Biochemical and Biomolecular Engineering Commons^™

Raman Spectroscopy Predicts The Link Between Claw Keratin And Bone Collagen Structure In A Rodent Model Of Oestrogen Deficiency, M. Clare Caraher, Antonia Sophocleous, J. Renwick Beattie, Olive O'Driscoll, Niamh M. Cummins, Orlaith Brennan, Fergal J. O'Brien, Stuart H. Ralston, Steven E.J. Bell, Mark R. Towler, Aymen I. Idris

Chemical and Biochemical Engineering Faculty Research & Creative Works

Osteoporosis is a common disease characterized by reduced bone mass and an increased risk of fragility fractures. Low bone mineral density is known to significantly increase the risk of osteoporotic fractures; however, the majority of non-traumatic fractures occur in individuals with a bone mineral density too high to be classified as osteoporotic. Therefore, there is an urgent need to investigate aspects of bone health, other than bone mass, that can predict the risk of fracture. Here, we successfully predicted association between bone collagen and nail keratin in relation to bone loss due to oestrogen deficiency using Raman spectroscopy. Raman signal …

Catalytic Fast Pyrolysis Of Kraft Lignin Over Hierarchical Hzsm-5 And Hβ Zeolites, Yadong Bi, Xiaojuan Lei, Guihua Xu, Hui Chen, Jianli Hu

Faculty & Staff Scholarship

The hierarchical HZSM-5 and Hβ zeolites were prepared by alkaline post-treatment methods adopting Na2CO3, TMAOH/NaOH mixture, and NaOH as desilication sources, respectively. More mesopores are produced over two kinds of zeolites, while the micropores portion is well preserved. The mesopores formed in hierarchical Hβ zeolites were directly related to the basicity of the alkaline solution, indicating that Hβ zeolite is more sensitive to the alkaline post-treatment. The hierarchical HZSM-5 and Hβ zeolites are more active than the parent one for catalytic fast pyrolysis (CFP) of Kraft lignin. Hierarchical zeolites retained the function of acid catalysis, while additionally creating larger mesopores …

A Preliminary Evaluation Of The Ability Of Keratotic Tissue To Act As A Prognostic Indicator Of Hip Fracture Risk, J. Renwick Beattie, Diane Feskanich, M. Clare Caraher, Mark R. Towler

Chemical and Biochemical Engineering Faculty Research & Creative Works

Studies have shown that Raman spectroscopic analysis of fingernail clippings can help differentiate between post-menopausal women who have and who have not suffered a fracture. However, all studies to date have been retrospective in nature, comparing the proteins in nails sourced from women, post-fracture. The objective of this study was to investigate the potential of a prospective test for hip fracture based on spectroscopic analysis of nail tissue. Archived toenail samples from post-menopausal women aged 50 to 63 years in the Nurses' Health Study were obtained and analysed by Raman spectroscopy. Nails were matched case-controls sourced from 161 women; 82 …

The Impact Of Gallium Content On Degradation, Bioactivity, And Antibacterial Potency Of Zinc Borate Bioactive Glass, Alireza Rahimnejad Yazdi, Lawrence Torkan, Wendy Stone, Mark R. Towler

Chemical and Biochemical Engineering Faculty Research & Creative Works

Zinc borate glasses with increasing gallium content (0, 2.5, 5, 10, and 15 Wt % Ga) were synthesized and their degradation, bioactivity in simulated body fluid (SBF), and antibacterial properties were investigated. ICP measurements showed that increased gallium content in the glass resulted in increased gallium ion release and decreased release of other ions. Degradability declined with the addition of gallium, indicating the formation of more symmetric BO₃ units with three bridging oxygens and asymmetric BO₃ units with two bridging oxygens in the glass network as the gallium content in the series increased. The formation of amorphous Ca-P …

Miscible Gases Based Eor In Unconventional Liquids Rich Reservoirs: What We Can Learn, Dheiaa Alfarge, Mortadha Alsaba, Mingzhen Wei, Baojun Bai

Geosciences and Geological and Petroleum Engineering Faculty Research & Creative Works

Over the last decade, Unconventional Liquids Rich Reservoirs (ULR) have become the main target for oil and gas investors as conventional formations started to deplete and diminish in numbers. These unconventional plays have a huge oil reserve; however, the primary oil recovery factor is predicted to be less than 10%. Unconventional Improved Oil Recovery (UIOR) techniques are still a new concept in the oil industry since there is no commercial project reported for any IOR technique yet. Miscible gas based EOR technique might be the most potential strategy to improve oil recovery in such complex plays. In this study, a …

