Digital Commons Network^™

An Analysis Of Juvenile Chinook Salmon Outmigration Speed And Survival In Response To Habitat Features: Sacramento River From Knights Landing To Sacramento, California, Natalie N. Mcnair

Master's Theses

Outmigration is an important life stage for Chinook salmon (Oncorhynchus tshawytscha) survival in the Sacramento River, and yet our understanding of their behavior and needs during this time is limited. To gain a better understanding of their survival and movement rates during outmigration, late fall run Chinook salmon smolts were tracked using acoustic telemetry techniques. Habitat features were measured and quantified throughout the study area to evaluate how Chinook salmon respond to key levee features including shade, instream woody material, and aquatic vegetation. The overall average movement speed through the entire study area was 0.77 m/s with an …

Analysis Of Particles Thorough The Aortic Arch During Transcatheter Aortic Valve Replacement, Andrew Joseph Janicki

Master's Theses

Ischemia caused by particles becoming dislodged during transcatheter aortic valve replacement (TAVR) is a possible complication of TAVR. The particles that become dislodged can travel out of the aortic valve, into the aortic arch, and then into either the brachiocephalic artery, the left common carotid artery, the left subclavian artery or continue into the descending aorta. If the particles continue into the descending aorta it poses no risk of causing ischemia however if it travels into the other arteries then it increases the possibility of the particle causing an ischemic event. The goal of this study is to determine what …

Moxel Dags: Connecting Material Information To High Resolution Sparse Voxel Dags, Brent Robert Williams

Master's Theses

As time goes on, the demand for higher resolution and more visually rich images only increases. Unfortunately, creating these more realistic computer graphics is pushing our computational resources to their limits.

In realistic rendering, one of the common ways 3D objects are represented is as volumetric elements called voxels. Traditionally, voxel data structures are known for their high memory requirements. One of the standard ways these requirements are minimized is by storing the voxels in a sparse voxel octree (SVO). Very recently, a method called High Resolution Sparse Voxel DAGs was presented that can store binary voxel data orders of …

Bishop Peak Natural Reserve Conservation Plan Update, Douglas J. Bush

Master's Theses

My master's project is updating the Conservation Plan for the Bishop Peak Natural Reserve (BPNR) in San Luis Obispo, California. It is a professional project for the City of San Luis Obispo, supported by City policy that requires continued management of its open space network through management plans unique to each property. As one of the city's most visited open spaces and one of its most visible natural landmarks, the Bishop Peak Natural Reserve is in need of continued management and oversight. While much of the work in developing the plan focused on identifying issues and developing responsive policy, this …

The Use Of Sphingomyelin To Protect Against Uv Induced Dna Damage In Human Keratinocytes, Kevin Campbell

Master's Theses

Non melanoma skin cancer (NMSC) is a serious condition caused by chronic ultraviolet (UV) exposure that leads to DNA damage in skin. UV radiation has the potential to lead to DNA damage, which triggers biochemical pathways within a cell. The result is that the cell either undergoes cell cycle arrest, giving the cell time to repair DNA damage, or apoptosis. Sunscreen is the most commonly used treatment for preventing UV induced skin damage, but it involves a number of undesirable and toxic side effects including damaging the dermis, premature aging of skin and underweight child births. This has led to …

Locating Optimal Water Quality Monitoring Locations Using Demand Coverage Index Method, Jeffrey Scott Brake

Master's Theses

Water quality regulations are always expanding especially in the field of water quality monitoring; however, threats to our water distribution systems still remain. Components of water distribution systems are susceptible to intentional and accidental contamination; therefore, they represent highly vulnerable aspects of our vital infrastructure.

