Digital Commons Network^™

Pathway Engineering Via Synthetic Biology, Huimin Zhao

Metabolic Engineering IX

No abstract provided.

Minimal Cut Sets As Computational Tool In Metabolic Engineering, Steffen Klamt

Metabolic Engineering IX

No abstract provided.

Optimizing Pentose Utilization In Clostridia For Improved Solvents Production From Lignocellulosic Hydrolysates, Sheng Yang

Metabolic Engineering IX

No abstract provided.

Developing Industrial Biotechnology Through Partnerships, Vincent Schachter

Metabolic Engineering IX

No abstract provided.

Conference Program, Engineering Conferences International

Metabolic Engineering IX

No abstract provided.

Genomics Based Engineering For The Identification And Optimization Of Bioactive Microbial Natural Products, Rolf Müller

Metabolic Engineering IX

No abstract provided.

Wireless Temperature Monitoring System For The Cal Poly Pilot Winery, Caitlin Devaney

Materials Engineering

This project, with an interdisciplinary group of two computer engineers and one materials engineer, was seeking to implement an automated temperature monitoring system which is affordable and easy to use, as well as adaptable to any arrangement and scale of a winemaker’s fermentation setup. My goal, as the materials engineer, was to design, fabricate, and test the enclosure, for the wireless nodes that are placed in the wine fermentation tanks, and the materials used for the node enclosure. For the enclosure of the system, materials selection was completed using CES software using limitations of only polymer materials which absorb less …

Enhanced Hydrocarbon Biodegradation Using Bioaugmentation With Biowish™-Aqua Fog, Michael Robert Lehrer

Master's Theses

This study was done to determine the effectiveness of a commercially available bioaugmentation product, BiOWiSH^TM-Aqua FOG, for remediating petroleum-contaminated sandy soil. Biodegradation enhancement by BiOWiSH^TM-Aqua FOG was evaluated in laboratory microcosms by directly measuring total petroleum hydrocarbon (TPH) and indirectly using respirometry. Attempts were made to enrich hydrocarbon-degrading bacteria in BiOWiSH^TM-Aqua FOG, and the resulting enrichment cultures were screened using respirometry as well. Potential hydrocarbon-degrading bacteria in BiOWiSH^TM-Aqua FOG were isolated. Experiments were performed at bench-scale using microcosm bottles containing sand contaminated with either motor oil or No. 2 diesel fuel. The …

Software Engineering Education Needs More Engineering, A. Frank Ackerman, Ph.D., Sushil Acharua, D.Eng.

Computer Science & Software Engineering

To what extent is “software engineering” really “engineering” as this term is commonly understood? A hallmark of the products of the traditional engineering disciplines is trustworthiness based on dependability. But in his keynote presentation at ICSE 2006 Barry Boehm pointed out that individuals’, systems’, and peoples’ dependency on software is becoming increasingly critical, yet that dependability is generally not the top priority for software intensive system producers. Continuing in an uncharacteristic pessimistic vein, Professor Boehm said that this situation will likely continue until a major software-induced system catastrophe similar in impact to the 9/11 World Trade Center catastrophe stimulates action …

Effect Of Oxidation On Weld Strengthof Dissimilar Resistance Weld Interface Between 304 Stainless Steeland Near Equiatomic Austenitic Nitinol Guide Wire, Matthew Rudow

Master's Theses

Abbott Vascular encountered strength and variability issues when attempting to resistively weld 304 Stainless Steel to equiatomic Nitinol. Initial observations suggested that passivation layer (Cr₂O₃, TiO₂) formation affected the weld interface. One hundred 304 Stainless Steel/Nitinol pairs were allowed to oxidize in air at room temperature for allowed periods of time (.1, 1, 3, 5, 7, 12, 16, 24, 168, and 336 hours). Each pair was welded resistively with constant current. A Miyachi/Unitek Advanced Data Analysis Monitor (ADAM) recorded the peak resistance at the instance the weld was made. Resistances were compared to Instron …

Determining An Inorganic Mineralization Process To Inhibit Organic Degradation And Preserve The Dimensional Stability Of Bamboo, Eric Hahn

Materials Engineering

Bamboo is a renewable natural composite with potential as both a construction and synthesis material. The components of bamboo are cellulosic vascular bundles imbedded within a lignin matrix that create a porous hierarchical structure. This structure has low density while maintaining high strength, toughness, and elasticity, but is susceptible to organic decay. A study was performed to evaluate the effect of varying bamboo culm age (1-3 years) and density (0.72-1.05 g/cm³) on the ability to control inorganic mineral precipitation to prevent degradation and preserve dimensional stability of the organic matrix. Internodal culm samples were immersed in solutions of …

