Digital Commons Network^™

Enhancing Preparedness: A Genetic Study Of Sar-Cov-2 And Other Microbial Public Health Threats In Wastewater From A College Town, Christian N. Hutchinson

Master's Theses

Problem

The SARS-CoV-2 (COVID-19) pandemic revealed both the systemic vulnerabilities of our healthcare system as well as the importance of timely, localized data for informing public health responses. Traditional testing approaches were essential but often failed to capture the full extent of viral spread, especially in those with mild or asymptomatic conditions that relied on at home testing. This underreporting hindered effective allocation of resources and made developing effective intervention strategies difficult. We also realized the potential for wastewater surveillance to be applied to tracking antimicrobial resistance gene markers. Taken together, this approach should have important implications for improving public …

An Evaluation Of The Relationship Between Beef Cattle Grazing Activity Traits And Conception Methods During The Breeding Season, Jason Dubowsky

Master's Theses

Efficient use of native rangelands and improved reproductive success are primary objectives in beef cattle production. Grazing behavior during the breeding season may be influenced by pasture characteristics, including size and water availability, as well as physiological differences due to reproductive status. This study aimed to evaluate the relationship between grazing activity and conception method in crossbred Angus cows over a 2-year period. The study was conducted during the winter months (December – February) on the Central Coast of California with a mean temperate of 53 degrees Fahrenheit. Cows (n = 76) were blocked by age and then randomly assigned …

Spatio-Temporal Variability Of San Francisco Bay Plume From Space, Piero L. F. Mazzini, Cassia Pianca, L. Fernando Pareja-Roman, Kelly L. Cole, Ryan K. Walter, Renato M. Castelao, Elias J. Hunter, Robert J. Chant

Physics

As brackish turbid waters exit San Francisco Bay, one of the largest estuaries in the U.S. West Coast, they form the San Francisco Bay Plume (SFBP), which spreads offshore and influences the Gulf of the Farallones (GoF), an ecologically significant region in the California Current System that is also home to three National Marine Sanctuaries. This paper provides the first observationally based investigation of the spatio-temporal variability of the SFBP, using a plume tracking algorithm applied to more than two decades (2002-2023) of ocean color data from the Moderate Resolution Imaging Spectroradiometer (MODIS) sensor onboard satellites Aqua and Terra. The …

Coyote (Canis Latrans) And Non-Target Wildlife Responses To Livestock Guardian Dogs At Sheep Grazing Sites On The California Central Coast, Tricia T. Nguyen

Master's Theses

Livestock depredation is one of the oldest and most widespread forms of human-wildlife conflict. The coyote (Canis latrans), a midsized canid, represents a significant proportion of domestic sheep depredations in the United States, costing livestock producers an estimated 24.6 million dollars annually. Management strategies for coyote-sheep depredation vary widely in their effectiveness and in their level of public support. Identifying appropriate strategies for farms, ranches, and other sheep grazing sites remains a pressing need due to the potentially negative consequences for surrounding ecosystems and socioeconomic outcomes for sheep producers. The livestock guardian dog (LGD) is a nonlethal control …

Drug Delivery, Disulfide Crosslinked Hydrogel Coating For Polydimethylsiloxane (Pdms) Implant Materials, Paul A. Contos, Paul Anthony Contos

Master's Theses

Though polydimethylsiloxane (PDMS) is often used in medical devices due to its desirable mechanical properties and biocompatibility, its surface is often prone to bacterial adhesion. This is especially a problem for catheters, where bacteria can adhere and form biofilms that can in turn result in Urinary Tract Infections (UTI). In order to deter the presence of UTI causing bacteria on PDMS catheters, methods were developed to formulate a disulfide crosslinked hydrogel coating and create a methodology to allow adhesion to a PDMS substrate. The hydrogel coating discussed in this paper will be synthesized by chemically crosslinking stimuli-responsive vesicles, that carry …

Using Livestreaming Technology To Answer Novel Questions About The Behavior And Physiological Ecology Of The Prairie Rattlesnake (Crotalus Viridis), Max C. Roberts

