Biochemical and Biomolecular Engineering Commons^™

Real-Time Monitoring Of Cell Death Progress Using Capacitance Spectroscopy, Suyang Wu

Electronic Theses and Dissertations

Biologics, including the monoclonal antibody (mAb), has experienced rapid development in the last decade. However, the price of biologics is often prohibitively high because of the low process efficiency. Delaying the inevitable cell death improves the productivity of upstream bioprocessing, whose success relies on monitoring the cell death onset that indicates the timing for preventive actions.

This study proposes to develop a real-time monitoring model that quantifies the dying cell percentage in lab-scale bioreactors using capacitance spectroscopy. The capacitance spectroscopy contains cell death-related information due to various physical properties changes during the cell death process, e.g., cytoplasmic conductivity change. The …

Overcoming Technological Challenges For The Commercialization Of The Circulating Fluidized Bed Bioreactor For Municipal Wastewater Treatment, Michael J. Nelson

Electronic Thesis and Dissertation Repository

The fluidized bed bioreactor as an attached growth wastewater treatment process has demonstrated advantages over suspended growth processes for municipal wastewater treatment applications. However, previous studies have also demonstrated potentially serious disadvantages in terms of energy consumption and maximum reactor size of high flow applications.

In this work, a cost analysis using the CapdetWorks, supplemented by calibrated model data taken from GPS-X was performed to determine the cost effectiveness of the circulating fluidized bed bioreactor (CFBBR). This study demonstrated that the CFBBR is most cost competitive at low flow below 5 MGD. A 10%-20% reduction in net present values on …

Towards Understanding Protein Immobilization Rules Through Site-Specific Covalent Immobilization Of T4 Lysozyme, Maxwell Hilbert

All Dissertations

Soluble enzymes have the unique ability to assist the conversion of complex substrates in fewer steps compared to conventional chemical synthesis; however, when immobilized to a surface, the insoluble enzyme's activity and stability can suffer in its new environment. To improve upon future immobilized enzyme efficacy, a fundamental understanding of the interactions across the enzyme, linker, and surface during covalent, site-specific immobilization that can be detrimental to its activity is required. More specifically, using a well-characterized and model enzyme, T4 lysozyme (T4L), 28 different cysteine attachment points' effects on site-specifically immobilized activity are examined. Different combinations of heterobifunctional amine-to-sulfhydryl crosslinkers …

Greenhouse Tomatoes: Process Simulation, Juan Gabriel Marin Jr.

Graduate Theses and Dissertations

Growing population demand and challenges brought on by climate change have spurred the need for more resilient fruit and vegetable supply chains. One agricultural technology of significant interest is the use of greenhouses for food production. Greenhouses create a stable and adaptable environment for crops such as tomatoes to grow year-round. Fresh tomatoes are the second most consumed vegetable per capita in U.S. diets, currently averaging 20.7 pounds. The growing consumption of fresh tomatoes has been the result of increasing cultural diversity in the United States.

To meet the growing demand, Venlo-type greenhouses have been frequently used by growers. It …

Recombinant Production And Purification Of Green Fluorescent Protein (Gfp)-Fused Metal Binding Protein For Palladium Nanoparticle Synthesis, Shadrach Ibinola

Graduate Theses and Dissertations

In lieu of chemical and physical methods, biologically guided synthesis is increasingly used as a cost-effective medium for the fabrication of nanoparticles (NP). Recently, a palladium metal binding sequence Pd4 (TSNAVHPTLRHL) has been demonstrated to be instrumental in the production of palladium (Pd) nanoparticles. Although, by eliminating the additional cost of purification of the protein, the crude lysate of E. coli containing Pd specific protein has been proven to be a viable cost-effective means for the synthesis of Pd NP, studies have not be done to ascertain the comparative catalytic activity of nanoparticles synthesized from both clarified lysate and pure …

Metabolic Modeling Of Cystic Fibrosis Airway Microbiota From Patient Samples, Arsh Vyas

Masters Theses

Cystic Fibrosis (CF) is a genetic disorder, found with higher prevalence in the Caucasian population, affecting > 30,000 individuals in the United States and > 70,000 worldwide. Due to the astoundingly high rate of mortality among CF patients being attributed to respiratory failure brought on by chronic bacterial infections and subsequent airway inflammation, there has been a lot of focus on systematically analyzing CF lung airway communities. While it is observed traditionally that Pseudomonas aeruginosa is the most threatening and persistent CF colonizer due to high antibiotic resistance, recent studies have elicited the roles of other pathogens and it has been widely …