New Insights Of Low Salinity Water Flooding In Low Permeability-Low Porosity Clay Rich Sandstone Reservoir, Ali K. Alhuraishawy, Baojun Bai, Mingzhen Wei, Waleed H. Al-Bazzaz

Geosciences and Geological and Petroleum Engineering Faculty Research & Creative Works

One of the EOR technologies is low-salinity water flooding (LSWF) is an EOR method that operates at a lower cost than other EOR methods, which makes it a preferred area of interest for oil industry economists, who continue to call for EOR costs to come down. The aim is to minimize the possible cost to recover as much oil as possible. The performance of low salinity waterflooding in decreasing residual oil saturation in low permeability-porosity clay-rich sandstone reservoir. Porosity test, core flooding test, XRD and scanning electron microscopy (SEM) tests were achieved in this study. Salinity effect on the porosity, …

A Novel Ultra-Low Interfacial Tension Nanofluid For Enhanced Oil Recovery In Super-Low Permeability Reservoirs, Derong Xu, Baojun Bai, Ziyu Meng, Qiong Zhou, Zhe Li, Yao Lu, Hairong Wu, Jirui Hou, Wanli Kang

Geosciences and Geological and Petroleum Engineering Faculty Research & Creative Works

The exploration and development of super-low permeability reservoirs have become a global focus in recent years. However, conventional flooding systems commonly face problems of high injection pressure and poor displacement efficiency in super-low permeability reservoirs. Thus, it is imperative to find new flooding agents that tackle such problems. In this study, a novel ultra-low interfacial tension (IFT) nanofluid was formulated, consisting of surfactants to achieve ultra-low IFT and silica nanoparticles to reduce injection pressure. The compatibility test between the surfactants and silica nanoparticles in 10,000 mg/L NaCl solution at 90 °C was conducted to ensure their adaption to harsh reservoir …

Cm-Dii And Mcf-7 Breast Cancer Cell Responses To Chemotherapeutic Agents, Ashten M.C. Anderson

Honors Theses

CM-DiI is a lipophilic, red fluorescent dye used for staining and tracking the migration of cells. CM-DiI makes it possible to visualize cells in histological regions and can therefore be very useful for the tracking of cancer cell proliferation and metastasis in vivo. The ability to track and quantitate cancer cell proliferation in vivo is essential for cancer drug discovery. If CM-DiI labeled cancer cells respond to chemotherapy agents similar to unlabeled cancer cells, it facilitates screening of potential anti-cancer compounds using CM-DiI labeled cells in a xenotransplanted, transgenic zebrafish model (Danio rerio). To investigate whether CM-DiI labeling would affect …

Effects Of Predation On The Biochemical Constituents Of The Bleached Soft Coral Sinularia Polydactyla, Carley Elizabeth Cole

Honors Theses

Climate change can indirectly affect the level of predation on soft corals. As sea temperatures rise, more and more bleaching events are occurring, which can affect the production of chemical defenses and the concentrations of the biochemical constituents that make up the soft corals. These changes may make the soft corals more attractive to predators. This phenomenon is suggested by the environmental stress theory (EST), which states that under stressful conditions, more of an organism's energy is allocated to survival rather than to other factors, such as reproduction or predator deterrence. To test the effect of predation on already bleached …

Technique For The Synthesis Of Difluorinated Organic Molecules Using Magnesium Bases, Cassidy S. Baldwin

Honors Theses

The presence of fluorine in organic molecules can confer biological advantages which are often exploited in drug development. For example, fluorine has been shown to limit drug metabolism and enhance drug distribution. However, the development of fluorinated pharmaceutics poses synthetic challenges. These challenges are especially pronounced when developing molecules with a difluoromethyl group. One difluoromethyl functional group of particular interest is the α,α-difluoro-β-amino carbonyl group, which has been seen in potential drug leads. The previous methods of accessing this group are inefficient and complex. The goal of this project was to develop a new technique to access this group by …

Understanding Inhibition Of A Biodesulfurization Enzyme To Improve Sulfur Removal From Petroleum, Yue Yu

Theses and Dissertations--Chemical and Materials Engineering

The biodesulfurization 4S-pathway is a promising complementary enzymatic approach to remove sulfur from recalcitrant thiophenic derivatives in petroleum products that remain from conventional hydrodesulfurization method without diminishing the calorific value of oil. The final step of this pathway involves the carbon-sulfur bond cleavage from HBPS, and the production of the final products 2-hydroxybiphenyl (HBP) and sulfite, has been recognized as the rate-limiting step, partially as a result of product inhibition. However, the mechanisms and factors responsible for product inhibition in the last step have not been fully understood. In this work, we proposed a computational investigation using molecular dynamic simulations …

