Biological Engineering Commons^™

Visualizing Bacteriophage Evolution Through Sequence And Structural Phylogeny Of Lysin A And Terminase Proteins: An Analysis Of Protein Structure Across Phage Clusters, Maansi Asthana, Alyssa Easton, Julia Mollenhauer, Sean Renwick, Anita Golpalrathnam

The Journal of Purdue Undergraduate Research

Understanding how genes evolve and persist is a critical part of viral genomics. Bacteriophages can provide unique insight about viral evolution because of their abundance and largely unexplored history. Traditionally, phylogenetic trees have used DNA sequence comparison to visualize evolutionary paths between organisms. However, DNA sequence similarity does not reflect key alterations to protein structure and therefore how the protein performs its function. Phylogenetic trees based on predicted protein structure could provide an alternative lens through which to view evolutionary paths. From each of the 10 largest clusters included in the Actinobacteriophage Database, three mycobacteriophage genomes were selected. Lysin A …

A Single Cell Pair Mechanical Interrogation Platform To Study Cell–Cell Adhesion Mechanics, Amir Monemianesfahani

Department of Mechanical and Materials Engineering: Dissertations, Theses, and Student Research

Cell-cell adhesion complexes are macromolecular adhesive organelles that integrate cells into tissues. Perturbations of the cell-cell adhesion structure or relatedmechanotransduction pathways lead to pathological conditions such as skin and heart diseases, arthritis, and cancer. Mechanical stretching has been used to stimulate the mechanotransduction process originating from the cell-cell adhesion and cell-extracellular matrix (ECM) complexes. The current techniques, however, have limitations on their ability to measure the cell-cell adhesion force directly and quantitatively. These methods use a monolayer of cells, which makes it impossible to quantify the forces within a single cell-cell adhesion complex. Other methods using single cells or cell …

Methods Development, Design Analysis, And Testing Of Novel Centrifugal Devices For Mammalian Cell Culture Harvest, W. Aaron Dryden

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Thermo Fisher Scientific is developing a centrifugal device to be used in the biopharmaceutical industry. The novel technology was used to remove cells from cell cultures, which produce drugs and medical treatments. The harvest process of removing cells is the first step towards product purification and is an important unit operation for ensuring high product yield. Since the device is a novel technology, methods to test and evaluate the performance of the centrifuge needed to be developed.

Successful testing methods were developed in this work and were implemented on over 30 different centrifuge designs. Amongst these many designs, different operating …

Efficient Polyhydroxyalkanoate Production By Rhodopseudomonas Palustris From Lignocellulosic Biomass, Brandi Brown

Department of Agricultural and Biological Systems Engineering: Dissertations, Theses, and Student Research

Polyhydroxyalkanoates (PHAs) are biopolymers produced by bacteria with the potential to replace conventional plastics. However, the relatively high production costs of PHAs are keeping them from market acceptance, with approximately half of the production costs derived from the feedstock. Thus, engineering a microbe for PHA production from cheaper and renewable carbon sources is necessary to promote the valorization of PHAs. Lignocellulosic biomass is considered to be one of the most economic carbon sources in the world, and is thus an attractive candidate for cheaper production of bioplastics. Rhodopseudomonas palustris CGA009 is a metabolically robust bacterium capable of catabolizing lignin breakdown …

Evaluation Of Cell Concentration And Viability By Impedance Spectroscopy On Microfluidic Devices, Jason Eades

LSU Master's Theses

This document describes two distinct platforms that implement electrochemical impedance spectroscopy (EIS) within microfluidic devices for rapid, label-free cell analysis. Each study provides proof-of-concept evaluations of these devices for cell counting and viability analysis applications to mitigate some of the challenges associated with conventional methods. Chapter one includes background information on each version of EIS selected and motivations for the studies conducted. Chapter two describes the design and fabrication of a modular, reusable microfluidic device. Additionally, the methodology for and results from the application of this platform for the measurement of zebrafish sperm cell concentrations are presented. Chapter three describes …

Nanomaterial-Based Biosensors For Detection Of Salmonella Typhimurium And Avian Influenza Virus H5n1 In Poultry, Xinge Xi