Evaluation Of Corrosion Properties For Use Of Az31b In Bioabsorbable Stents And In Vivo Corrosion Rate Prediction Using Fea, Jared Vidales, Austin Schader, Jenna Jerman, Michael Turovskiy

Materials Engineering

AZ31B was heat treated to evoke more controlled and uniform corrosion. 1/16” diameter AZ31B wire was cut into six samples each 1” long. The samples underwent heat treatments following ASTM B661-06. Samples were weighed and placed into three different in vitro environments. In the first scenario two samples of each heat treatment were individually placed in 50 ml of saline solution at 0.9% sodium, in a static test tube at 37°C temperature. Two samples were placed in 100 ml of 0.9% saline solution in a 250 ml stirring beaker with an average whirlpool depth of 1”. Two of each sample …

The Characterization And Comparison Of Biochar Produced From A Decentralized Reactor Using Forced Air And Natural Draft Pyrolysis, Leah Herbert, Ian Hosek, Rishi Kripalani

Materials Engineering

The soil additive properties of biochar have proven both effective and globally beneficial, but depend heavily on feedstock used and process conditions. This study characterizes how forced and natural draft air flows affect the biochar’s soil amendment potential. Biochars manufactured from two pine species of feedstock, in timber and pellet form, were compared against a designer biochar. The designer biochar held the lowest C:N ratio (57.43), followed by the natural draft pellets (199.5), forced air timber (282.5), forced air pellets (422.7), and natural draft timber (503.7). The designer char had the largest cation exchange capacity at 138.5 cmolc/kg; the decentralized …

Artificial Alveolar-Capillary Membrane On A Microchip, Keith Male

Materials Engineering

A microfluidic device was synthesized out of polydimethyl siloxane (PDMS) to simulate the structure of the alveolar-capillary interface of the human lung. Soft lithography techniques were used to build a mold structure out of SU-8 epoxy at heights ranging from 30µm to 110 µm on a silicon substrate, with the 70 µm structure working the best. A mixture of 10:1 Sylgard 184 elastomer was then cast using the mold, and cured at a temperature of 80^oC. For the porous membrane, the PDMS was spun on at 6000rpm for 30 seconds using a spin coater to produce a membrane …

The Mitigation Of Eutrophication Using Microporous Polymer Membranes To Control Algae Growth, Christopher R. Riley

Materials Engineering

A system was designed to mitigate the accelerated process of anthropogenic eutrophication. This system aimed to contain Chlorella Vulgaris microalgae cells within an enclosed polymer membrane pouch while allowing for water and nutrients to diffuse through the pouch. As a test model, a 10 gallon aquarium was partitioned into three sections using polycarbonate membranes with 1 micron pore diameters. Each section was then gradually filled with a deionized water and Bristol solution recommended for microalgae growth. Phosphate and nitrate were added to Section A of the aquarium and allowed to diffuse throughout the tank. A water pump was used to …

A Knowledge-Based Clinical Toxicology Consultant For Diagnosing Single Exposures, Joel D. Schipper, Douglas D. Dankel Ii, A. Antonio Arroyo, Jay L. Schauben

Publications

Objective: Every year, toxic exposures kill twelve hundred Americans. To aid in the timely diagnosis and treatment of such exposures, this research investigates the feasibility of a knowledge-based system capable of generating differential diagnoses for human exposures involving unknown toxins.

Methods: Data mining techniques automatically extract prior probabilities and likelihood ratios from a database managed by the Florida Poison Information Center. Using observed clinical effects, the trained system produces a ranked list of plausible toxic exposures. The resulting system was evaluated using 30,152 single exposure cases. In addition, the effects of two filters for refining diagnosis based on …

Design And Testing Of A Low Cost Prosthetic Foot, Shalan Ertis, John Kearns, Seija Maniskas

Mechanical Engineering

No abstract provided.

Irrigation System Evaluation And Pump Efficiency, Gregory Borges

BioResource and Agricultural Engineering

This project encompasses the Evaluation of a drip irrigation system for a Pistachio orchard in Tulare, Ca. The project parameters were decided on by Borges Farms. After the evaluation suggestions are to be made for improving the system’s efficiency. These suggestions must be approved by the grower and show whether they are cost efficient. The irrigation system cannot be modified to fit the pump chosen.