Advanced Ion Management To Improve Oil Recovery In Oil-Wet Carbonate-Sandstone Composite Reservoirs, Ali K. Alhuraishawy, Baojun Bai, Mingzhen Wei, Waleed H. Al-Bazzaz

Geosciences and Geological and Petroleum Engineering Faculty Research & Creative Works

Waterflooding with different ionic composition called advanced ion management which play a role with ionic composition of injected water to enhance the oil production. In the last decade, many studies pointed out that the composition of injected water could changes rock wettability during waterflooding. The main purpose of this study is to evaluate the effects of SO4 and low salinity water on improving oil recovery in oil-wet carbonate reservoirs. Sulfate ion concentration, low salinity water, rock composition, porosity, and permeability were examined using a designed model. Typical seawater, increase SO₄, two and three times in the seawater, and …

O-Glcnac Post Translational Modification Of Hypoxia-Inducible Factor (Hif) Proteins, Hailey Elisabeth Grisham

Honors Theses

O-linked β-N-acetylglucosamine (O-GlcNAc) post-translational modification (O- GlcNAcylation), plays a vital role in many metabolic pathways, including those of numerous diseases. New research methods and basic functional roles of O-GlcNAc post- translational modification on metabolism, human health, and cancer are quickly developing, but a vast amount of research remains on the specificity of this pathway towards specific proteins. In this study, T47D breast cancer cells were used as an in vitro model to investigate the effects of O-GlcNAc modification on hypoxia-inducible factor (HIF) proteins.

Perceptions Regarding Concussions In Collegiate Football At The University Of Mississippi, Madison Frerker

Honors Theses

Concussions are a form of mild traumatic brain injury (mTBI) that can occur from any force to the head or body that causes the brain to move within the skull. Concussions are common in the sport of football due to the highly physical nature of the sport, and injured athletes can experience a wide array of symptoms. Like other players participating with powerhouse football programs, those at the University of Mississippi are at risk of concussion throughout their collegiate career. Whether players and fans perceive the risks of concussion equally has not been previously studied. Considering the passionate history of …

Development Of A Scn1a Null Zebrafish Model For Screening Potential Anti-Epileptic Natural Products, Patricia Ann Lipson

Honors Theses

Epilepsy affects around 50 million people in the world. Thus, it is imperative that new more effective and safe treatments be found. This study was designed to use zebrafish to screen potential anti-epileptic natural products. We utilized two scn1Lab null zebrafish models (morpholino-injected fish where scn1Lab was transiently knocked down and a transgenic scn1Lab -/- fish line). Alternatively, we used AB wildtype fish to test compounds in a chemically-induced seizure model. Natural compounds including cannabidiol, CBD, and Tapinanthus globiferous, TG, extracts were screened for their anti-seizure activity. When scn1Lab -/- fish were treated with CBD (0.075 and 0.3 mg/L) from …

Development Of Entubulation Strategies For Treating Central Nervous System Injuries, Ivy Brosch

Williams Honors College, Honors Research Projects

According to the McKnight Brain Institute, at least 10,000 people annually in the USA suffer from a central nervous system (CNS) injury. These injuries can cause serve disabilities including paralysis. Due to the complexity of the spinal cord, it is common that potential CNS treatments are first applied to an optic nerve crush (ONC) model in rats. Two proposed treatments were employed; one where nerve growth factor (NGF) was immobilized to a chitosan substrate to stimulate axonal regeneration, and the other using pentadecafluorooctanoyl chloride modified methacrylamide chitosan (MAC(Ali15)F) hydrogel to enhance local oxygenation. The two different treatments were formed into …

The Active Phase Of Gold Catalyst For Propylene Epoxidation, Manchhiben Patel

Summer Community of Scholars Posters (RCEU and HCR Combined Programs)

No abstract provided.

