Digital Commons Network^™

The Effects Of 4-Nonylphenol On The Immune Response Of The Pacific Oyster, Crassostrea Gigas, Following Bacterial Infection (Vibrio Campbellii), Courtney Hart

Master's Theses

Endocrine disrupting chemicals (EDCs) are compounds that can interfere with hormone signaling pathways and are now recognized as pervasive in estuarine and marine waters. One prevalent EDC in California’s coastal waters is the xenoestrogen 4-nonylphenol (4-NP), which has been shown to impair reproduction, development, growth, and in some cases immune function of marine invertebrates. To further investigate effects of 4-NP on marine invertebrate immune function we measured total hemocyte counts (THC), relative transcript abundance of immune-relevant genes, and lysozyme activity in Pacific oysters (Crassostrea gigas) following bacterial infection. To quantify these effects we exposed oysters to dissolved phase …

Effects Of Experimental Noise Exposure On Songbird Nesting Behaviors And Nest Success, Tracy I. Mulholland

Master's Theses

Anthropogenic noise is an increasingly prevalent global disturbance. Animals that rely on the acoustical environment, such as songbirds, are especially vulnerable to these sounds. Traffic noise, in particular, overlaps with the frequency range of songbirds, creating masking effects. We investigated the effects of chronic traffic noise on provisioning behaviors and breeding success of nesting western bluebirds (Sialia mexicana) and ash-throated flycatchers (Myiarchus cinerascens). Because anthropogenic noise exposure has the potential to interrupt parent-offspring communication and alter vigilance behaviors, we predicted that traffic noise would lead to changes in provisioning behaviors, such as fewer visits to the …

The Preservation And Protection Of Native Biodiversity In The Guadalupe Nipomo Dunes Complex, Lindsey M. Whitaker, Matthew Ritter, Scott J. Steinmaus, Jonathan Hall

Master's Theses

The Guadalupe Nipomo Dunes Complex (GNDC) is located within the California Floristic Province, a biodiversity hotspot characterized by high rates of endemism and exceptional loss of habitat. In 1980, the US Fish and Wildlife Service described the GNDC as, “the most unique and fragile ecosystem in the State of California,” and ranked it first on a list of 49 habitat areas needing state protection. It is the largest coastal dune area in California and it is one of the last remaining, relatively intact ecosystems of its type and size in the western United States. The growing recognition of species decline …

Ecological And Phenotypic Factors Influencing The Movement Dynamics Of The Blackspotted Topminnow, Fundulus Olivaceus, Scott Richard Clark

Dissertations

Movement of individuals throughout a landscape is a complex behavior that has important consequences on numerous ecological and evolutionary processes. Perhaps most notably is the relationship between movement and reproduction, as this has implicit ramifications on individual fitness and consequently, population level processes. Although this relationship has been theoretically and empirically demonstrated across a number of animal taxa, its role in fishes remains understudied and largely unknown. Using a series of outdoor mesocosms, in combination with a field study, I employed passive integrated transponder (PIT) tags to experimentally assess the sex-specific movement dynamics of a small-bodied, sexually-dimorphic stream fish, the …

Analysis Of The Intricacies Of Substrate Recognition Of High Mobility Group Proteins And Aminoacyl-Trna Synthetases Using Non-Cognate Substrates, Douglas Van Iverson Ii

Dissertations

The studies presented in section 1 (Chapters I-IV) focus on the design and development of nucleic acid four-way junctions (4WJs) to target a member of the high mobility group (HMG) proteins, the proinflammatory cytokine high mobility group box 1 protein (HMGB1). In the present study, hybrid PNA-DNA 4WJs based on a model DNA 4WJ were constructed to improve the thermal stability of 4WJs while maintaining strong binding affinity toward HMGB1. An electrophoretic mobility shift assay (EMSA) was used to examine the binding affinity of an isolated DNA binding domain of HMGB1, the HMGB1 b-box (HMGB1b), toward a set of PNA-DNA …

Autologous Protein Solution Exhibits Potential To Mitigate Osteoarthritis (Oa) Progression In A Human Explant Co-Culture Model, Kathleen Emily Steckbeck

All Theses

Osteoarthritis (OA) is a debilitating and painful disease that affects upwards of one in every eight adults1,2. OA influences the entire joint, but is traditionally characterized by cartilage degradation3. OA is a multifactorial disease with genetic, biological, and biochemical consideration, but there has been a recent shift in scientific opinion that the pathological progression of OA stems from an inflammatory milieu produced by the feed-forward progressive pathway as evidenced by simultaneous cartilage and synovium co-culture4–7. Autologous protein solution (APS) poses as an intriguing potential OA therapy by possessing a high anti-inflammatory and anabolic mediator concentration profile that could potentially mitigate …