Research for the project encompasses drip irrigation systems, irrigation pump efficiency, irrigation management, well reclamation techniques and pistachio water requirements. A Distribution Uniformity evaluation was performed to understand how sand has affected the system. I …

Viscoelastic Anisotropic Finite Element Mixture Model Of Articular Cartilage Using Viscoelastic Collagen Fibers And Validation With Stress Relaxation Data, Matthew Alexander Griebel

Master's Theses

Experimental results show that collagen fibers exhibit stress relaxation under tension and a highly anisotropic distribution. To further develop the earlier model of Stender [1], the collagen constituent was updated to reflect its intrinsic viscoelasticity and anisotropic distribution, and integrated with an existing mixture model with glycosaminoglycans and ground substance matrix. A two-term Prony series expansion of the quasi-linear viscoelastic model was chosen to model the viscoelastic properties of the collagen fibers. Material parameters were determined by using the simplex method to minimize the sum of squared errors between model results and experimental stress relaxation data of tissue in tension. …

Comparing Anti-Vegf Antibodies And Aptamers On Paper Microfluidic-Based Platforms, Katherine Noel Clayton

Master's Theses

The field of microfluidics is expanding into what is known as paper microfluidics. This uses a paper platform rather than materials (i.e. PDMS, PMMA) that are commonly used in microfluidics research. Current devices require an expensive manufacturing process and external sources to power the device. Such devices are not practical in low resource environments. As a consequence, it is the goal of this Thesis to develop a three-dimensional, multiplexed assay chip using nitrocellulose membranes. This device comprises of multiple layers of nitrocellulose membranes with defined fluidic channels. The multiple layers are bound together using double backed tape, and imbedded between …

Characterization Of Raw Milk Fouling On Plate-Type Heat Exchangers Using Different Alloys And Cow Phenotypes, Stephen Ernest Nelson

Master's Theses

ABSTRACT

Characterization Of Raw Milk Fouling On Plate-Type Heat Exchangers Using Different Alloys And Cow PhenotypeS

Stephen Ernest Nelson

Milk and other dairy products are widely used in many households today. Milk is a popular beverage that is seen as a healthy alternative to other synthetic beverages such as soda pop and other sugar based drinks. It became law that milk, and milk products are pasteurized before its release to the general public (FDA 2003). Pasteurization is a thermal process where the intent is to lower the concentration of microorganisms in the milk to render it safe to drink with …

The Effects Of Concentration, Stir Rate, And Processing Temperature On The Iridescence Of Polymethyl Methacrylate Nanoparticles, David Baruela

Materials Engineering

Synthetic opals were synthesized by creating polymethyl methacrylate (PMMA) nanospheres in order to determine which conditions would create the best iridescent samples. The factors affecting the iridescence were nanosphere concentration, stir rate, and processing temperature. PMMA solutions were made by adding 17 mg of granular azobis to a solution of 16 mL of distilled water with 3 mL of methyl methacrylate (MMA). The solution was stirred at different rates, slow and fast, and different temperatures, 70 °C and 90 °C, under a constant flow of nitrogen gas for 40 minutes until the polymerization reaction was complete. Glass substrates were prepared …

Development Of A Protocol To Measure Gene Expression In The Mouse Tibia, Daniel Hoover

Biomedical Engineering

Numerous molecular factors active in bone tissue direct fracture repair and remodeling which can be altered by disease conditions such as Peripheral Arterial Disease (PAD) and Osteoporosis. Methods of molecular biology are commonly applied to investigate the expression and role of these molecular factors. This project presents a robust three-step protocol for examining gene expression in the mouse tibia. The protocol begins with isolating RNA from a flash frozen tibia sample. The isolated RNA is reverse transcribed into cDNA. Finally, PCR is performed to indentify expressed genes. Establishing this protocol will allow further research into the mechanisms of bone remodeling …

Legacy Effects In Material Flux: Structural Catchment Changes Predate Long-Term Studies, Daniel J. Bain, Mark B. Green, John L. Campbell, John F. Chamblee, Sayo Chaoka, Jennifer M. Fraterrigo, Sujay S. Kaushal, Sherry L. Martin, Thomas E. Jordan, Anthony J. Parolari, William V. Sobczak, Donald E. Weller, Wilfred M. Wollheim, Emery R. Boose, Jonathan M. Duncan, Gretchen M. Gettel, Brian R. Hall, Praveen Kumar, Jonathan R. Thompson, James M. Vose, Emily M. Elliott, David S. Leigh

Civil and Environmental Engineering Faculty Research and Publications

Legacy effects of past land use and disturbance are increasingly recognized, yet consistent definitions of and criteria for defining them do not exist. To address this gap in biological- and ecosystem-assessment frameworks, we propose a general metric for evaluating potential legacy effects, which are computed by normalizing altered system function persistence with duration of disturbance. We also propose two distinct legacy-effect categories: signal effects from lags in transport and structural effects from physical landscape changes. Using flux records for water, sediment, nitrogen, and carbon from long-term study sites in the eastern United States from 1500 to 2000, we identify gaps …

