teaching. This study employed a …

Characterization Of The Biological Role Of A Putative Porphyromonas Gingivalis Rna-Binding Protein, Ramana Cvitkovic

Theses and Dissertations

Porphyromonas gingivalis, a gram-negative anaerobic bacterium, is a major etiological agent in the initiation and progression of severe forms of periodontal disease. Oral bacteria like P. gingivalis are subject to continually changing conditions as a consequence of host eating, oral hygiene patterns and subgingival temperatures. As such survival requires an adaptive response to environmental cues, but little is known about the mechanism by which P. gingivalis controls co- and post-transcriptional regulation of RNA levels and potentially protein expression. RNA-binding proteins (RBPs) are evolutionarily conserved across species and are involved in such regulatory mechanisms. However, P. gingivalis currently has no identified …

Caregiver Impact Of Autism Spectrum Disorder: Assessing Stress, Sense Of Competence, And Relationship Satisfaction, Nicole M. Kline

Theses and Dissertations

While the impact of psycho-social variables has been evaluated for children with chronic illness and related disabilities, questions remain unanswered for families affected by ASD. Participants included 68 primary caregivers seeking services for a child aged fifteen months to 12 years suspected of or diagnosed with an ASD. Assessment tools included: 1. Parenting Stress Index-Fourth Edition-Short-Form (PSI-4-SF; Abidin, 2012), 2. Parenting Sense of Competence Scale (PSOC; Johnston and Mash, 1989), and 3. Relationship Assessment Scale (Hendrick, 1988). Independent samples t-tests were conducted to determine differences with a nonclinical control population (60 participants with a typically-developed child) regarding perceptions of stress, …

Scanning Tunneling Microscopy And Spectroscopy Studies Of Zinc-Phthalocyanine Adsorption On Sic(0001) And Iridium-Modified Silicon Surfaces, Dylan Nicholls

Theses and Dissertations

Studies were performed on two seemingly different topics, molecular thin films on graphite/graphene and metal induced changes in various cuts of silicon (Si) surfaces. However, both projects share the underlying theme of self-assembly. Since nature can rely upon self-assembly at the nano-scale, all that is needed is to discover functional means to create components for integrated circuits as well as electronic and photonic devices.

Scanning Tunneling Microscopy and Spectroscopy (STM/STS) studies were carried out to characterize the morphology of thin porphyrin films on graphite and the effects of Zn-Phthalocyanine (Zn-Pc) adsorption on the electronic properties of graphene. It was found …

Satellite Derived Volumetric Soil Moisture In A Hec-Hms Model, Damon Grabow

Theses and Dissertations

This research is intended to enhance recent hydrologic research that focused on a rainfall-runoff model of the Devils Lake basin in central North Dakota. This research employs the spatial volumetric soil moisture data collected by the National Aeronautics and Space Administration (NASA) Advanced Microwave Scanning Radiometer - Earth Observing System (AMSR-E) instrument. The AMSR-E data, collected from 2002-2011 from the NASA EOS Aqua satellite, was used in the Land Parameter Retrieval Model (LPRM) to estimate the surface soil moisture at a scale of 25-km. AMSR-E data is used in collaboration with the current rainfall-runoff model to better understand the influences …

Automated Usability Testing Of Websites Using Link Structure, Christoffer Odegaard Korvald

Theses and Dissertations

Websites keeps getting more important in business and other aspects of society. Making the websites as usable as possible is crucial as difficult to use systems tend to frustrate users, which might lead to users leaving or lost revenue for a business. Usability testing is needed to identify and fix those issues. Manual tests in usability labs can be very time consuming and costly. An automated system could reduce time and cost of testing, but are often too focused on one aspect to give a clear view of what needs to be fixed. A system to improve this is needed. …

Metal Enhanced Fluorescence With Gold Nanoparticles, Shaina Larissa Strating Mattingly