Spatiotemporal Metabolic Modeling Of Pseudomonas Aeruginosa Biofilm Expansion, Robert Sourk

Masters Theses

Spatiotemporal metabolic modeling of microbial metabolism is a step closer to achieving higher dimensionalities in numerical studies (in silico) of biofilm maturation. Dynamic Flux Balance Analysis (DFBA) is an advanced modeling technique because this method incorporates Genome Scale Metabolic Modeling (GSMM) to compute the biomass growth rate and metabolite fluxes. Biofilm thickness is pertinent because this variable of biofilm maturation can be measured in a laboratory (in vitro). Pseudomonas aeruginosa (P. aeruginosa) is the model bacterium used in this computational model based on previous research conducted by Dr. Michael Henson, available GSMMs, and the societal significance of patients suffering from …

Metabolic Modeling Of Bacterial Co-Cultures For Co-To-Butyrate Conversion In Bubble Column Bioreactors, Naresh Kandlapalli

Masters Theses

One of the most promising routes to renewable liquid fuels and chemicals is the fermentation of waste carbon by specialized microbes. Commercial development of gas fermentation technology is underway but many fundamental research problems must be addressed to further advance the technology towards economic competitiveness. This thesis addresses the important problem of developing integrated metabolic and transport models that predict gas fermentation performance in industrially relevant bubble column reactors. The computational models describe the conversion of CO-rich waste streams including synthesis gas to the platform chemical butyrate. The proposed modeling approach involves combining genome-scale reconstructions of bacterial species metabolism with …

Co2 Derived Carbon Capture Using Microalgae In A Photobiocrec Unit, Maureen D. Cordoba Perez

Electronic Thesis and Dissertation Repository

Microalgae has the potential to contribute to carbon dioxide capture, resulting in the production of alternative fuels and valuable chemical products. To accomplish this, high-efficiency photobioreactors must be conceptualized, designed, and established, in order to achieve high inorganic carbon conversion, superior light utilization, and unique fluid dynamics.

In this PhD Dissertation, experiments with Chlorella vulgaris were carried out, in a 0.175L especially designed PhotoBioCREC unit, under controlled radiation and high mixing conditions. This unique design involves 1 mm-2 mm alumina particles, which keep photoreactor walls always clean, without compromising photon transmittance. Sodium bicarbonate (NaHCO₃) was supplied as the …

Methane Emission Treatment And Potential Upcycling Using Methylomicrobium Alcaliphilum, Jace Parkinson

All Graduate Plan B and other Reports, Spring 1920 to Spring 2023

Anthropogenic methane emissions are harmful to the environment and can be difficult to treat. Use of M. alcaliphilum for bioremediation of methane looks to be one of the most promising methods of reducing the negative environmental impacts of methane emissions while simultaneously providing an economic incentive. Successful bioreactor design for M. alcaliphilum based methane treatment requires biokinetic constants and microbial growth information. Methods were established for determining biokinetic constants, including growth rate, biomass yield, specific methane consumption rate, and a correlation between methane oxidation and carbon dioxide production for M. alcaliphilum. Values determined for these constants were used to …

Degumming Of Hemp Fibers Using Combined Microwave Energy And Deep Eutectic Solvent, Bulbul Ahmed

LSU Master's Theses

Hemp is considered as one of the sustainable agricultural fiber materials. Degumming or surface modification of hemp bast is needed to produce single fibers for ensuing textile and industrial applications. The traditional degumming process necessitates a high amount of alkali, which causes detrimental environmental pollution. This study offers a new method to degum hemp fibers with reduced use of harmful alkali and precious water resources. In this work, hemp bast fibers were degummed by using combined microwave energy and deep eutectic solvent (DES). The properties of hemp fibers manufactured by this method were investigated and compared with the traditional alkali …

A Portable Point-Of-Care Device Using Joule Heating And Latent Energy Storage For The Temperature Regulation Of Isothermal Nucleic Acid Amplification Tests, Aubrey Lynn Schultz

Graduate Theses and Dissertations

Accurate and early diagnosis of infectious diseases extremely important. Rapid diagnosis allows for effective treatment and increases the chance for recovery without complications. Additionally, the ability to test the populace frequently, swiftly, and affordably significantly aids in containing wide-scale outbreaks. In terms of specificity and sensitivity, nucleic acid amplification tests (NAAT) are one of the best options for diagnosing infectious diseases. Isothermal NAATS present a unique opportunity to create diagnostic tests deployed at a Point-of-Care (POC) level. Specifically, loop-mediated isothermal amplification (LAMP) and recombinase polymerase amplification (RPA) have the potential to deliver reliable POC diagnostics in low-resource settings. When designing …

