Digital Commons Network^™

Identifying And Predicting Rat Behavior Using Neural Networks, Jonathan A. Gettner

Master's Theses

The hippocampus is known to play a critical role in episodic memory function. Understanding the relation between electrophysiological activity in a rat hippocampus and rat behavior may be helpful in studying pathological diseases that corrupt electrical signaling in the hippocampus, such as Parkinson’s and Alzheimer’s. Additionally, having a method to interpret rat behaviors from neural activity may help in understanding the dynamics of rat neural activity that are associated with certain identified behaviors.

In this thesis, neural networks are used as a black-box model to map electrophysiological data, representative of an ensemble of neurons in the hippocampus, to a T-maze, …

Two-Phase Anaerobic Digestion To Reduce The Nox Emission Potential Of Biogas, Nathaniel Manuel Olivas

Master's Theses

Anaerobic digestion can be used to decrease the mass of organic wastes to be disposed of while producing useful biogas (CH₄ and CO₂) for heat or power production, but in air basins with strict emissions limits, biogas combustion is difficult to implement due to the high costs of controlling NOx emissions. NOx production can be minimized by blending H₂ gas with CH₄ at a volume ratio of 15:85 H₂:CH₄, which allows burning at ultra-lean air-to-fuel ratios. For biogas systems, a potential low-cost NOx control strategy is to produce H₂-CH …

Predicting Invasive Range Of Eucalyptus Globulus In California, Anthony J. Lopez

Master's Theses

Eucalyptus globulus is the subject of intense debate in California. Its invasive potential, aggressive growth, reproductive biology, and association with fire make the prediction of spread important in California. Two modeling simulations, Climex and Maxent, will illustrate the distribution and potential growth range of E. globulus in California based on climate and presence. Modeling the potential range of growth will predict invasive spread. The anticipated result is the continued spread of E. globulus in coastal regions with adequate moisture and suitable climate. Predicting the range of E. globulus in California dictates management strategy and is key for preventing further introduction, …

The Effects Of Foliar Nutrient Applications On Split, Yield, And Internal Fruit Quality Of 'Wonderful' Pomegranate (Punica Granatum L.), John Matthew Chater

Master's Theses

Fruit split is the most important physiological disorder in pomegranate production, causing devastating crop losses worldwide. Foliar nutrient applications have been used experimentally to mitigate pomegranate fruit split but none have been conducted using the industry standard cultivar, Wonderful, and little is known about the effects of foliar nutrient applications on pomegranate. Additionally, investigations into putative health benefits of pomegranate fruit have increased interest in its production but limited evidence exists regarding effects of agricultural practices such as foliar fertilizer applications on internal fruit quality. ‘Wonderful’ pomegranate trees at 2 commercial orchards were treated with foliar applications of ZnSO_{4 …}

Movements, Habitat Use, And Demography Of Western Pond Turtles In An Intermittent Central California Stream, Joseph Paul Belli

Master's Theses

By Joseph P. Belli

Western Pond Turtles, Emys (Actinemys) marmorata, were captured (n=173) in 2011 (wet year) and 2012-2013 (successively drier drought years) along upper Coyote Creek, an intermittent stream in central California. Males outnumbered females 2.8:1, juveniles less than 120 mm long made up 26% of captures, growth rates varied among individuals, and little growth occurred in turtles older than 10 years. I radio-tracked turtles from May 2011 through August 2013 to ascertain movements and seasonal habitat use. Males had much larger home ranges than females (means of 2281 m for males and 501 m for females in 2012), …

Natural And Anthropogenic Disturbance In Mcmurdo Sound, Antarctica: Iceberg Scours, Human-Derived Pollutants, And Their Effects On Benthic Communities, Clint Alan Collins

Master's Theses

The purpose of this study was to explore the impact of icebergs on infaunal communities in McMurdo Sound, using cores taken from naturally occurring scours, experimental plots simulating iceberg disturbance, and undisturbed reference areas spanning a 24 year time period. Iceberg scours and experimental plots altered infaunal abundances, reduced diversity, and changed species compositions. Abundances were lower at inside scour locations, dominated by a suite of mobile crustaceans. Common sessile space-dominating species were higher at scour edges, suggesting that recolonization of scours occur inward from the edges. When compared to other samples from the McMurdo Sound exposed to varying degrees …