An analysis was performed on a city in California with a population of 30,000 to 40,000 residents. The analysis is performed to determine the optimal locations of monitoring stations throughout the water distribution system. The method presented by Liu and colleagues (Liu et al, 2012) selects the optimal monitoring locations for the virtual California city …

Hydrologic Response To Conifer Removal From An Encroached Mountain Meadow, Gregory F. Van Oosbree

Master's Theses

Meadows in the Sierra Nevada Mountains are an important ecological resource that have degraded in quality and distribution due to several environmental and anthropogenic stressors. The encroachment of conifers beyond forest meadow ecotones is largely responsible for the decline of meadow habitat throughout the past century. Currently, there is little research that quantifies the hydrologic response to removal of conifers encroaching meadows in terms of implicating successful meadow restoration. This study has implemented a before after control intervention (BACI) study design to determine the hydrologic response associated with the removal of conifers from a historic meadow encroached by conifers. The …

Measuring The Influence That Components Have On Pedestrian Route Choice In Activated Alleys, Samuel Hirsher Gross

Master's Theses

This paper explores how cities have integrated formal planning into improving public space. Through a review of literature on the topic, this the paper identifies the potential design has to renovate narrow streets and alleys, within the public right of way. By preforming an assessment of plans and programs, this paper identifies the common themes or components that have been used by planners, architects, and engineers to improve the urban environment for pedestrians. Based on this information, a pilot study was created to measure the influence the most common components have on pedestrian route choice. The results are then compared …

Growth, Mortality, And Reproductive Potential Of California Halibut (Paralichthys Californicus) Off Central California, Cheryl L. Barnes

Master's Theses

Differences in key biological processes, such as growth and reproduction, can greatly influence localized population dynamics. Thus, it is important to evaluate intraspecific variation at several spatial scales to better understand biological limitations and develop management plans that maximize fishery sustainability. In 2011, the California Department of Fish and Wildlife (CDFW) conducted its first comprehensive stock assessment for California Halibut, Paralichthys californicus. However, limited life history data were available north of Point Conception. To improve our understanding of central California Halibut biology, 704 fish were collected during 2012 and 2013. Von Bertalanffy growth parameters were estimated at L∞ = 1041 …

Human Impacts On Rocky Intertidal Gastropods: Are Marine Protected Areas Effective?, Cassie Bednar

Master's Theses

As the human population has exponentially increased, so have anthropogenic effects on the ocean including pollution, eutrophication, acidification, changes in sea level, and overfishing. The California coast is visited by millions of people every year and is subject to a range of impacts. In the near-shore marine environment, people collect intertidal gastropods for food, bait or recreation. Collecting these animals has caused a decline in body size because humans preferentially take the largest individuals. Marine protected areas (MPAs), established to protect marine resources, may serve to reduce impacts to species, including gastropods. I collected 2510 individual samples to determine the …

The Effect Of Post-Operative Analgesics On Ovarian Medullary Angiogenesis And Vasculogenesis, Shamus Martin Brady

Master's Theses

A critical factor for successful ovarian transplantation is the expeditious establishment of sufficient blood supply. Recommendations intended to improve recovery, reduce the effects of stress, and decrease the amount of pain for laboratory animals undergoing surgical procedures include post-operative analgesia. The two main types of drugs that are recommended for pain management are opioids and non-steroidal anti-inflammatory drugs (NSAIDs). Buprenorphine, an opioid, and meloxicam, an NSAID, are both widely used and have been shown to affect angiogenesis and vasculogenesis. This study was designed to examine the influence meloxicam and buprenorphine had on new blood vessel formation in the ovarian medullary …

Consumer Evaluation: The Link Between Body Mass Index, Reward Sensitivity, Product Liking And Emotion, Malori Comer

Master's Theses

The objectives of this study were: (1) to evaluate consumer acceptance of cheeses varying in fat and sodium levels, (2) to determine if sensitivity to reward and body mass index has an effect on product liking based on fat or salt content, (3) to evaluate the use of FaceReader technology during consumer evaluation and, (4) to determine if consumer’s self-selected, conscious emotions matched with the expressed, subconscious emotions acquired by FaceReader.