Graduate Theses and Dissertations

This research focused on developing biosensing method and biosensing device for rapid detection of pathogens in poultry: Salmonella Typhimurium and avian influenza virus H5N1. The first part of the dissertation reports an original research on the development of a portable biosensing device for Salmonella detection. The device was designed and constructed based on a previously developed optical biosensing method, using immuno-magnetic nanoparticles to specifically capture target bacteria, and immuno-quantum dot beads to label the target bacteria for fluorescence detection. All the actions of sample mixing, magnetic separation, and fluorescence detection were controlled automatically in a disposable microfluidic chip in the …

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 …

Modeling The Effect Of Igg Subclasses And Specificity In The Translocation Of Monoclonal Antibodies Across The Placental Barrier, Sayuri Tais Miyamoto Magnabosco

ENGS 88 Honors Thesis (AB Students)

Infections are responsible for over half a million neonatal deaths every year (Lawn et al., 2014). Thus, there is huge interest in leveraging maternal immunization against infectious diseases to grant fetal protection during its development through the vertical transferring of IgG antibodies, the only Ig subclass that can significantly cross the placental barrier. Studies about vertical immunization rely on in-vitro models to extrapolate physiological conditions of the human placenta. The BeWo Transwell model (Bode et al., 2006) presents itself as a reliable model to mimic the transplacental transport mechanism of antibodies (Ellinger et al., 1999; Poulsen et al., 2009) …

The Impact Of Myoblast Transplantation On Collateral Capillary Arteriogenesis And Macrophage Phenotype, Christine Hue Do

Biomedical Engineering

Gangrene, pain, loss of limb function, amputation, and death are only few of the grievous consequences associated with peripheral arterial disease (PAD), a vascular disease caused by an obstruction that narrows the blood vessels. Since some patients have collateral vessels that can re-route blood to its downstream destination, much focus has been spotlighted upon discovering the mechanism of this process, termed arteriogenesis, as well as cell therapies to increase arterial diameter of collateral vessels. Since some patients do not have native pre-existing collateral vessels, another method to re-route blood is through arterialized collateral capillaries (ACC), which is the conversion of …

Reu Site: Stem For Plant Health, David W. Britt

Funded Research Records

No abstract provided.

Tuning Radiation And Microgravity Exposure For Human Brain Organoids, Bailey Mcfarland

Utah Space Grant Consortium

The environment of space, specifically radiation and microgravity, poses a substantial threat to astronauts' brain health. Understanding the damage mechanism and therefore paving the way to finding potential remedies is critical to protect astronauts during space flight. Current models are insufficient at representing the human brain, and insufficient research has been conducted on the effect of radiation and microgravity on the higher structures of the human brain. This ongoing research aims to use brain organoids, a tissue-engineered model that recapitulates the human brain's anatomy and structure and investigate the effects of radiation and microgravity on the brain. At the current …

Developing Aligned Nerve Scaffolds In A 3d Type-I Collagen Gel, Gabriel David

Biomedical Engineering Undergraduate Honors Theses

Despite significant progress in the field of peripheral nerve repair, clinical success is still limited, leaving millions to suffer from peripheral neuropathy with billions spent every year for treatment. Nerve repair methods that are capable of maximizing the regenerative properties of peripheral nerves are greatly desired in the field of medical science. This research aims to fill the gap between modern methods and the future of nerve repair by creating type-I collagen scaffolds with aligned degradation pores that will assist and nurture nerves growing through them. This is achieved by incorporating adipose stem cells into type-I collagen hydrogels and aligning …

Evaluating The Effects Of Wood Source On The Physicochemical Properties Of Crosslinked Cellulose Nanocrystals, Helena Tchoungang Nkeumen

Graduate Theses and Dissertations

Cellulose is an abundant and naturally occurring biopolymer that has been used by humans for food, shelter, and clothing for about two centuries now. Highly crystalline nanoparticles derived from cellulose, called cellulose nanocrystals (CNCs), show great potential to meet the rising need for sustainable and nontoxic materials for biomedical applications. However, multiple biomedical applications of CNCs, such as those involving their use in tissue engineering scaffolds, require CNC-based structures to be stable in aqueous environments, a property that native CNCs do not possess due to their inherent hydrophilicity. Chemical crosslinking of CNCs addresses this issue by providing aqueous stability 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 …