Theses and Dissertations

A novel hybrid nanocomposite of Au nanoparticle-modified silicon nanowire was developed for surface enhanced fluorescence applications. The designed nanocomposite contained a silicon nanowire, gold nanoparticles and a silica layer doped with dye molecules. The hybrid nanomaterial was characterized using scanning electron microscopy (SEM), scanning transmission electron microscopy (STEM), fluorescence measurements, Fourier transform infrared (FT-IR) spectroscopy, and energy-dispersive X-ray spectroscopy (EDS). The results showed that the gold nanoparticles were uniformly adhered on the silicon nanowires and covered by a thin silica layer. The nanostructure exhibited strong capacity for surface enhanced fluorescence. Different enhancement factors were obtained by changing synthetic conditions.

The …

The Combined Effects Of Copper Sulfate And Hypoxia Stress On The Swim Performance Of Bluegill Sunfish (Lepomis Macrochirus), Dustin D. Anderson

Theses and Dissertations

Copper (Cu) is a component of several aquatic pesticides often used to target noxious algae, but at high concentrations may elicit toxic effects on non-target organisms such as fish. The severity of Cu toxicity varies widely by fish species, Cu concentration, duration of exposure, and water quality. Hypoxia is a widely occurring aquatic stressor that is also a potential side effect of Cu application due to increased oxygen demand from algae decay. Because Cu and hypoxia stress may occur in concert, it is important to understand and quantify their combined effects. Critical swimming speed (Ucrit) tests are an efficient and …

Impacts Of Gas And Oil Development On Sharp-Tailed Grouse (Tympanuchus Phasianellus) Nest Success And Predator Dynamics In Western North Dakota, Paul Curtis Burr

Theses and Dissertations

Recent advancements in extraction technologies are resulting in rapid increases of gas and oil development in western North Dakota. This expansion of energy development may have unknown effects on local wildlife populations and the ecological interactions within and among species. Sharp-tailed grouse (Tympanuchus phasianellus) are a popular upland game bird species that rely on grassland habitat found throughout the state. Potential impacts of gas and oil development on the nest success of sharp-tailed grouse is an area of particular interest as it is an important factor in avian reproduction. Similarly, it is equally important to understand the impacts …

Effect Of Bronsted And Lewis Acids On Biochemical Conversion Of Various Lignocellulosic Feedstocks Into Biofuels And Chemicals, Srinivas Reddy Kamireddy

Theses and Dissertations

A biochemical process was investigated in the conversion of lignocellulosic biomass into biofuels and value added chemicals. Kenaf, two species of sorghum (brown mid rib (BMR) & non brown mid rib (NBMR)), sunn hemp, sunflower hulls, and cornstover were used as feedstocks in this study.

Lignocellulosic biomass primarily consists of three different components, cellulose, hemicellulose and lignin. In order to separate different fractions, and acid pretreatment is generally employed. This was achieved by using a 300 ml internal volume batch reactor. The heating source used was steam. During acid pretreatment most of the hemicellulose is hydrolyzed into the liquid fraction. …

What Stages In The Phenology Of Corn Are The Most Correlated With Rainfed Corn Yields In The Corn Belt Using Remote Sensing?, Zachary Lee Braun

Theses and Dissertations

Two weekly and freely available remotely sensed vegetation indices, Vegetation Condition Index (VCI) and Temperature Condition Index (TCI), were assessed for state level corn yield correlation in the Corn Belt region of the United States for the years of 2007-2013. VCI and TCI were 16-km pixels which are derived from the Advanced Very High Resolution Radiometer (AVHRR). Corn pixels were identified by downloading yearly USDA Cropscape pixels for corn in each state. Irrigated corn pixels were removed by using the 2007 Irrigated Agriculture Dataset developed by Pervez and Brown (2010) as a mask. Corn pixels were then resampled to 16-km …

Role Of Bipa As A Modulator Of Gene Expression And Ribosome Assembly In Escherichia Coli, Promisree Choudhury

Theses and Dissertations

In Escherichia coli, ribosomes are the basic protein-synthesizing cellular machines. Hence, regulation of ribosome synthesis and assembly as well as regulation of protein translation are very important for bacterial cells. However, the cellular mechanisms of both these processes are not yet completely understood and thus both are active fields of research. It has been suggested that the BipA protein is involved in the regulation of both these processes. The research described here focused on understanding the cellular function(s) of BipA in regulating protein synthesis and ribosome assembly.