Consumer acceptance testing (n=108) was conducted on two medium cheddar cheeses with varying fat levels and two low-moisture part-skim mozzarella cheeses varying in sodium levels. Attributes were measured using …

Screening Of Biocontrol Organisms For The Management Of Phytopathogenic Fungi And Foodborne Pathogens On Produce, Antoinette Boyee De Senna

Master's Theses

The multibillion dollar agricultural industry is an important part of the United States economy, and the management of factors that affect crop and human health is imperative to maintaining this economic sector. The fungi Botrytis cinerea, Fusarium pallidoroseum, and Fusarium moniliforme are the causative agents of several plant diseases and can cause significant crop loss both before and after harvest in commodities such as strawberries, lettuce, citrus, and grains. Fungicides are employed to control these phytopathogens, but the use of these chemicals has led to an increase in fungicide resistance and may negatively affect the environment and human …

The Impact Of A Controlled 10-Week Pistachio Feeding Crossover Trial On Blood Lipids And Measures Of Adiposity, Alison Helen Bushnell

Master's Theses

Cardiovascular disease (CVD) is the leading cause of death in the United States and has negative impacts at both the individual- and population-level through reduced quality of life, economic burden, and strain on the healthcare system. Dietary modifications, such as pistachio consumption, may help prevent CVD and two of its leading risk factors: dyslipidemia and overweight/obesity. The objective of this study was to determine the effects of pistachio consumption (20% daily energy need) on measures of adiposity and blood lipids in healthy young adult females. This study utilized 10-week crossover feeding trials at California Polytechnic State University, San Luis Obispo …

Investigation Of Larval Sensory Systems In The Marine Bryozoan, Bugula Neritina, Heather Leigh Price

Master's Theses

Bugula neritina is a sessile marine bryozoan with a pelagic larval stage. Larvae frequently settle on boat hulls, facilitating the introduction of B. neritina to bays and estuaries worldwide. Adrenergic agonists, such as the vertebrate hormone noradrenaline, inhibit larval settlement in a variety of marine invertebrate species, including B. neritina. Light also inhibits B. neritina larval settlement, yet the underlying mechanisms by which light and adrenergic compounds exert their effects on larvae are not well understood. Octopamine is considered the invertebrate analog of noradrenaline, and may be an endogenous hormone involved in larval settlement pathways. I observed the effects of …

Physiological Factors Affecting The Bactericidal Activity Of The Western Fence Lizard (Sceloporus Occidentalis) For The Lyme Disease Spirochete, Borrelia Burgdorferi, Kyle Russell Weichert

Master's Theses

The Western Fence Lizard (Sceloporus occidentalis) is a major host of juvenile stages of the Western Black-legged Tick (Ixodes pacificus), which is the vector for the Lyme disease causative spirochete bacterium Borrelia burgdorferi in the western United States. Because S. occidentalis is reservoir incompetent and capable of eliminating spirochetes from infected ticks, it has been implicated as a major factor in the ecology of Lyme disease in the West. Although complement proteins in lizard blood have been established as the borreliacidal factor, no studies have examined intraspecific variability in host lizard borreliacidal capacity. In Chapter 1 …

Using The Papathoma Tsunami Vulnerability Assessment Model To Forcast Probable Impacts, And Planning Implications, Of A 500-Year Tsunami In Cayucos, California, Andrew Robert Marshall

Master's Theses

This report focuses on using the Papathoma Tsunami Vulnerability Assessment Model (PTVA) to demonstrate the vulnerability of Cayucos to a 500-year tsunami, and using the results to inform specific planning recommendations. By modeling inundation with GIS and analyzing building attributes via the PTVA model, this study has gone beyond any previous vulnerability assessments of Cayucos. Findings include: delineation of the most vulnerable areas, estimates of numbers of lost civic buildings, commercial buildings and houses, as well as estimates of people displaced from tsunami damaged homes. The report goes on to discuss what mitigation measures are in place and what further …

A Finite Element Analysis On The Viscoelasticity Of Postmenopausal Compact Bone Utilizing A Complex Collagen D-Spacing Model, Austin C. Cummings

Master's Theses

The nanoscale dimension known as D-spacing describes the staggering of collagen molecules, which are fundamental to the biphasic makeup of bone tissue. This dimension was long assumed to be constant, but recent studies have shown that the periodicity of collagen is variable. Given that the arrangement of collagen molecules is closely related to the degree of bone mineralization, recent studies have begun to look at D-spacing as a potential factor in the ongoing effort to battle postmenopausal osteoporosis. The theoretical models presented by previous studies have only opted to model a single collagen-hydroxyapatite period, so the creation of an intricate …