Sweat Sensor Modelling, Katie Brumbaugh

Williams Honors College, Honors Research Projects

There are no in-situ electrolyte sodium sensors available in the marketplace, however there is a demand and use for them. An in-situ sodium sensor can be used to monitor bodily functioning in many applications like medical patient monitoring and athlete monitoring during workouts. Patients with cystic fibrosis attempt to monitor salt content in sweat to maintain homoeostatic body function, this sweat sensor would change the way those patients took care of themselves [1]. Sweat sensor samples were made using multiwalled carbon nanotubes (MWNT) and nylon 6. The MWNTs were functionalized on the nylon using cyclo-oligomeric calixarene [3]. In functionalizing the …

Polyhexamethylene Biguanide Release By Chitosan-Heparin Nanoparticles, Jacob Ress

Williams Honors College, Honors Research Projects

Chitosan and heparin were used to synthesize nanoparticles using polyelectrolyte complexation. The optimal mixing ratio was determined to be 1:4 by studying the particle characteristics of zeta potential and dynamic light scattering of the ratios 1:2, 1:3, 1:4, 1:5 and 1:6 (chitosan: heparin). The particles were loaded with the antibiotic polyhexamethylene biguanide (PHMB) and the release was measured over 335 hours using the dialysis membrane incubation method and detected via ultraviolet-visible (UV-Vis) spectroscopy. Around 80% of the encapsulated PHMB was released over the measured period. The goal of this part of the study was to determine the drug release behavior …

Molded Features In Pdms For Fabricating Bacterial Cellulose For Various Geometries, Mitchell Habegger

Williams Honors College, Honors Research Projects

The purpose of producing features on bacterial cellulose (BC) is to facilitate the elongation and alignment for cells, in this case Normal Human Dermal Fibroblast (NHDF) cells. The elongated cells have applications in wound healing, tissue engineering, disease diagnostics, and many other fields. Experiments were run to test the effectiveness of transferring features to BC sheets from features induced by fracturing on polydimethylsiloxane (PDMS) and those duplicated from molds with existing features. The features were duplicated to BC sheets by either air drying or Guided Assembly-Based Biolithography (GAB). The research results showed that fracture inducing on PDMS produced very small …

Sustainable Waste-To-Energy Technologies: Bioelectrochemical Systems, Rami Ziara, Bruce Dvorak, Jeyamkondan Subbiah

Department of Civil and Environmental Engineering: Faculty Publications

The food industry produces a large amount of waste and wastewater, of which most of the constituents are carbohydrates, proteins, lipids, and organic fibers. Therefore food wastes are highly biodegradable and energy rich. Bioelectrochemical systems (BESs) are systems that use microorganisms to biochemically catalyze complex substrates into useful energy products, in which the catalytic reactions take place on electrodes. Microbial fuel cells (MFCs) are a type of bioelectrochemical systems that oxidize substrates and generate electric current. Microbial electrolysis cells (MECs) are another type of bioelectrochemical systems that use an external power source to catalyze the substrate into by-products such as …

Ca2+/Calmodulin-Dependent Protein Kinase Ii Activity And Expression In The Aged Mouse Hippocampus, James Mitchum

Honors Theses

CaM Kinase II (Ca2+/calmodulin-dependent protein kinase II) is a serine/threonine-specific protein kinase enzyme that acts as a critical regulator of learning and memory. It has previously been shown that the inability of CaMKII to maintain activation is connected to memory deficits within the aging brain. While the connection between CaMKII dysfunction and learning and memory impairments is well established, little is known about the changes that cause CaMKII dysfunction. Our research set out to investigate if CaMKII is altered during the process of aging. Specifically, we looked at activity, regulation, and stability by conducting experiments to quantify CaMKII levels of …

Design And Synthesis Of Novel Cannabinoid Receptor Modulators, Mary Paige Thrash

Honors Theses

Cannabinoid (CB) receptors are validated drug targets in the endocannabinoid signaling system associated with a number of human pathologies, and the development of novel and selective small molecule CB ligands is warranted. A lead molecule HL-010, a member of the 4H-thieno[3,2-b]pyrrole-5-carboxamide class of compounds, was previously identified through CB homology modeling and virtual screening protocols as a potential high affinity ligand for cannabinoid receptors. Validation of the in silico data was realized with the evaluation of both CB1 and CB2 receptor binding and functional activity assessment: HL-010 was found to be a potent (~10 nM) and selective CB2 receptor agonist …

Cardiolipin Profiling In Metastatic Breast Cancer Cells, Meghan Houston Mcneely

Honors Theses

Six human breast cancer cell lines (MDA-MB-231, LM, BoM, T47D, MCF7, and MCF7-BoM) were treated with three differentially targeted phospholipase inhibitors (bromoenol lactone, tricyclodecan-9-yl-xanthogenate, and halopemide) as well as various dietary oils (canola oil, avocado oil, coconut oil, olive oil, sesame oil, and soybean oil). Cell viability assays were performed to examine the effects of each inhibitor and oil in varying concentrations on the proliferation of each breast cancer cell line. The goal was to detect changes in cardiolipin concentration within each cell line after exposure to a series of various phospholipase inhibitors and oils. Liquid chromatography-mass spectrometry (LC-MS) was …