Characterization Of Gut Associated Circulating Invariant Natural Killer T Cells (Inkt) In Chronic Inflammation Of The Intestine, Venus Allahyarzadeh

Master's Theses

The incidence of chronic intestinal diseases such as Crohn’s disease (CD), ulcerative colitis (UC), and celiac disease is steadily rising in pediatric patients in the United States. Although there is an influx of helper T cells to the gastrointestinal (GI) tract in these diseases, the immunopathologic mechanisms of specific T cell subsets are not clearly understood and diagnosis between these diseases is difficult. We hypothesized that the frequency of specific subsets of circulating invariant natural killer T (iNKT) cells and their surface trafficking receptor (TR) phenotype indicate location and degree of inflammation in patients and further help to distinguish between …

Face Recognition: An Engineering Approach, Farshad Ghahramani

Master's Theses

In computer vision, face recognition is the process of labeling a face as recognized or unrecognized. The process is based on a pipeline that goes through collection, detection, pre-processing, and recognition stages. The focus of this study is on the last stage of the pipeline with the assumption that images have already been collected and pre-processed. Conventional solutions to face recognition use the entire facial image as the input to their algorithms. We present a different approach where the input to the recognition algorithm is the individual segment of the face such as the left eye, the right eye, the …

Screening Bioactive Molecules In Tetrahymena Thermophila Using Phagocytosis Determined By Flow Cytometry, Santosh Gummidipundi

Master's Theses

The evaluation of molecules that have potentially bioactive significance is an expanding field, but current screening assays are expensive and time consuming. Mammalian cell-based assays require aseptic techniques, complex media and long generation times. This thesis reports on an assay that incorporates Tetrahymena phagocytic ingestion and flow cytometry to evaluate several potentially bioactive molecules. Several factors that influenced optimal and reproducible results were analyzed. Seven potentially bioactive molecules (serotonin, norepinephrine, dopamine, morphine, colchicine, mexiletine and procainamide) were evaluated to determine their effect on phagocytosis by Tetrahymena. Assay results indicated that the phagocytic rate was unaffected by serotonin, norepinephrine, dopamine, and …

Consumer Complaints And Protection: Stable Analysis And Design Patterns, Vishnu Sai Reddy Gangireddy

Master's Theses

The concept of consumer complaints and protection has numerous applications across various domains. Using traditional methods of modeling design patterns is a tedious and costly task. The Software Stability Mode (SSM) is a more efficient and effective modeling method. In this thesis, the differences between the traditional method and the SSM is addressed. Then, several patterns are developed using the SSM to deal with consumer complaints. Each area, Advice, Appraisal, Commitment, Complaint, Compliance, Deed, Guideline, Gratification, Judgment, Model, Need, Ownership, Promotion, Rate, Review, Selling, Support, View, and Violation, is explored and the core knowledge of the concept of consumer complaints …

Mitochondrial Dysfunction And Lipid Metabolism Play A Major Role In The Lethality Caused By Developmental Alcohol Exposure, Payam Khodabakhshi

Master's Theses

Exposure to ethanol during development causes a variety of physical, developmental, and cognitive abnormalities. In humans, these symptoms are referred to as fetal alcohol syndrome (FAS) or fetal alcohol spectrum disorder (FASD). Previously, we established a Drosophila melanogaster model of FASD and showed that developmental ethanol exposure causes oxidative stress, and that this is a primary cause of the developmental lethality and delay associated with ethanol exposure. In this study, we investigate the role of fatty acid metabolism and lipid accumulation in connection to FASD. Here, we show that developmental ethanol exposure leads to dysregulation of fatty acid metabolism and …

Burrowing Owl (Athene Cunicularia) Diet And Abundance At A Stopover And Wintering Ground On Southeast Farallon Island, California, Sara Lee Chandler

Master's Theses

On the Farallon Islands the burrowing owl (Athene cunicularia) is a native migrant and predator of the non-native house mouse (Mus musculus) and the native ashy storm-petrel (Oceanodroma homochroa). Burrowing owl predation on the ashy storm-petrel is unnaturally exacerbated by the abundance of house mouse prey in the fall, which may encourage more owls to overwinter. When the cyclic mouse population crashes in winter, the owls prey upon storm-petrels, a species of conservation concern. In 2009, the U.S. Fish and Wildlife Service proposed eradication of the house mouse from the Farallon Islands in order to reduce owl predation on and …