Therapeutic And Safety Evaluation Of Curcumin's Antimicrobial And Anti-Inflammatory Properties On Canine And Equine, Stephanie Bland

Dissertations

In total, four experiments were conducted to determine the therapeutic and safety effects of the nutraceutical, turmeric and its active ingredient curcumin on canine and equine. Two studies were conducted on client-owned, moderately arthritic canines, studying the therapeutic and safety effect of curcumin’s anti-inflammatory properties. In Exp. 1, two different dosages, 500 mg, SID of 95% curcumin and 250 mg, BID of 95% liposomal-curcumin, were evaluated in ten moderately arthritic dogs over five months. The dogs in the 95% curcumin group had an overall greater significance in pain reduction by Day 60. Exp. 2, was a follow-up experiment to Exp. …

The Effect Of Stereoscopic Three-Dimensional Images On Recall Of Second Language Vocabulary, Regina Kaplan-Rakowski

Dissertations

The purpose of this experimental study was to investigate the effect of stereoscopic three-dimensional (S3D) images on productive and receptive recall of foreign language vocabulary. S3D images are highly-realistic and differ from non-stereoscopic three-dimensional (NS3D) images in that they provide the impression of the added third dimension of depth. This within-subject study exposed the participants (N = 82) in a controlled setting to a series of carefully designed and randomly distributed NS3D and S3D images. The subjects were then given immediate productive and receptive tests of foreign language vocabulary items that were represented by NS3D and S3D images. Quantitative data …

The Impact Of Cortical State On Neural Coding And Behavior, Charles Beaman

Dissertations and Theses (Open Access)

The brain is never truly silent – up to 80% of its energy budget is expended during ongoing activity in the absence of sensory input. Previous research has shown that sensory neurons are not exclusively influenced by external stimuli but rather reflect interactions between sensory inputs and the ongoing activity of the brain. Yet, whether fluctuations in the state of cortical networks influence sensory coding in neural circuits and the behavior of the animal are unknown. To shed light on this issue, we conducted multi-unit electrophysiology experiments in visual areas V1 and V4 of behaving monkeys. First, we studied the …

Clinical Significance Of Homologous Recombination Deficiency Score Testing In Endometrial Cancer, Jean M. Hansen

Dissertations and Theses (Open Access)

Objectives: Homologous recombination deficiency (HRD) score is related to chemotherapy response in breast and ovarian cancers. The role of HRD is unknown in endometrial cancer. We examined the relationship between HRD score and survival in a cohort of endometrial cancer patients and with tumor growth using murine orthotopic models.

Methods: TCGA was queried to determine frequency and clinical significance of alterations in the HR pathway in endometrial cancer. 137 formalin-fixed paraffin-embedded endometrioid adenocarcinoma patient samples were tested for HRD score, microsatellite instability (MSI) and high mutation load (HML) using a next generation sequencing assay targeting the coding regions of 43 …

Development Of Rational Combination Therapy With Parp Inhibitors And Kinase Inhibitors In Tnbc, Wen-Hsuan Yu

Dissertations and Theses (Open Access)

Poly (ADP-ribose) polymerase inhibitors (PARPi) emerge as potential targeting drugs for BRCA-deficient cancers including triple negative breast cancer (TNBC). However, it has been reported that a subgroup of patients even with BRCA mutation fails to respond to PARPi in multiple clinical trials. In this study, we identified c-Met, a tyrosine kinase, phosphorylates PARP1 at Y907 and that the phosphorylation increases PARP1 activity, thereby rendering cancer cells resistant to PARPi. The combination of c-Met inhibitors (METi) and PARPi has a synergistic effect for c-Met overexpressed TNBC in vitro and in vivo. In addition to c-Met, through functional analysis, we found …

Interrogating Dux4 Mrna 3′ End Processing, Natoya J. Peart

Dissertations and Theses (Open Access)

Double Homeobox 4, Dux4, is the leading candidate gene for Facioscapulohumeral Dystrophy (FSHD). FSHD is the third most common muscular dystrophy, and is characterized by progressive muscle weakness primarily in the upper body. In individuals diagnosed with FSHD, Dux4 is inappropriately expressed in somatic cells due to two conditions. The first is hypomethylation of the subtelomeric D4Z4 repeats on chromosome 4. Each D4Z4 repeat on chromosome 4 is 3.3kb in length and contains the open reading frame for Dux4. Hypomethylation of the D4Z4 repeats primarily occurs due to contraction of the repeats from 11-100 (typical numbers in the healthy population) …