Neurotoxicity Of Asimina Triloba, Myriam Sanders

Honors Theses

Neurodegenerative diseases are thought to be brought on by genetic and environmental factors including exposure to compounds and extracts found in plants. Many substances extracted from plants have been shown to induce cell death in neurons. This experiment tests different plant compounds to determine if they induce death in neurons in cell culture. In particular, we focused on extracts and compound from the Asimina Triloba plant- a plant that had anecdotally been connected with Parkinson's Disease-like effects. Cultured neurons were treated with increasing concentrations of the compounds and extracts. Twenty-four hours after treatment, viability was assessed. Results show that while …

Applications Of Cellular Components In Engineered Environments, Xiao Hu

Graduate Theses, Dissertations, and Problem Reports (ETD)

Manipulation of cellular components in synthetic environment has attracted interest for applications ranging from sensors to nanelectronics and from catalysis to biomedical devices. In such applications, biological-based processes such as specific recognition and self-assembly direct the formation of hierarchical structures, all at minimum energetic costs, with high efficiency and reliability.

Among such cellular machines, microtubules and kinesins have attracted special interest. Inside the cells, microtubules are giving structural integrity while serving as regular and uniform tracks for transport of vesicles or organelles. Kinesin uses a microtubule track in vivo to progress to specific locations with processive and coordinated steps, all …

Understanding Carbohydrate Recognition Mechanisms In Non-Catalytic Proteins Through Molecular Simulations, Abhishek A. Kognole

Theses and Dissertations--Chemical and Materials Engineering

Non-catalytic protein-carbohydrate interactions are an essential element of various biological events. This dissertation presents the work on understanding carbohydrate recognition mechanisms and their physical significance in two groups of non-catalytic proteins, also called lectins, which play key roles in major applications such as cellulosic biofuel production and drug delivery pathways. A computational approach using molecular modeling, molecular dynamic simulations and free energy calculations was used to study molecular-level protein-carbohydrate and protein-protein interactions. Various microorganisms like bacteria and fungi secret multi-modular enzymes to deconstruct cellulosic biomass into fermentable sugars. The carbohydrate binding modules (CBM) are non-catalytic domains of such enzymes that …

Application Of Process Systems Engineering Tools And Methods To Fermentation-Based Biorefineries, Kwabena Darkwah

Theses and Dissertations--Chemical and Materials Engineering

Biofuels produced from lignocellulosic biomass via the fermentation platform are sustainable energy alternatives to fossil fuels. Process Systems Engineering (PSE) uses computer-based tools and methods to design, simulate and optimize processes. Application of PSE tools to the design of economic biorefinery processes requires the development of simulation approaches that can be integrated with existing, mature PSE tools used to optimize traditional refineries, such as Aspen Plus. Current unit operation models lack the ability to describe unsteady state fermentation processes, link unsteady state fermentation with in situ separations, and optimize these processes for competing factors (e.g., yield and productivity). This work …

The Development Of Microfluidic Devices For The Production Of Safe And Effective Non-Viral Gene Delivery Vectors, Jason Matthew Absher

Theses and Dissertations--Chemical and Materials Engineering

Including inherited genetic diseases, like lipoprotein lipase deficiency, and acquired diseases, such as cancer and HIV, gene therapy has the potential to treat or cure afflicted people by driving an affected cell to produce a therapeutic protein. Using primarily viral vectors, gene therapies are involved in a number of ongoing clinical trials and have already been approved by multiple international regulatory drug administrations for several diseases. However, viral vectors suffer from serious disadvantages including poor transduction of many cell types, immunogenicity, direct tissue toxicity and lack of targetability. Non-viral polymeric gene delivery vectors (polyplexes) provide an alternative solution but are …

Targeting Metastatic Breast Cancer With Statin Drugs And Coq10, Jacob Thrasher

Honors Theses

Statin drugs are commonly prescribed to lower cholesterol levels in patients, but recently statins have been under investigation as a potential anti-cancer drug. Statins are HMG-CoA reductase inhibitors and subsequently inhibit the mevalonate pathway and cholesterol synthesis. Since cholesterol trafficking is vital in the growth and metastasis of cancer, statin drugs are being studied to explore their effects on cancer cells. CoQ10, one of the products from the mevalonate pathway, also has shown some potential anti-cancer properties, but its use to combat cancer is controversial. While some studies have shown that CoQ10 supplements can be synergistic with other cancer treatment …