Master's Theses

Recent advances in remote monitoring technology are opening up new opportunities for developing innovative natural history and biological research methodologies. In particular, the emergence of livestreaming camera technology has made recording remote video of wild and secretive animals much easier and made it possible to collect data at extremely fine temporal resolutions. In 2024, Project RattleCam launched a livestreaming camera at a Prairie Rattlesnake (Crotalus viridis) den in Colorado. The goal of this work was to study Prairie Rattlesnake behavior 24-7 throughout the species’ active season with minimal human disturbance. Additionally, I used this system to study the …

Investigating Rattlesnake Social Networks And Improving Their Public Image Through Unobtrusive Technologies And Community Science, Owen M. Bachhuber

Master's Theses

While technology is often blamed for humans’ increasing disconnect with nature, it can also serve as a tool to facilitate empathy and conservation action for wildlife. Snakes are among the most feared animals on the planet, though their understudied social interactions provide opportunities to make scientific discoveries and change public perceptions. Project RattleCam was founded as a camera trap project in 2021 and launched the first off-grid livestream on a den of wild Prairie Rattlesnakes (Crotalus viridis) in 2024. Both camera types captured hundreds of Prairie Rattlesnakes gathering in the summer as they prepared to give birth to pups before …

A Wearable-Based Approach To Spinal Posture Tracking And Assessment, Sydney Marie Sherman, Noah Jeffery

Biomedical Engineering: Graduate Reports and Projects

This paper describes the design, manufacturing, and testing of a novel spinal posture tracking wearable device with embedded sensors. Currently on the market, most of the spinal posture tracking devices only focus on one segment of the spine and therefore do not track the entirety of human posture. The objective for this project was to create a wearable device in the form of a “smart shirt” that offers insights into posture trends throughout the day by tracking the entire spine. To begin the project, multiple designs were developed for the sensor array and wearable materials. These concepts were compared against …

Academic Senate - Agenda, 6/3/2025, Academic Senate

Academic Senate Agendas

No abstract provided.

Novel Electrospinning Techniques For Fabricating Scaffolds To Model Intracranial Atherosclerotic Disease In Tissue Engineered Blood Vessel Mimics, Isaac "Squeaky" Buentipo

Master's Theses

Novel Electrospinning Techniques for Fabricating Scaffolds to Model Intracranial

Atherosclerotic Disease in Tissue Engineered Blood Vessel Mimics

Isaac “Squeaky” Buentipo

Dr. Kristen Cardinal’s Tissue Engineering Lab at California Polytechnic State University specializes in fabricating customized vascular models, known as Blood Vessel Mimics (BVMs), for medical device testing. BVMs are simplified in vitro vascular models designed to bridge the gap between bench testing and in vivo evaluation of intravascular medical devices. BVMs are produced by combining a polymer scaffold with human vascular cells. Through novel scaffold fabrication techniques, such as silicone injection molding, silicone dip casting and electrospinning, the capabilities of …

Evaluation Of Antibiotic Testing Protocols For Biofilm-Forming Escherichia Coli In A Microfluidic Platform, Caleb R. Telander

Master's Theses

Catheter-associated urinary tract infections remain an ongoing clinical problem due to biofilm persistence and antibiotic resistance. Standard antibiotic susceptibility testing cannot accurately reproduce flow conditions and the spatial complexity of the in vivoenvironment and is thus questionable in relevance to device-related infections. This study examines a microfluidic device designed to simulate physiologically relevant wall shear stress and antibiotic gradients in Escherichia coli biofilms. The polydimethylsiloxane-based system integrates a 16-well culture chamber with a gradient generator. Biofilm growth was observed using fluorescence microscopy of green fluorescent protein-labeled bacteria. Simulations performed using COMSOL Multiphysics software estimated the appropriate range of wall …

Balance Assessment Of Disc Golf Players By A Smartphone, Joshua Paul Kannankunni

Master's Theses

Disc golf is an underrepresented sport in biomechanics research, even though it could have effects on gait and balance. Forward and side lunges performed while throwing discs can improve static and dynamic balance. The purpose of this study was to explore the effects of playing disc golf on various static and dynamic balance metrics. Static and dynamic balance experiments were done on 20 disc golf players and 20 control participants to record their RMS of acceleration during the double leg, tandem, and single leg static poses, as well as their gait speed, cadence, stride length, right step length, left step …

Effects Of Spirulina And Nannochloropsis Supplementations On The Meat Quality And Sensory Properties Of Broiler Carcasses, Shreyash S. Patel