Investigation Of Membrane Based Processes For Biomedical Applications, Efecan Pakkaner

Graduate Theses and Dissertations

As substantial developments were achieved in nanotechnology and polymer engineering, especially in the last few decades, the use of membranes and membrane-based procedures was found to be expanding into more and more research and development areas; including biological engineering, life sciences and biomedical engineering. Not only have they been the main focus of meaningful research, but they have also been the main pieces of the solutions to very thorny problems encountered within a wide range of applications from microfluidics to water treatment, thanks to their versatility, cost-effectiveness and biocompatibility, when compared to conventional separation techniques. To celebrate and embrace these …

Novel Approaches Towards Improved Purity In High Yield Transcription Reactions, Elvan Cavac

Doctoral Dissertations

High yields of RNA (e.g., mRNA, gRNA, lncRNA) are routinely prepared following a two-step approach: high yield in vitro transcription using T7 RNA polymerase, followed by extensive purification using gel or chromatic methods. In high yield transcription reactions, as RNA accumulates in solution, T7 RNA polymerase rebinds and extends the encoded RNA (using the RNA as a template), resulting in a product pool contaminated with longer than desired, (partially) double stranded impurities. Current purification methods often fail to fully eliminate these impurities which, if present in therapeutics, can stimulate the innate immune response with potentially fatal consequences. This study establishes …

Elucidating Mechanisms And Genotypes Underlying Robust Phenotypes In Yarrowia Lipolytica, Caleb M. Walker

Doctoral Dissertations

Robustness is an important phenotype for bioenergy microbes to acquire but is difficult to engineer. Hence, tools for engineering microbial robustness are critical to unlock novel phenotypes for innovative bioprocessing strategies. The oleaginous yeast, Yarrowia lipolytica, is an exceptionally robust microbe that can tolerate stressful environments, assimilate a wide range of substrates, and produce high-value chemicals. In this doctoral dissertation, the impacts of systems biology and metabolic engineering to reveal mechanisms and identify genotypes- underlying robust phenotypes are addressed.

The first approach employs adaptive laboratory engineering to generate a platform strain by which to study superior robust mechanisms. This …

Engineering Modularity Of Ester Biosynthesis Across Biological Scales, Hyeongmin Seo

Doctoral Dissertations

Metabolic engineering and synthetic biology enable controlled manipulation of whole-cell biocatalysts to produce valuable chemicals from renewable feedstocks in a rapid and efficient manner, helping reduce our reliance on the conventional petroleum-based chemical synthesis. However, strain engineering process is costly and time-consuming that developing economically competitive bioprocess at industrial scale is still challenging. To accelerate the strain engineering process, modular cell engineering has been proposed as an innovative approach that harnesses modularity of metabolism for designing microbial cell factories. It is important to understand biological modularity and to develop design principles for effective implementation of modular cell engineering. In this …

Investigative Study Of Microalgal And Electrochemical Wastewater Treatment Systems And Modeling Of The Wafer-Enhanced Electrodeionization Using Supervised Learning, Humeyra Betul Ulusoy Erol

Graduate Theses and Dissertations

Wastewater has a serious impact on environment and public health due to its high concentration of nutrients and toxic contaminants. Without proper treatment, excess nutrients discharged in wastewater can cause a damage to the ecosystem such as undesirable pH shifts, cyanotoxin production, and low dissolved oxygen concentrations.

Main objectives of this dissertation work were to investigate i) the biofuel potential of P. cruentum when grown in swine wastewater, ii) the influence of four most commonly used ion exchange resins on the system efficiency and selectivity for the removal of sodium, calcium, and magnesium ions, and iii) the modeling of wafer-enhanced …

Mapping Three Dimensional Interactions Between Biomolecules And Electric Fields., Joseph Patrick Brian P.E.