Quantifying Variability In Oculomotor And Manual Choice Response Times, Angelica Godinez

Master's Theses

Response times (RTs) of various motor systems have traditionally been used to characterize aspects of human performance (e.g., fatigue, disease states). However, the properties and sensitivity of different motor systems to detect changes in neural states across multiple timescales remain an open question. In this thesis, we attempt to characterize the difference in sensitivity of the pursuit, saccadic, and manual systems to detect changes in stimulus strength. In Experiment 1, we used a modified Yes-No task to test the effects of contrast (5, 10, 20, 40, 80, 100%) on three pursuit, saccadic, and manual RT’s for three observers. In Experiment …

Sex Role Type As A Predictor Of Gender Stereotype Use In The Evaluation Of Others: Does Being Atypical Preclude Sex Typing Of Others?, Jennifer L. Miller

Master's Theses

The purpose of this investigation was to see if sex role adherence could be used to predict gender stereotype use when viewing children. This was tested using a conceptual replication of an influential gender label study by Condry and Condry in which participants viewed a video of a baby crying in response to a startling event. Contrary to the Condry findings, this study found that participant perception of why a baby was crying was not consistent with the gender label given (consistent, being angry for the boy label and fearful for the girl label). Participant ratings did not vary significantly …

Factors Affecting Western Snowy Plover Winter Foraging Habitat Selection In San Francisco Bay Ponds, Benjamin Gabriel Pearl

Master's Theses

Within the San Francisco Bay Area, Western Snowy Plovers (Alexandrinus

nivosus nivosus) nest and winter in former salt ponds. They face a number of threats

including human-altered habitats and high levels of predation by mesopredators and

raptors. The South Bay Salt Pond Restoration Project (the Project) is a large wetland

restoration project that will change and potentially eliminate snowy plover habitat in the

region. As the Project returns salt ponds to tidal wetland, there will be less of the dry,

flat, and sparsely vegetated habitat that plovers need for breeding and wintering habitat.

A greater understanding of the specific microhabitat …

Synthesis, Structural Characterization And Chromatographic Evaluation Of Silica Hydride-Based Perfluorinated Stationary Phase, Harshada Suyog Natekar

Master's Theses

Silica hydride based stationary phases have demonstrated unique selectivity and specificity for small sized polar molecules. The weakly hydrophobic nature of silica hydride is thought to be the key reason for its remarkable retention capabilities. Traditional stationary phases bonded with fluorine moieties have also exhibited enhanced retention of small polar molecules. In this research, a perfluorinated silica hydride stationary phase was synthesized by hydrosilation and silanization procedures. Chromatographic characterization of the newly packed column was carried out by a large number of retention studies. The separation capabilities of the column were evaluated in both the aqueous normal-phase (ANP) and reversed-phase …

Complex Effects Of Nitrogen Pollution And Grazing On Nectar Resources Of The Adult Bay Checkerspot Butterfly (Euphydryas Editha Bayensis), Nidhi Jain

Master's Theses

Recent anthropogenic increases in atmospheric nitrogen due to urbanization and combustion have had many adverse effects on natural systems, including loss of biodiversity, especially in sensitive habitats. One such region is the serpentine ecosystem of Coyote Ridge in San Jose, CA, the last refuge for recurring populations of the federally threatened Bay Checkerspot Butterfly (BCB) (Euphydryas editha bayensis). Increases in non-native grass cover and decreases in native forb cover (including cover of the BCB’s native larval host plants) have been attributed to the fertilizing effects of increased atmospheric nitrogen deposition. To counteract this effect, grazing has been implemented as a …

Chloroflexi: The Tale Of A Bacterium Present In Human And Environmental Habitats, Jayashree Sanjeeviraman

Master's Theses

The phylum Chloroflexi is relatively unexplored, with the majority of its representatives being uncultivable. As a result, these microorganisms have not been characterized beyond their morphology and simple staining reactions, making the study of this phylum extremely challenging. Chloroflexi has been detected in the human oral cavity of patients suffering from peri-implantitis and in the vagina of patients suffering from bacterial vaginosis. Interestingly, Chloroflexi is also present in various environments such as freshwater lakes, soil, deep-sea sponges, hot springs and activated wastewater. Isolation of an environmental Chloroflexi with high 16S rRNA gene homology to a human-associated counterpart could be used …