Program Visualization: An Exploration Of Graph Based Visualizations To Assist In Student Learning And Programmatic Evaluation, Taylor Woods

Master's Theses

As computer science students develop more complex programs at the end of their first year of course work, comprehending the complex and varied interactions of program execution, potential control flow and data relationships become more and more difficult. Additionally, for instructors when evaluating student's programs, a simplified view of more complex (longer) programs is desirable. This thesis explores algorithms to create a tool for students that provides a simplified view of these concepts via visualization. The tool created for this thesis provides interactive visual representations of student programs. This allows for a simplified representation of the entire program along with …

The Impact Of Self-Practice Qigong On Strength Gains And Wellbeing During Off-Season Training For Fall Sport Athletes, Christopher Shawn White

Master's Theses

The use of mind-body therapies, such as Tai Chi, yoga, Qigong, and meditation are frequently reported as a means of coping with anxiety and depression. Despite these findings, there is little knowledge of Qigong exercise being able to impact elite athlete’s physical and mental states during off-season training. Purpose: Determine the efficacy of Qigong to facilitate strength gains and wellbeing in collegiate anaerobically trained athletes. Methods: Seventy-three athletes (47 M, 26 F, 18-22 years) volunteered to participate in a Qigong exercise group or standard care group. Strength gains were measured through a vertical jump test and a 3 RM front …

Gender Differences In Stress, Alcohol Consumption, And Cigarette Use Among College Students At San José State University, Thomas Farleigh

Master's Theses

Stress, alcohol consumption, and cigarette use represent three considerable threats to the mental and physical health within this country. Learning more about the prevalence and predictors of these threats in young adults may aid the development of programs to reduce the deleterious effects of these threats as young adult's age. A vast amount of research has been done to examine the possible association between stress and substance use in college students, but given the diversity of college students across the US, more research is needed targeting specific college campuses. This study did so with regard to a sample of students …

Modeling Black Bear-Vehicle Collision Zones In Yosemite National Park, Katie Elaine Rodriguez

Master's Theses

The purpose of this study was to identify road and habitat characteristics associated with black bear-vehicle collisions in Yosemite National Park and to suggest proper mitigations to reduce their occurrence. Black bear-vehicle collision data collected by Yosemite National Park staff between 1995 and 2011 were used to identify variables associated with collisions. Geographic Information System (GIS) mapping software was used to map and split Yosemite roads into 1 km segments. After measuring road and bear habitat-related variables along each road segment, logistic regression analyses showed that segments with collisions were associated with crossing sites, understory vegetation, curves, close proximity to …

The Sorcerer King, Jennifer San Filippo

Master's Theses

THE SORCERER KING is a musical stage adaptation of Charles Perrault’s fairytale

“Bluebeard." In a kingdom loosely based on eighteenth-century France, young courtier Catherine unwittingly falls for King Damien, the young monarch whose wife mysteriously disappeared years ago. Meanwhile, peasant Anne, Catherine’s friend, secretly plots a rebellion against whom she perceives as a cruel and apathetic king. As Catherine and Damien’s relationship quickly culminates in marriage, political tensions between the rich and poor rise. Catherine must confront the patriarchal barriers of her station as queen, as well as her own naiveté, to prevent civil war—and learn the truth about her …

Beasts Of Flight, Brian Wood

Master's Theses

Beasts of Flight is a set of thirteen short stories connected by themes of personal impotence and the dysfunction of sexual relationships.

Some stories are bizarre. The title piece, “Beasts of Flight,” explores systemic hatred and fear through the eyes of a talking parrot. In “I Should Exit My Home When the Costume Party Causes Paralysis of the Brain,” the host of a Halloween party is frozen by the mask of one of his guests. “The Joytime Killbox” details a city’s obsession with staring down the the barrel of a loaded gun. Crossing into sacrilege, “The Book of Smote,” is …

The Investigation Of The Low Temperature Combustion Of Mesitylene And Tert-Amyl Methyl Ether By Synchrotron Photoionization Mass Spectrometry, Martin Yu-Hin Ng