Electronic Theses and Dissertations

Electroporation is a technique that induces the formation of open pores in cell membranes by the application of an electric field. Electroporation is widely practiced in research and clinical work for transfection of genetic sequences and drug molecule transport through the membrane barrier. However, a full theoretical explanation of the molecular mechanisms and thermodynamics responsible for pore formation, structure, and longevity does not yet exist. Advances in molecular dynamics simulations have enabled theoretical studies of electroporation with previously unobtainable fidelity spanning biologically relevant timescales. All-atom simulations utilizing the recently developed method of computational electrophysiology demonstrate that pore size correlates to …

Design Of An Undergraduate Laboratory Experiment Utilizing A Stirred-Tank, Jacketed Bioreactor, Brennen Middleton

Honors Theses

Bioreactors are utilized in many industries, such as the food, alternative fuel, and pharmaceutical industries, to design and manufacture products. Unlike the similar chemical batch reactors utilized in many chemical processing facilities, bioreactor utilization requires engineers to consider a wider range of operating conditions and parameters. This results in a more complex reaction system and controls network. Due to this, it is imperative for chemical and biomedical engineering students to not only understand the theory surrounding these reactor systems, but also understand how to properly design and perform operating procedures with these systems. Thus, it was determined to create an …

Engineered Switch Protein Inspired By Novel Protein Affinity Transition Mode, Liang Fang

Doctoral Dissertations

Many natural proteins involved in complex biological processes such as ligand binding and protein folding demonstrate multiple, allosterically-regulated conformational states, with protein activity regulated by effector molecules. The alpha L integrin and its inserted domain (I domain) is one example of such a protein. The binding of the effector molecule such as talin or filamin to the cytoplasmic domain of the integrin increases the binding affinity between I- domain and its ligand intercellular adhesion molecule-1, known as ICAM-1.There are multiple models attempting to describe the mechanism responsible for the change in binding affinity. According to research conducted by our lab, …

Development Of An Integrated Salt Cartridge-Reverse Electrodialysis (Red) Device To Increase Electrolyte Concentrations Of Human Blood Flow To Power Biomedical Devices, Caroline Campbell

Chemical Engineering Undergraduate Honors Theses

Emerging technologies in nanotechnology and biomedical sciences have led to an increase in biomedical implantable devices including cardiac pacemakers, artificial organs, drug pumps, and sensors. These devices require continuous stable and reliable power to operate, which creates the demand for the need to find a safe, reliable, and stable power source. A promising avenue for a power source for these devices is a miniaturized reverse electrodialysis (RED) biopower cell design that utilizes the salinity differences between bloodstreams that flow inside the human body. Initial results of the RED system demonstrate that higher gradient salinity differences between streams lead to a …

Growth Viability Assay Assessment For Disinfectant Screening, Paavana Jayaram

Electronic Thesis and Dissertation Repository

Disinfectant screening is an important step for manufacturing and approval of disinfectants. Screening helps identify the effectiveness, target microbe, minimum inhibitory concentration, and contact time. A standard screening test must be able to assess these parameters effectively over a broad range of formulations and microbes. Currently, there is no unified method to analyze disinfectants, a standard test is selected based on the application. This project aimed to identify a standard method that can be used over a broad range of microbes irrespective of disinfectant composition. Microbicidal activity of Hydrogen peroxide and Quaternary ammonium-based disinfectants was evaluated by Fluorescein diacetate (FDA), …

Metabolic Modeling Of Gas Fermentation For Renewable Fuel And Chemical Production, Xiangan Li

Doctoral Dissertations

Gas fermentation has emerged as a technologically and economically attractive option for producing renewable fuels and chemicals from carbon monoxide (CO) rich waste streams. As compared to traditional catalyst technologies, microbial systems have several advantages including operation near ambient temperature and pressure, high conversion efficiencies, robustness to gas impurities and high product yields that have motivated both fundamental research and commercial development. While microbial production of high-value products from waste gases is challenging because wild-type strains capable of gas consumption tend to synthesize these products at low yields, strategy like metabolically engineering the gas fermenting acetogens have been studied to …

Photoluminescent Nanomaterials For Biosensing And Single Cell Analysis Applications, Khashayar Ramezani Bajgiran

LSU Doctoral Dissertations

The bioanalytical industry is projected to generate $36 billion by 2025, with the United States currently holding 80.9% of the consumers’ market. Among the bioanalytical platforms, point-of-care (POC) and point-of-use diagnosis (POU) have gained a lot of attention due to their emphasis on decentralized testing and providing low-cost solutions in resource-limited regions. While Traditional bioanalytical tools such as enzyme-linked immunosorbent assay and flow cytometry can sensitively detect biomolecules and screen single-cell response, they suffer from multiple drawbacks such as the high cost of antibodies and time-intensive procedures, which limit their ability to expand to POC/POU applications. Rapid developments in microtool …