Master's Theses

Microalgae are a promising feed ingredient due to their high content of proteins, lipids, polysaccharides, vitamins, pigments, and enzymes. This study evaluated the effects of algae as a dietary supplementation on the appearance, quality, and sensory attributes of broiler carcasses. In each of experiment I and II, a total of 54 Ross-708 broilers were randomly obtained from the pool of 270 broilers in the 18 floor pens of soybean-mealbased diets at 0, 2.5%, and 5% Spirulina (Experiment I) and Nannochloropsis (Experiment II) supplements in the Poultry Unit at California Polytechnic State University (Cal Poly, San Luis Obispo, CA). Broiler carcasses …

Opensim Analysis Of The Aymara Indigenous People Performing Ancestral Tasks: Exploring Trends Of Muscle Activity With Tiwanaku Skeletal Indicators, Noah M. Taylor

Master's Theses

The Tiwanaku civilization (AD 500-1100) of the Andean highlands exhibited occupational specialization in communities, with archeological evidence suggesting the existence of labor- and residential-communities, or “taskscapes”, based on an individual’s livelihood. Prior bioarcheological studies have examined Tiwanaku skeletal remains for musculoskeletal stress markers, osteoarthritis, and cross-sectional geometry to infer activity patterns. Their descendants, the Aymara Indigenous people, currently live in the same highlands and until recently lived a lifestyle like their ancestors. Over the past 20 years, the global quinoa demand has risen, thrusting the Aymara into globalization and moving them away from the traditional tasks previously performed. This study …

Acoustic And Hemodynamic Analysis Of Phantoms: Roughness And Flow Dynamics, Ethan Erik Olof Sundberg

Master's Theses

The purpose of this study was to determine whether different vascular phantoms, with and without a surrogate arm, could serve as effective analogs to the human brachial artery for assessing endothelial dysfunction, an early indicator of cardiovascular disease, particularly atherosclerosis. Atherosclerosis is characterized by plaque buildup and endothelial damage, which precede more severe clinical events and are often detectable through changes in vascular function. A 40” water tower was used to simulate diastolic pressure, enabling water flow through each phantom. Strain gauge pressure transducers were placed at both ends of the phantoms to measure pressure drop, while a microphone captured …

A Manufacturing Process For Interdigitated Microelectrodes On Glass Wafers, Wyatt W. Warfield

Master's Theses

This study presents work done to optimize the process parameters to produce interdigitated electrodes on a borosilicate wafer. Using designed experiments and statistical analysis, the error in pattern transfer was minimized using for key process steps including exposure time, develop time and post exposure bake duration. Similarly, statistical analysis was used with profilometry data to fine tune the develop times. Qualitative analysis was used to assess thin film deposition. The resulting process produced wafers with improved pattern transfer and adequate film adhesion

Optimizing Microfluidic Murine Fibroblast And Human Epidermal Keratinocyte Cell Culture In 70Μm Microwells, Christian Navarro

Master's Theses

Cell culture is an essential technique utilized in biotechnology and medicine to remove systemic influences to study cellular behavior and morphological development of individual cell lines. However, conventional cell culture is two-dimensional and static meaning it can’t easily mimic in vivo conditions such as multicellular cell to cell interactions, fluid perfusion, or 3D structures which might alter cellular behavior and morphology. Microfluidic cell culture allows for the incorporation of in vivo conditions such as perfusion and chemical gradients allowing for more physiologically accurate models. The goal of this study is to develop a protocol for testing a microfluidic chip designed …

Dairy-To-Go: An Informal And Formal Education Model On Milking Dairy Cattle, Elizabeth Ann Marie Kostalnick

Agricultural Education: Graduate Internship Reports

Within California, 360 schools have FFA programs; however, there are still over 2,000 high schools within the state. This equates to only 18% of California high schools having access to FFA. That number may be greater than 10%, however, access to agricultural curriculum is still limited. Considering US crop production is concentrated predominantly in California and the Midwest (USDA-ERS 2017), high schools in California, regardless of location and proximity to a farm, should have access to an agricultural curriculum. The purpose of this project was to create a curriculum where middle school and high school educators can show the process …