Master's Theses

This thesis describes the combustion experiments performed at the Chemical Dynamics Beamline of the Advanced Light Source (ALS) located at the Lawrence Berkeley National Laboratories (LBNL). The need for renewable fuel sources, the need for the study of their combustion in the contexts of homogenous charge combustion ignition (HCCI) engines can be found in Chapter 1. The components of the experimental set-up used throughout this thesis—time-of-flight mass spectrometer, Excimer laser, vacuum pumps and other components—and the components of ALS responsible in synchrotron radiation generation and processing—the linear accelerator, the booster ring, insertion devices, gas filters and monochromator are explained in …

Institutionalizing Urban Agriculture Can Provide More Than Hope For Poor San Franciscans: An Analysis Of The Urban Agriculture Incentive Zone Act (Uaiz), Rania Ahmed

Master's Theses

Cities have turned to urban agriculture (UA) as a means of revitalizing neighborhoods and addressing unmet food needs of urbanites. Farming the city has gained momentum and has become an important force in urban social landscapes and economics. UA has also sparked debates about the appropriate development of highly valuable private spaces. In 2014, the City of San Francisco created a tax incentive to encourage owners to use undeveloped private properties in UA. This tax incentive represents the political prioritization of UA as legitimate land use in San Francisco with the possible purposes of either meeting a pressing residential need …

Unintended Consequences Of Enforcement In A Fisheries Institution: Results From An Artefactual Experiment In Tanzania, Spencer Maccoll

Master's Theses

Overfishing and the destruction of fishing commons in developing countries is a growing problem. Policymakers and local community leaders are looking for solutions to keep their fishing commons sustainable. Fines and enforcement mechanisms are commonly suggested to help preserve the commons. This paper discusses a novel artefactual experiment conducted throughout several fishing communities in Tanzania to determine the effect of enforcing a ban on illegal fishing gear on fishing behavior. Results indicate that the fishers in the enforcement treatment group depleted the fish stock significantly faster than the unenforced control group. One possible explanation for this result is that the …

Transcriptional Regulation By Dax-1 In Pluripotent And Differentiated Cells, Alexandra C. Maramba

Master's Theses

DAX-1, an orphan nuclear hormone receptor, acts mainly as a repressor through transcriptional protein complexes. Its unique structure and specific expression raises questions as to what its precise interactions are and how it mediates its repressive function. While it is known to play a role in sexual development and adrenal insufficiency, expression in certain types of cancer suggests additional functions and interactions. Knock in of DAX-1 into a low-DAX-1 expressing cancer cell line has been previously observed to increase apoptosis, while, inversely, down in a high-DAX-1 expressing cancer cell line shows a decrease in apoptosis. Target genes that belong to …

Electrolyte Effects On The Kinetics Of Comproportionation Electron-Transfer Reactions And On Intervalence Charge-Transfer Band Energies Of Binuclear Ruthenium Ammine Complexes, Zhiji Han

Master's Theses

Chapter 1 describes an overview of electron-transfer reactions. The kinetic equations for ET reactions have also been described in detail.

Chapter 2 describes a series of novel kinetic accelerations which deviate strongly from the predictions of the classical Debye-Huckle theory with a range of different added “inert” electrolytes. The greater catalytic effects seen with the heavier halides and other catalytic electrolytes (especially certain dicarboxylates) indicate an important role for hole-transfer superexchange in the ET transition state. The hypothesis of a catalytic ternary association complex, [RuII--X--RuIII] has also been explored by kinetic modeling of the reaction. An increasing ratio of anion-catalyzed …

Detection Of Hcmv Viral Il-10 (Vil-10) In Healthy Blood Donors, Vivian P. Young

Master's Theses

Human cytomegalovirus (HCMV) is widespread in the general population and can establish lifelong latency with expression of a limited subset of viral genes. The UL111A gene is expressed during both lytic and latent infection, and at least two protein isoforms are produced. During lytic infection, the full length transcript yields cmvIL-10, a potent immunosuppressive viral ortholog of human IL-10 (hIL-10). Alternative splicing of the UL111A transcript yields a truncated protein, LAcmvIL-10, which is expressed during both lytic and latent infection but with a limited range of immunosuppressive functions. The two viral cytokines, collectively termed viral IL-10 (vIL-10), are identical in …