Design, Modeling And Fabrication Of Shear Mode Bulk Acoustic Wave Sensor As A Potential Biosensor, Chi-Jung Cheng

Dissertations

There has been an increasing interest in development of thin film bulk acoustic wave resonator (FBAR) devices for chemical and biological sensing applications in the environmental and biomedical industries. The zinc oxide (ZnO) thin film based FBAR devices provides attractive advantages, such as high resonant frequency, small size, and rapid response. Typically, the ZnO-based FBAR devices are operated in the longitudinal wave mode where the ZnO crystallites are perpendicular to the substrate. In gaseous environments, the longitudinal mode FBAR device provides high sensitivity for mass sensing. However, the longitudinal wave mode is adversely affected when used in liquid environments because …

A Kinetic Study Of Anti-Vegf-A Polyclonal Antibodies And Anti-Vegf-A Ssdna Aptamers, Heather A. Hedeen

Master's Theses

A new detection reagent that could possibly augment or replace antibodies research and diagnosis methods are aptamers. Aptamers are ssDNA, RNA or polypeptide constructs that function like active antibodies. Antibodies and aptamers both specifically bind to selected target molecules, and as such they enable the detection or targeting of the presence or absence of a specific antigen.

In order to ensure that ssDNA aptamers perform similarly to antibodies, anti-VEGF-A polyclonal antibody and anti-VEGF-A ssDNA aptamer were evaluated against vascular endothelial growth factor A (VEGF-A) using Surface Plasmon Resonance (SPR). It was hypothesized that the anti-VEGF-A aptamer had the same, if …

Novel Platform Development Using An Assembly Of Carbon Nanotube, Nanogold And Immobilized Rna Capture Element Towards Rapid, Selective Sensing Of Bacteria, Elizabeth I. Maurer, Kristen K. Comfort, Saber M. Hussain, John J. Schlager, Sharmila M. Mukhopadhyay

Chemical and Materials Engineering Faculty Publications

This study examines the creation of a nano-featured biosensor platform designed for the rapid and selective detection of the bacterium Escherichia coli. The foundation of this sensor is carbon nanotubes decorated with gold nanoparticles that are modified with a specific, surface adherent ribonucleic acid (RNA) sequence element. The multi-step sensor assembly was accomplished by growing carbon nanotubes on a graphite substrate, the direct synthesis of gold nanoparticles on the nanotube surface, and the attachment of thiolated RNA to the bound nanoparticles.

The application of the compounded nanomaterials for sensor development has the distinct advantage of retaining the electrical behavior …

Esem Analysis Of Mice Femurs With Varying Sost Levels, Patrick K. Mcclay

Biomedical Engineering

This project’s goal was to analyze the properties of the cortical femur on 100 mice bones from Lawrence Livermore National Laboratory. Analysis was limited to imaging which determined the ratio of bone volume to total volume (BV/TV) and osteocyte lacunae density. Mice were altered to knock out their SOST gene: a negative regulator of bone formation. Twelve groups were created to differentiate their treatment, duration, and phenotype. Transgenic (TG) mice had an overexpression of the SOST gene: they carried a bacterial artificial chromosome. Mice with limb defects (DEF) were the offspring of two TG mice and carried twice the amount …

Solid Set Sprinkler Design For An Apricot Orchard, Kyle Moeller

BioResource and Agricultural Engineering

The goal of this project was to design a solid set sprinkler system as well as a cost analysis for a 60 acre field. This allows for water to be distributed throughout an entire field at low flow rates allowing water to be used more efficiently and effectively. Completing a design such as this will allow some cost saving by the farmer throughout the systems use.

Nanoenergetic Composite Based On I2o5/Al For Biological Agent Defeat, Mkhitar Hobosyan, Alexander V. Kazanksy, Karen S. Martirosyan

Physics & Astronomy Faculty Publications

The risk of bioterrorism events involving the intentional airborne release of contagious agents has led to development of new approaches for bio agent defeat technologies both indoors and outdoors. This report describes nanoenergetic gas generators (NGG) system that exhibit long term stability and superior release of biocidal substances for destruction of pathogenic bacteria. The effect of iodine vaporization on destroying of Escherichia coli (E-coli, HB101 K-12 strain) by using expressing Green Fluorescent Protein (GFP) was investigated. HB101 K-12 has been genetically modified to prevent its growth unless grown on an enriched medium. To obtain quantitative data we used pGLO transformation …