Development Of A Recombinant Brewing Yeast To Produce Beer From Hemp Extract (Cannabis Sativa L.), Mehmet Ugur Gulmen

Electronic Thesis and Dissertation Repository

The Cannabis industry is a rapidly-growing market in Canada. With the legalization of edible products in 2019, many cannabis-derived candies, baked goods, beverages appeared on shelves. Cannabis beer can be brewed by replacing barley with pretreated cannabis plant. However, using a traditional brewing yeast to brew cannabis beer will result in incomplete fermentation which will affect the beer’s composition and flavour because traditional brewing yeasts are not able to utilize xylose which is an abundant carbohydrate in lignocellulosic extracts. Using a recombinant strain of a brewing yeast and a xylose-fermenting yeast can overcome this issue. The work presented in this …

A Microscale Approach To Investigate Breast Cancer Cellular Communication And Migration, Sharif Mohammad Mizanur Rahman

LSU Doctoral Dissertations

Metastatic breast cancer significantly decreases patient survival, with the majority of deaths caused by secondary metastasis. Cancer metastasis is a multi-step process that starts with the detachment of a cancer cell from the primary tumor and ends with establishing a secondary tumor at a distal location. This work's focus was to use an interdisciplinary microscale approach to study how cancer cells respond to neighboring cells and how they migrate in response to chemical gradients. Two distinct devices, a microfluidic device, and a 3D-printed plate insert, were developed to perform co-culture studies to elucidate the impact of ASCs on cancer cell …

Development Of Phagotrophic Algae-Based Process For Conversion Of Waste Organics To Algae Lipids As Potential Feedstock For Biofuel, Hannah Nelson

Williams Honors College, Honors Research Projects

Interest in sustainable feedstock for biofuel has encouraged research on the production of phagotrophic algae from bacteria using a two-staged continuous-flow system. Bacteria cultures were fed the content of a waste stream from The J.M. Smuckers Company containing high concentrations of sugar. In the design, the bacteria effluent overflowed into the algae tank which was kept at a set volume. Several methods were developed to assist in maintaining the system at steady state and minimize the impact from contaminants. A rigorous cleaning protocol was implemented for both tanks, effectively eliminating protozoa from the bacteria system. The protozoa were decreased in …

Effects Of Microporous Structure On The Enzymatic Conversion Of Biomass Using A Multiscale Model, Saketh Merugu

Dissertations, Master's Theses and Master's Reports

The generation of biofuels from lignocellulosic biomass involves innovative process technology that is being investigated worldwide. Enzymatic hydrolysis is a major step in the contemporary process of the generation of biofuels. Guided by pore size distribution measured using NMR cryoporometry, we developed pore-enzyme diffusion and adsorption models at the particle level coupled with a kinetic model for cellulose, cellobiose, and glucose production at flask level. By simulating these models in MATLAB, COMSOL, and Polymath software packages, we investigate the effects of various biomass particle-related parameters (particle dimensions, porosity, enzyme accessibility) on the characteristic time of enzyme diffusion and adsorption and …

Optimization Of Gelatin-Based Cellular Coating Of Msc For Myocardial Infarction Therapy, Kara Amelle Davis

Theses and Dissertations--Chemical and Materials Engineering

Cardiovascular disease remains the number one threat to American lives. During an acute myocardial infarction (AMI), blood flow is blocked and results in the formation of scar tissue. As the body’s immune system responds, inflammatory signaling causes an increase in both scar tissue size and the patient’s risk for further chronic heart failure. In order to reduce the risk of continued heart disease inflammatory signaling must be reduced. Stem cell therapies have the ability to alter the immune system’s pro-inflammatory signal. However, stem cell retention is limited due to blood flow shear. Gelatin methacrylate (GelMA) based coatings have been shown …

Development Of Light Actuated Chemical Delivery Platform On A 2-D Array Of Micropore Structure, Hojjat Rostami Azmand, Hojjat Rostami Azmand

Dissertations and Theses

Localized chemical delivery plays an essential role in the fundamental information transfers within biological systems. Thus, the ability to mimic the natural chemical signal modulation would provide significant contributions to understand the functional signaling pathway of biological cells and develop new prosthetic devices for neurological disorders. In this paper, we demonstrate a light-controlled hydrogel platform that can be used for localized chemical delivery in a high spatial resolution. By utilizing the photothermal behavior of graphene-hydrogel composites confined within micron-sized fluidic channels, patterned light illumination creates the parallel and independent actuation of chemical release in a group of fluidic ports. The …