BipA is a member of the elongation factor family of translational GTPases …

Finding The Right Fit: Multiculturalism And Low-Income Urban Schools, Grace Shin Won Kim Canada

Theses and Dissertations

This study addressed the difficulty of recruiting and retaining qualified teachers by examining the qualities and characteristics of teacher fit in a group of Southern California charter schools that serve low-income Black and Hispanic students. Given the significance and importance of culturally relevant and responsive education in schools that serve primarily Black and Hispanic students (Castagno, 2009; Gay, 2000; Howard, 2003; Ladson-Billings, 1994; 1995; 2006; Lindsey, Karns, & Myatt 2010; Nieto, 2005a; Poveda & Martin, 2004), three survey instruments; a demographic questionnaire, the Teachers Multicultural Attitudes Survey (TMAS), and the Multicultural Teaching Competency Scale (MTCS); were used to assess teacher …

Developing A Model For Understanding Mindfulness As A Potential Intervention For Obsessive-Compulsive Disorder, Steven I. Rudoy

Theses and Dissertations

The paucity of effective alternative or augmentative treatments available for OCD coupled with the emerging potential of mindfulness-based treatments indicate that exploring the potential utility of such interventions for the OCD population is a useful area of inquiry. In addition, although more general examinations of the mechanisms by which mindfulness contributes to positive change have been conducted, those mechanisms of action have never been theoretically linked with the mechanisms of action believed to underlie the mental processes in OCD. The current study will include a critical analysis of the existing literature covering the cognitive and biological bases for understanding the …

A Guide For Mental Health Practitioners Working With Collective Trauma Victims From Latin America: An Experiential Approach, Melissa Cordero

Theses and Dissertations

A resource guide for mental health practitioners working with Latino victims of collective trauma was developed based on a review of the literature. The development of the resource was also informed by two structured interviews with experts in the field of collective trauma within the Latino population. Review of the literature and structured interviews were used to develop culturally sensitive treatment approaches for victims of collective trauma from Latin America. The resource guide offers clinicians culturally adapted interventions, including PTSD measures, a table to identify culture bound syndromes, PTSD psychoeducation handouts (provided in Spanish and English), relaxation skills (e.g. breathing …

A Phenomenological Study: Personal Criteria For Emancipated Foster Youth Entering College, Christina Acoff

Theses and Dissertations

This qualitative study examined 4 emancipated foster youth who are attending college in California. The purpose of this phenomenological study was to explore the personal criteria of 2 male and 2 female emancipated foster youths entering college and determine what factors they perceived helped them to attend college. The researcher recruited a total of 4 participants, 1 male from El Camino College Compton Center, 1 female from El Camino College, and 1 male 1 one female from CSU Dominguez Hills. The research question for this study was, What motivates emancipated foster youths to attend college? The phenomenon of being a …

Trainee Therapist Responses To The Discussion Of Trauma In Therapy, Courtney Bancroft

Theses and Dissertations

Responses to disclosures/discussions of trauma can have lasting impacts on survivors who choose to share their experiences and historically have been categorized as positive, negative, and/or neutral responses with corresponding effects on the survivor. Literature recommends the use of tenets and techniques reminiscent of therapeutic common factors (e.g., listening skills, empathy, support, validation, creating a safe environment and strong therapeutic alliance) when responding to trauma. However, existing research focuses on reactions to survivors' disclosures outside of therapy and there is little research focusing on therapists' responses. Specifically, there are no studies that investigate how therapists or trainees are actually responding …