Ecological Footprint Analysis Of Chatgpt (Gpt-3), Isabella Boulais

Computer Science and Software Engineering

Climate change is an escalating crisis that demands immediate action from all sectors, including the rapidly advancing field of artificial intelligence (AI). While AI offers climate solutions, its own environmental impact raises concerns. Unfortunately limited research due to rapid development, system complexity, and lack of standardized methodologies hinders our understanding of AI’s environmental consequences. This project aims to conduct a comprehensive ecological footprint analysis of OpenAI’s GPT-3 model that is used to power ChatGPT, establishing guidelines for assessing AI systems’ environmental impact and proposing a framework for improvement. Going beyond tracking carbon emissions, this project will outline the broader lifecycle …

Effectiveness Of Nutrition Education On Male Student Veterans From Cal Poly, San Luis Obispo University, Keith S. Kim

Master's Theses

This pilot study evaluated the effectiveness of a 13-week nutrition education intervention designed to improve dietary patterns, physical health, and mental health outcomes among 10 student male military veterans at California Polytechnic State University, San Luis Obispo. The intervention, grounded in the Dietary Guidelines for Americans, 2020–2025, included a one-time educational presentation and periodic recap videos to reinforce key messages. Outcome measures included dietary intake, body mass index (BMI), handgrip strength, depressive symptoms (via the Beck Depression Inventory), and post-traumatic stress disorder (PTSD) symptoms (via the PCL-5). Results revealed no statistically significant changes in dietary patterns, BMI, handgrip strength, …

Density-Based And Model-Based Clustering With Tidyclust In R, Brendan S. Callender

Master's Theses

Clustering is a fundamental technique in unsupervised learning that can be used to find hidden patterns and structures within unlabeled data. The tidyclust package in R provides a unified interface for applying various clustering techniques to data. This paper outlines the addition of density-based clustering with DBSCAN, and model-based clustering using Gaussian mixture models (GMMs) to the tidyclust package. DBSCAN can be performed using the db_clust() function and makes use of the dbscan package implementation as its engine. GMMs can be fit using the gm_clust() function which makes use of the mclust package implementation. This paper highlights the changes made …

When Trees Disappear: Understory Successional Implications Of Sudden Oak Death And High-Severity Wildfire In Big Sur, California, Sam J. Balthazard

Master's Theses

The rapidly emerging disease sudden oak death, caused by the non-native pathogen Phytophthora ramorum, is transforming coastal California forests by driving extensive mortality of tanoak (Notholithocarpus densiflorus) and increasing fire severity. As a novel disturbance, sudden oak death and its interaction with wildfire may catalyze unexpected shifts in successional trajectories and reconfigure forest understory communities. Furthermore, how tanoak influences the forest understory and how its decline might reshape understory dynamics remain poorly understood. We hypothesize that disease alone and the compounding disturbances of disease and wildfire alter successional dynamics, and that the potential functional extinction of N. …

Electroporation Protocol Development For Cal Poly Cell Therapy Laboratory Courses, Gabrielle Melamed

Biomedical Engineering

Cancer is a heterogeneous disease caused by unchecked cell proliferation. The disease contributed to 9.7 million deaths worldwide in 2022, with hematological malignancies (leukemias, lymphomas, and myelomas) accounting for over 1.4 million deaths in the United States from 1999 to 2020. This thesis focuses on the treatment of these cancers, with an emphasis on non-Hodgkin lymphomas (NHLs). R-CHOP (Rituximab-Cyclophosphamide, Doxorubicin hydrochloride, Oncovin/Vincristine, and Prednisone) is the standard of care first-line treatment for diffuse large B-cell lymphoma (DLBCL), the most common subtype of NHL, and encompasses a mixture of chemotherapy, immunotherapy, and corticosteroids. The R-CHOP regimen cures 50% to 70% patients, …

Llnl Raft Flash Pole Redesign, Jack Stangel, Evan Wolfson, Jake Borden, Alexander Meeter

Mechanical Engineering

During research exercises in the ocean, Lawrence Livermore deploys a fleet of rafts outfitted with flash modules affixed to tall poles (in tandem called flash poles) that flash while a photo is taken to act as datums for data collection. The current flash pole design that the LIDSS (Lawrence Livermore Independent Diagnostic Scoring System) team uses is too short to be visible in high seas, not mechanically suited to be made taller, too susceptible to the elements and blunt impact and too difficult to service. We aim to solve these issues.