Tnf Signaling During Tissue Damage-Induced Nociceptive Sensitization In Drosophila, Juyeon Jo

Dissertations and Theses (Open Access)

Tumor necrosis factor (TNF) signaling is required for inflammatory nociceptive sensitization in both Drosophila and vertebrates. In Drosophila larval model of nociceptive sensitization, UV irradiation in results in epidermal apoptosis and thermal allodynia. TNF/Eiger is produced from dying epidermal cells and acts its receptor in nociceptive sensory neurons to induce thermal allodynia. Inhibition of TNF signaling results in attenuation of nociceptive sensitization whereas epidermal apoptosis still occurs in the absence of TNF. Major gaps in this model are the precise relationship between apoptotic cell death and production of TNF/Eiger, downstream signaling mediators for TNFR/Wengen, and target genes that alter nociceptive …

Employing T Cells For Antigen Presentation: Role Of Ny-Eso-1+ T-Apc Vaccine In Multiple Myeloma, Krina K. Patel

Dissertations and Theses (Open Access)

Introduction: Cellular therapy has shown great potential in early phase clinical trials with persistence of effector cells appearing to lead to improved outcomes. Combined immunotherapy with NY-ESO-1⁺ CAR T cells (TCR mimetic) and an NY-ESO-1 specific T-APC vaccine in myeloma patients may lead to enhanced anti-myeloma efficacy due to improved persistence of the CAR T cells.

Materials and Methods: Using the Sleeping Beauty transposon/transposase system, an NY-ESO-1⁺ TCR and CAR were created as effector cells. Vaccine was produced by electroporation of the NY-ESO-1 gene into T cells to make T cell antigen presenting cells (T-APC). Costimulatory …

Understanding The Mechanism And Extent Of Vlse Recombination In Borrelia Burgdorferi Using Next-Generation Sequencing, Surabhi Tyagi

Dissertations and Theses (Open Access)

B. burgdorferi, the causative agent of Lyme disease, have an elaborate antigenic variation system that involves varying the sequence of vlsE. Previous studies have shown that vlsE antigenic variation occurs continuously inside mammalian hosts. Variation has not been shown previously to occur in in vitro or in ticks. We hypothesized that the induction of vlsE recombination requires contact with dense arrays of host tissue cells and/or ECM components. To test this hypothesis, two methods, quantitative PCR and high-throughput sequencing were used determine the extent and nature of vlsE recombination within mouse tissues and in vitro model systems. Using these …

Function And Mechanism Of Alkbh5 In N6-Methyl-Adenosine Rna Modification In Glioblastoma, Sicong Zhang

Dissertations and Theses (Open Access)

N⁶-methyl-adenosine (m⁶A) is the most prevalent internal chemical modification of mRNAs in eukaryotes. In mammals, m⁶A installed by m⁶A methyltransferases METTL3 and METTL14 is erased by two members of the AlkB family of nonheme Fe(II)/a-ketoglutarate (a-KG)-dependent dioxygenases, fat-mass and obesity associated protein (FTO) or ALKBH5. ALKBH5 affects nuclear RNA export and metabolism, gene expression and mouse fertility. To date, little is known about the biological significance of m⁶A in human cancer. We found that ALKBH5 is highly expressed in human glioblastoma stem cells which are resistant to conventional therapy and …

Novel Mechanisms Of Β-Adrenergic Signaling In Prostate Cancer Progression, Mohit Hulsurkar

Dissertations and Theses (Open Access)

Prostate cancer is the second leading cause of cancer death among American men. The American Cancer Society estimates that 180,890 men will be will be diagnosed with prostate cancer in 2016 in the USA. (http://www.cancer.org/cancer/prostatecancer/detailedguide/prostate-cancer-key-statistics). Androgen deprivation therapy (ADT) is the standard treatment for early stage prostate cancer. But most patients relapse with aggressive variants of prostate cancer, with survival time between 1-3 years. In order to develop cure for such aggressive variants of prostate cancer, our present understanding of the mechanisms underlying its progression needs to be advanced.