The Role Of Nitric Oxide In Skeletal Simulated Microgravity Response, Luan Tran

Master's Theses

Prolonged exposure to the space environment leads to bone loss. Using a ground-based model for microgravity (hind-limb unloading), it has been shown in rodents that proliferation and differentiation activity of osteoprogenitors are decreased with exposure to simulated microgravity (Kostenuik et al., 1997). Osteoblast mineralization activity has been shown to increase with nitric oxide supplementation (Afzal et al., 2004; Koyama et al., 2000). I hypothesized that the degenerative effects of microgravity exposure result from chronic changes in nitric oxide regulation in osteoprogenitors, and that supplementation with exogenous nitric oxide following exposure would ameliorate these changes. In 20 C57Bl/6 mice, hind-limb unloading …

Effects Of Small-Scale Substrate Complexity And Heterogeneity On Rocky Intertidal Species Interactions, Sara E. Worden

Master's Theses

The barnacle assemblage in the high rocky intertidal zone has provided an excellent study system to examine species interaction webs. This assemblage consists of a small set of species: barnacles, a variety of macroalgae, and a suite of limpet grazers. Despite the extensive intertidal research occurring along the central California coast, little is known about this specific interaction web and what physical factors may influence it in this region. This study examines the direct, indirect, positive, and negative interactions between the intertidal barnacle Balanus glandula Darwin, the brown seaweed Pelvetiopsis limitata Gardner, and limpet grazers, and how the underlying rock …

Geographic Variation In The Life History And Morphology Of The Pacific Geoduck, Panopea Generosa, Gabriela Navas

Master's Theses

The Pacific geoduck, Panopea generosa, is an ideal candidate to investigate patterns of life history variation and morphological plasticity in shell shape, as it occurs over a large geographic range, inhabits different marine environments, and experiences intense fishing pressure in some locations (i.e., Mexico and Washington). Six populations were sampled from Washington to Mexico to evaluate evidence for geographic variation in demography, life history, and morphology. Results provided evidence for a latitudinal cline with larger clams occurring in locations characterized by colder water temperature. Age structure and longevity analyses indicated that life expectancy was significantly lowered at intertidal sites compared …

Maternal Effects And Offspring Behavior: Potential Contributors To The Lack Of Recruitment In Mississippi Gopher Tortoises (Gopherus Polyphemus), Aaron L. Holbrook

Master's Theses

Federally threatened in Mississippi, gopher tortoise (Gopherus polyphemus) populations within the state have strongly variable recruitment and are generally in decline. Hatching success is significantly lower in Mississippi than in any other part of the species’ range , and most hatchlings die within the first year. There are few refuges where survival and hatching success is high. Here I compare two populations that differ in recruitment and offspring survival for differences in corticosterone. Corticosterone is a hormone that influences both energy availability and is released in elevated levels during stressful events, like living in poor quality habitat. Prolonged corticosterone elevation …

A Statistical Model For The Prediction Of Dissolved Oxygen Dynamics And The Potential For Hypoxia In The Mississippi Sound And Bight, Andreas Moshogianis

Master's Theses

Hypoxia events occur when dissolved oxygen concentrations fall below the minimum threshold (dissolved oxygen concentrations < 2 mg O₂ L^-1) necessary to avoid respiratory distress among aquatic organisms. In the Mississippi Sound and Bight, hypoxia is most prevalent from late-spring through late summer. Since hypoxia events can have dramatic effects on coastal fisheries, the spatial and temporal magnitude of hypoxia presents a clear threat to the productive fisheries in the northern Gulf of Mexico. Long-term hydrographic data were collected from eight sampling stations on a monthly basis from January 2009 to December 2011 along a cross-shelf transect from the mouth of …

Burial Chronological Sequencing Of The Colonial Maya Cemetery At Tipu, Belize Using Fluoride Ion Analysis, Nicole Musselwhite

Master's Theses

This thesis ascertains the sequence of burials using fluoride ion electrode analysis at the colonial cemetery at Tipu, Belize in order to explore demographic and other cultural effects associated with European contact. The cemetery at Tipu in west central Belize, dating from within the first century of Spanish contact, has provided one of the largest and best preserved Maya skeletal series, with over 500 burials recovered. While this series has undergone vast amounts of analysis, there has yet been an analysis conducted to view how patterns changed over time. This is of interest given the rapid culture change associated with …

Territorial Defense Strategies In The Northern Cardinal (Cardinalis Cardinalis): Who Is The Bigger Threat?, Kaylee M. Gentry