Design Of Control Logic And The Human-Machine Interface For A Demonstration Plant Growth Chamber Implemented On A Programmable Logic Controller, Rachael Koehler

Biological and Agricultural Engineering Undergraduate Honors Theses

This honors thesis covers the planning, development, and implementation of system controls and human-machine interface (HMI) for a demonstration plant growth chamber. The work is a continuation of an ongoing project to be used as an educational and recruiting tool manifesting the skills acquired from the Biological and Agricultural Engineering Department at the University of Arkansas’ College of Engineering. This work includes emergency controls, overall design interface, and controls for both the aeration and lighting subsystems of the growth chamber. Overall design interface controls established included development of two user modes, Administrator and Visitor. The Administrator user will have full …

Performance And Economics Of Solar Inverters And Module Level Power Electronics In A 1 Mw Photovoltaic System, Maxwell Criswell

Biological and Agricultural Engineering Undergraduate Honors Theses

Photovoltaic solar panels convert sunlight to electricity in the form of direct current; therefore, a necessary component of every photovoltaic system is an inverter to convert the electricity to usable alternating current. There are various commercially available inverter technologies manufactured today such as microinverters, string inverters, and central inverters, as well as module level power electronic devices such as DC optimizers that are capable of improving system performance in string and central inverter systems. This thesis compares the performance and economics of five different inverter and module level power electronic systems through model simulation using Helioscope software. The five alternatives …

Biomethanation And Alkaline Wet Air Oxidation Of Water Hyacinth (Pontederia Crassipes) From Ozama River, Dominican Republic, Yessica A. Castro

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Obtaining valuable products from environmental remediation waste is a sustainable approach that contributes to the ecological well-being of developing countries. In the present work, the feasibility of the water hyacinth anaerobic digestion as a post-weed management practice in the Ozama River (Dominican Republic) was demonstrated. The estimated energy required for harvesting was lower than that produced during digestion. The biomethanation of water hyacinth was improved by Alkaline Wet Air Oxidation (AWAO), a thermochemical pretreatment process that almost doubled the methane production rate and increased the yield by 24% when conducted at high temperatures. At lower temperatures, the methane yield of …

Preclinical Development Of Single Walled Carbon Nanotube-Based Optical Biosensors, Eric M. Hofferber

Department of Agricultural and Biological Systems Engineering: Dissertations, Theses, and Student Research

High resolution, long-term monitoring of key biological analytes would improve patient outcomes by providing earlier detection of disease states and improved efficacy of treatment. One class of biosensors that have gained much attention in recent years are optical biosensors. Optical probes are attractive biosensors due to their noninvasive nature of detection, as certain light can pass through tissue, water, and blood. Single walled carbon nanotubes (SWNT) are a specific type of optical biosensor that fluoresce in the near infrared range of the electromagnetic spectrum and offer unparalleled spatial and temporal resolution. SWNT have been applied as biosensors in vitro, …

Project Alien, Rebecca Mccallin, Madelyn Hoying, Alex Evans, Matthew Nestler, Karli Rae Sutton, Garett Craig, Lucia Secaia Del Cid, Alexander Guy, Rachel Fernandez, Amanda Trusiak, Paige Aley, Ingabire Gakwerere, Nina Dorfner, Maria Mosbacher, Mary Flavin, Selvin Hernandez, Audrey Steen, Benjamin Kazimer

Undergraduate Research and Scholarship Symposium

Project ALIEN is a comprehensive plan to send humans to Mars to look for life on the Martian surface while exploring the viability and adaptability of terrestrial microbes in Martian atmospheric conditions. ALIEN will use a ballistic capture trajectory to get to Mars and stay in aerostationary orbit for a 30-day surface mission, during which two surface crewmembers will perform a variety of experiments to achieve the mission’s goals of Martian microbial discovery within brines of the Gale Crater and terrestrial microbe adaptability and viability to Martian conditions. Experimentation is based on the presumption that Martian microbes are metabolically similar …

Development And Mechanical Characterization Of A Composite Biomaterial Made From Agricultural Waste Reinforcement In A Fungal Mycelium Matrix., John Adam Howe

Honors Capstones

No abstract provided.