Recently, it has been found that activation of β-adrenergic signaling pathway …

The Drive To Deceive: Lance Armstrong's Image Repair And Maintenance, S. Andrew Stowe

All Dissertations

Lance Armstrong is one of the most recognized athletes of all time and one of the most successful cyclists ever. After surviving cancer, going on to win the Tour de France a record seven times, and being the center of a media empire, Armstrong’s reputation was publicly ruined after the United States Anti-Doping Agency released a huge case against him. Armstrong had to recant years of righteous denials and arduous insistence that he did not use performance-enhancing drugs. This doping scandal exposed a well-liked sports hero as a fraud and cheater, making him an exception case study in branding and …

Examination Of Infographics-Based Reusable Learning Objects (Rlo) And Traditional Didactic Lectures (Tdl) To Improve Consumer Knowledge And Perceptions About The Safe Use Of Plastic Food Containers In A Microwave Oven, Najla Ahmed Khateeb

All Dissertations

This study was a quasi-experimental trials that compared relative effectiveness of Infographics Based Reusable Learning Objects Educational Intervention (RLO and Traditional Didactic Lectures (TDL). A total of 282 Clemson university students were randomized into four groups – Control, RLD, TDL and RLO+TDL and changes in their pre-test and post-test scores were compared before and after each interventions. Specific outcomes tracked included the number of correctly recognized symbols identifying a type plastic, the number of correctly answered question about the safety of using plastic food containers in a microwave and the satisfaction with the instruction. The analysis suggests that RLO intervention …

A Bioresponsive And Multifunctional Polymer Based Nanodevice For Cancer Nanotheranostics, Ragini Jenkins

All Dissertations

The main objective of this project is to develop a polymer based near infrared (NIR) particle that can serve as both, diagnostic and therapeutic agents, for fighting cancer. Specifically these particles will be designed to have high-contrast, high signal to noise ratios, long in vivo circulation lifetimes, and facilitate easy attachment of functional and target components. Cancer is a disease where the growth of abnormal cells is uncontrollable and is one of the leading causes of death worldwide. Malignant cancer cells are more effectively treated when identified early in the disease. Identification of tumors using fluorophores, small molecules that emit …

The Ferber Method And Other Behavioral Sleep Training Methods: Do They Disrupt Attachment And Impact Physical And Psychological Wellbeing?, Bobbi Smith

Nursing Masters

The Ferber Method is a behavioral method for sleep training infants and young children that is also known as the “cry it out” method. Behavioral methods of sleep training is often recommended by pediatricians. However, many parents, sleep specialists, psychologists, and experts in infant mental health, find these methods controversial. Supporters of behavioral sleep training claim that it teaches children to “self soothe” and learn to regulate their own emotions. Those against the Ferber Method and other behavioral techniques claim that they not only cause infants and children distress, but they also teach them that their needs will not be …

Effect Of Aerobic Exercise On Selenium Level In Plasma, Sarmmila Kanakarajah, Nanny Nm. Soetedjo, Ronny Lesmana

Pharmacology and Clinical Pharmacy Research

Moderate and high aerobic exercises are the activities that can induce high oxidant. Demand of endogen and exogen antioxidant for neutralizing oxidant induced by exercise will play important role in maintaining body performance. Microtrace elements, such as selenium, may able to balance high oxidant formation. However, limited research and data have been collected with regards to the exercise and selenium. Therefore, this research was conducted to investigate the effect of aerobic exercise on selenium level in plasma. An analytic study with experimental method of data collection was performed from October -November 2016. 17 male students with the age between 19-25 …

Analysis Of Heme Iron Coordination In Dgcr8: The Heme-Binding Component Of The Microprocessor Complex, Hazel M. Girvan, Justin M. Bradley, Myles R. Cheesman, James R. Kincaid, Yilin Liu, Kazimierz Czarnecki, Karl Fisher, David Leys, Stephen E. J. Rigby, Andrew W. Munro

Chemistry Faculty Research and Publications

DGCR8 is the RNA-binding partner of the nuclease Drosha. Their complex (the “Microprocessor”) is essential for processing of long, primary microRNAs (pri-miRNAs) in the nucleus. Binding of heme to DGCR8 is essential for pri-miRNA processing. On the basis of the split Soret ultraviolet–visible (UV–vis) spectrum of ferric DGCR8, bis-thiolate sulfur (cysteinate, Cys^–) heme iron coordination of DGCR8 heme iron was proposed. We have characterized DGCR8 heme ligation using the Δ276 DGCR8 variant and combined electron paramagnetic resonance (EPR), magnetic circular dichroism (MCD), electron nuclear double resonance, resonance Raman, and electronic absorption spectroscopy. These studies indicate DGCR8 bis-Cys heme …