Master's Theses

This thesis examines the use of defensive strategies in relation to territories year round in the northern cardinal (Cardinalis cardinalis). Responses to recorded neighbor song and stranger song playback from the middle of a focal male’s territory were measured. This allowed for an estimation of aggression in both the winter and spring seasons. Each focal male was subjected to both treatments (stranger song and neighbor song). Males were more responsive over-all to neighbor song playback, however in the winter months, persistence of response to neighbor song playback increased. It was also shown that southeastern United States cardinals show …

Gut Microbiota Of Migratory Passerines At Stopover, William Bagley Lewis

Master's Theses

Although the gut microbiota provides many beneficial functions to animal hosts, relatively little is known about the gut microbiota of passerines. It is likely that gut microbes are especially important during the migratory phase; however gut atrophy experienced during prolonged migratory flight may cause disruptions of the stable microbiota. Fecal samples were collected from several species of passerine after crossing the Gulf of Mexico during spring migration and before crossing during fall, and microbiota communities were analyzed using next-generation sequencing. Despite showing large inter-individual variation, a core microbiota composed largely of Firmicutes and Proteobacteria was identified in all birds. Microbiota …

A Platform For Fast Detection Of Let-7 Micro Rna Using Polyaniline Fluorescence And Image Analysis Techniques, Partha P. Sengupta

Master's Theses

The project describes a new strategy for transducing hybridization events through modulating intrinsic properties of the electroconductive polymer polyaniline (PANI). When DNA based probes electrostatically interact with PANI, its fluorescence properties are increased, a phenomenon that can be enhanced by UV irradiation. Hybridization of target nucleic acids results in dissociation of probes causing PANI fluorescence to return to basal levels. By monitoring restoration of base PANI fluorescence as little as 10^-11 M (10 pM) of target oligonucleotides could be detected within 15 minutes of hybridization. Detection of complementary oligos was specific, with introduction of a single mismatch failing to …

Same-Sex Socio-Sexual Interactions Among A Group Of Captive Bottlenose Dolphins (Tursiops Truncatus), Natalia Botero Acosta

Master's Theses

Bottlenose dolphins (Tursiops truncatus) frequently engage in non-reproductive sexual behavior, including homosexual encounters. In order to better understand the nature and function of these interactions, a longitudinal study of the patterns of association and the dynamics of initiator/recipient role exchange was conducted. Underwater video footage of a colony of bottlenose dolphins housed at the Roatan Institute for Marine Sciences (RIMS), collected between March of 2010 and May of 2013, was analyzed. Associations occurring during homosexual interactions were transitory for most individuals. Nonetheless, subsequent analyses allowed the rejection of the null hypothesis of random association, suggesting the existence of …

Bioarchaeological Analysis Of Oak View Landing (40dr1): An Archaic Population In The Kentucky Lake Reservior, Katy D. Grant-Mclemore

Master's Theses

The biocultural examination of the Archaic population recovered at Oak View Landing (40DR1) investigates the lifeways and adaptations of prehistoric people as they reflect sociopolitical and subsistence strategies.

A comprehensive bioarchaeological analysis was conducted on the adult individuals (18 males, 16 females, 16 of indeterminate sex) excavated from a multiple occupation site located along the Tennessee River in Decatur County, Tennessee. Skeletal indicators used to understand biocultural phenomena were assessed macroscopically on cranial and postcranial elements. Furthermore, mortuary data, for adults and subadults, were used to determine any patterns of preferential treatment at death.

Results from this study indicate that …

Paleopathology At The Shady Grove Site (22qu525): A Study Of Health In The Upper Yazoo Basin During The Middle Mississippian Period, Christopher Brady Davis

Master's Theses

The Mississippian Period (AD 1000-1539) is characterized by increasingly sedentary populations, mound building, ranked societies, and intensified agriculture. As agriculture spread throughout the Eastern Woodlands, it led to widespread health consequences, including poor nutrition and increased levels of infection. Also, environmental shifts during the Mississippian Period (AD 1000-1539) caused drier conditions, potentially leading to crop failures further exacerbating nutritional problems.

This thesis focuses on the health of the Shady Grove site in the Upper Yazoo Basin, a Middle to Late Mississippian medium sized mound center where an ossuary containing up to 100 individuals was excavated in 2010. Focusing only on …