Design Principles For Robotic-Controlled 3d Printing Of Soft Tissue-Mimicking Materials, Karina Mealey

Master's Theses

Geometrically and physically accurate 3D models are emerging as essential tools for surgeons in pre-operative planning and training, but current methods of producing these models are not sufficient. Existing solutions have downsides such as high costs, long and tedious production times, high complexity resulting in a lack of scalability, or an inability to meet material requirements for accurately simulating human tissue.

The objective of this work is to develop principles for a low-cost, easy-to-use 3D printing system capable of prototyping with soft tissue-mimicking materials. To pursue this goal, a MyCobot280 robot arm was used as the mechanism to explore the …

The Application Of Lidar For Classifying Wildland Fuels, Madison Muschetto

Master's Theses

Accurate vegetation classification is critical for modeling wildfire behavior, particularly in fire-prone ecosystems where fuel type influences fire spread and intensity. This study evaluates the effectiveness of UAV-based aerial LiDAR, supplemented by multispectral imagery, for classifying grass, shrub, and tree vegetation types across a grass-dominated landscape. Using canopy height thresholds, vertical profile analysis, LiDAR predictions were compared against field-verified vegetation observations at 80 survey points. Results showed that LiDAR classified grass with high accuracy but was less reliable for detecting shrubs and trees, especially under canopy cover. Misclassifications were most common beneath tree canopies and in areas where low-stature shrubs …

Topodino: Self-Supervised Topological Representation Learning For Neuronal Morphologies, Yasser Binbisher

Master's Theses

Neuronal cell types are categorized by transcriptomic identity, yet their morphological heterogeneity defies this classification. In response, researchers have adopted unsupervised graph representation learning as a tool to reveal morphological variation within single-class transcriptomic types. However, the complex geometry of neuronal morphology—especially long axons and dense dendrites—challenges graph neural networks, which struggle with message propagation across extended structures. To mitigate this, current approaches enforce sub-sampling on neuronal graphs and omit axons entirely, sacrificing critical biological features for computational efficiency. To overcome this trade-off, this thesis introduces TopoDINO, a self-supervised, topology-aware representation learning model designed to preserve the full hierarchical organization …

"The Effect Of Methylobacterium Symbioticum On The Growth And Yield Of Dent Corn And Romaine Lettuce", Sinead Carney

Master's Theses

Nitrogen (N) is an essential nutrient for plant growth and is often a limiting nutrient in cropping systems. An estimated half of applied N fertilizers are lost from cropping systems by processes that can be environmentally destructive, such as leaching and volatilization, and cause economic loss for growers. Effective N biofertilizers offer a means to mitigate the need for high inputs of synthetic N. The objectives of this study were to determine the effects of leaf inoculation with the N-fixing bacteria, Methylobacterium symbioticum, in combination with different rates of urea-N fertilizer on the physiology and yield of dent corn …

From Tree To Shrub? The Fate Of Tanoak Through Fire And Nonnative Disease, Jacqueline Rose

Master's Theses

Invasive plant pathogens have killed an uncountable number of trees and disrupted ecosystem processes throughout the world. Newly introduced pathogens may interact with historically occurring disturbances in unexpected ways to cause amplified mortality and change to ecosystem processes. Here, I examine the a natural experiment created by three wildfires in Big Sur, a portion of the central coast of California impacted by the nonnative pathogen Phytophthora ramorum, to forecast the future of a species susceptible to the pathogen. Using a plot network which spans the length of Big Sur, I track the survival of individual tanoak (Notholithocarpus densiflorus) stems and …

Stability Insights From Modeling Chronic Myelogenous Leukemia, Giovani Thai

Master's Theses

This thesis centers around a model for chronic myelogenous leukemia (CML) as it behaves under imatinib treatment, a common medication for CML patients, and the anti-leukemia immune response. The dynamics are represented with a system of nonlinear delay-differential equations first constructed by Kim et al. in 2008, capturing population changes of T-cells and various CML growth stages. We investigate stability in both the clinical and mathematical sense. Through numerical simulations, we computationally incorporate a supplementary treatment plan to determine its effectiveness in aiding immune response and medication in achieving remission and full elimination. The primary goal is to conduct a …