Aug2016, Robert Kelly

Robert Kelly Manuscripts

From August 2016 Robert Kelly Archives

The Intervening Sequence Of Coxiella Burnetii: Characterization And Evolution, Indu Warrier, Mathias C. Walter, Dimitrios Frangoulidis, Rahul Raghavan, Linda D. Hicks, Michael F. Minnick

Biology Faculty Publications and Presentations

The intervening sequence (IVS) of Coxiella burnetii, the agent of Q fever, is a 428-nt selfish genetic element located in helix 45 of the precursor 23S rRNA. The IVS element, in turn, contains an ORF that encodes a hypothetical ribosomal S23 protein (S23p). Although S23p can be synthesized in vitro in the presence of an engineered E. coli promoter and ribosome binding site, results suggest that the protein is not synthesized in vivo. In spite of a high degree of IVS conservation among different strains of C. burnetii, the region immediately upstream of the S23p start codon …

Repair Severed Nerve Connections Through A Multi-Branch Microchannel Scaffold To Control The Direction Of The Regenerated Nerve, Luis Enrique Castanuela Ramon

Theses and Dissertations

Damage to the peripheral nervous system may result in functional abnormalities due to disrupted nerve connections. Existing methods of repairing severed nerve connections in the peripheral nervous system have limitations and disadvantages such as a limited availability of donor nerves and a lack of control of the direction of nerve regeneration within nerve conduits. A handcrafted multi-branch microchannel scaffold improves upon the current methods of nerve repair by incorporating microchannels, which guide and accommodate the nerve regeneration to distal ends, allowing for the treatment of nerve injuries involving multiple branches with fewer surgeries. This scaffold is also made more accessible …

Biocompatible Microchannel Scaffold With Microwires For Recording Regenerative Peripheral Nerve Neural Spikes, Manisankar Chennamsetti

Theses and Dissertations

A new process for the fabrication of a microchannel scaffold with microwires for peripheral nerve applications is presented. This microchannel scaffold implemented between the ends of nerves, the axons of which regenerate through microchannel in scaffold and fixed microelectrodes. This device is entirely handcrafted using commercially available materials such as microwires, PDMS film, liquid PDMS, dental cement, and epoxy glue. This device was implemented in the a Lewis rat sciatic nerve to better analyze the electrical signals of regenerated axons. 64-electrode microchannel scaffolds were developed for both peripheral nerve interfacing and peripheral nerve regeneration. The microwires were used for recording …

The Creation Process Of A Stylized Character In Comparison To A Semi-Realistic Character, Caitlin D. Hall 4464202

Undergraduate Honors Theses

Abstract

I. Introduction

a. Thesis statement: What is the process for modeling a stylized character and how does this differ from a semi-realistic character?

b. Expanded thesis statement: The two styles differ from start to finish in a variety of ways. I believe that semi-realistic characters require more source material when drawing and modeling; however stylized characters require a different level of creativity and artistic ability in creation. Modeling semi-realistic characters will be more dependent on source images while stylized characters may require special attention with non-standard texture, style, etc. Rendering techniques will also differ when it goes to presenting …

Social Learning Remixed: Peer-Based Learning And Social Status In An Online Community Of Practice, Christopher Erin Mikkelson

Graduate Theses and Dissertations

People have engaged in peer-to-peer learning within communities of practice (CoPs) for centuries. Thanks to web 2.0 technology, people in the 21st century can now learn together and enact Social status even if they have never met face-to-face. Online communities of practice have since formed around a wide variety of activities, one of which is remixing. Remixing is defined as combining or editing existing materials to produce something new, but leaving each part recognizable as a separate entity. Remixing has recently been recognized as form of digital literacy because users must understand each component to make a good remix. Much …

Neuroanatomical Maps And Taste Reactivity To Sweet, Umami, And Bitter Taste In The Pbn Of C57bl/6j Mice, Jennifer Marie Saputra

Theses and Dissertations (ETD)

Humans can distinguish at least five different taste qualities, sour, salty, bitter, sweet, and umami (the savory taste of certain amino acids). In neuroscience research, behavioral testing is used to measure the ability of rodents (including inbred mice) to discriminate between the different taste qualities. Taste reactivity and two-bottle preference are behavioral tests that are utilized to investigate different aspects of taste. These tests involve either voluntary or forced consumption of taste stimuli, respectively. Either test can be used to infer the preference and palatability of the stimulus consumed by an animal.

In order to understand the basis of taste …