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Using Intrinsic Properties Of Polyaniline To Sense Expression Of The Microrna Let-7, Jared N. Gloria

Honors Theses

MicroRNAs are approximately 22-nucleotide long RNA molecules that function through decay and translational repression of messenger RNA. The microRNA let-7 is found to play a role in maintaining the fate of differentiated cells in humans. Thus, expression level of this microRNA is a reliable biomarker of tumor cell phenotype. However, there are significant limitations in the current profiling techniques of microRNA. The current methods like northern blotting, microarrays, RT-PCR, or using locked nucleic acid (LNA) for in-situ hybridization are either laborious, semi-quantitative, or expensive. In this research we try to address this issue by developing a fast, specific, and inexpensive …

Synthesis And Application Of (R)-3-Methylpyrrolidine-3-Carboylic Acid, Shelby D. Dickerson

Honors Theses

L-Proline is an amino acid widely used in pharmaceutical and biotechnological research due to its catalytic activity and biological relevance. L-Proline has been recognized and utilized as an organocatalyst, which allows cleaner, more sustainable reactions. However, one issue with L-proline is its low solubility in organic systems, limiting its reactivity and efficiency, especially when considering industrial research. Two reactions that utilize L-Proline are the Michael and Aldol but require 100 mol% of L-Proline and 30 mol% of L-Proline, respectively. This research will focus on the synthesis of an analogue of L-Proline utilizing inexpensive, commercially available reagents. A variety of organic …

Molecular Mechanism For The Biosynthesis And Regulation Of Secondary Metabolites In Lysobacter, Simon Tesfamichael Tombosa

Department of Chemistry: Dissertations, Theses, and Student Research

This thesis presents regulatory and biosynthetic mechanisms by which microorganisms produce secondary metabolites that can potentially be developed into drugs beneficial to humans. The first section shows the role of small signaling molecules in regulating the production of one of the novel antifungal metabolites, heat stable antifungal factor (HSAF), from Lysobacter enzymogenes.

In the second part of the thesis I report our attempts to isolate and characterize the biosynthesis of WBP, a new secondary metabolite from Lysobacter antibioticus OH13. I have included the in-silico analysis of the gene cluster for WBP and the predicted biosynthetic pathway based on analysis …

Studies In Asymmetric Catalysis: Supramolecular Catalysis And Borane-Assisted Hydrogenation, Kazuya Toyama

Department of Chemistry: Dissertations, Theses, and Student Research

Metal-catalyzed catalytic asymmetric reactions have gained enormous attentions and the utilities of such reactions have facilitated natural products syntheses to afford highly bioactive molecules. While these reactions have provided reliable methodologies to transform basic reactants into product(s) with highly enantio- and regioselective manners, the incompatibility with a many functional groups and the associated need to employ protecting groups increases the number of synthetic steps required. Herein, a solution to such an issue has been proposed in catalytic asymmetric hydroboration of styrene derivatives where supramolecular catalysts developed by Takacs et al. were used to achieve highly regio- and stereoselective reaction on …

Early Growth And Development Impairments In Patients With Ganglioside Gm3 Synthase Deficiency, H. Wang, A. Wang, Dan Wang, A. Bright, V. Sency, Aimin Zhou, B. Xin

Chemistry Faculty Publications

Ganglioside GM3 synthase is a key enzyme involved in the biosynthesis of gangliosides. GM3 synthase deficiency (GSD) causes a complete absence of GM3 and all downstream biosynthetic derivatives. The individuals affected by this disorder manifest severe irritability, intractable seizures and profound intellectual disability. However, we have found that most newborns seem symptom-free for a period of time after birth. In order to further understand the onset of the disease, we investigated the early growth and development of patients with this condition through this study. We compared 37 affected individuals with their normal siblings and revealed that all children with GSD …

Characterization Of Plethodontid Timp-Like Protein (Ptp) And Its Role In Tissue Remodeling During Pheromone Gland Development., Andrew Knight

College of Arts & Sciences Senior Theses

Plethodon shermani is a species of lungless salamander that has a complex courtship ritual during which the female straddles the male’s tail. The male then uses a submandibular mental gland to secrete nonvolatile proteinaceous pheromones to increase females’ receptivity to mating. Investigation of the pheromone extract indicated the presence of a protein, termed Plethodontid TIMP-like protein (PTP), with no pheromonelike activity that bears sequence similarity to a group of proteins known as Tissue Inhibitors of Matrix Metalloproteinases (TIMPs). PTP was functionally characterized by measuring its ability to inhibit a range of mouse and human Matrix Metalloproteinases (MMPs). The results of …

The Effects Of Hydrogen Bonding On The Reactivity Of Synthetic Ada Repair Protein Analogues, Josiah G. Elsberg

Boise State University Theses and Dissertations

The study of bioinorganic chemistry is an important field, as it can provide insight as to why Nature has chosen certain active sites and structures within different kinds of metalloproteins. Ada repair protein, a zinc-containing metalloprotein, is one such topic of interest. Although it is known that Ada RP is able to repair methyl-phosphotriester backbone damage by self-methylation of one of its cysteine groups, the mechanism is not fully understood. Two pathways have been proposed: a dissociative pathway where the Zn-S bond becomes a zinc/sulfur ion pair, and an associative pathway where a four ringed σ-metathesis occurs. Previous research has …

Strategic Molecular Design To Engineer The Electron Affinity Of Self-Assembling Organic Semiconductors, Kelly Nicole Zaugg

UNLV Theses, Dissertations, Professional Papers, and Capstones

Development of electron-accepting (n-type) semiconductors used in organic photovoltaic cells and field effect transistors has been an area of research with less advancement compared to their electron-donating (p-type) counterparts. Currently, the highest performing n-type semiconductor is a fullerene-based derivative (PCBM) with a favorable ELUMO of -4.08 eV. However, PCBM has limited absorption in the visible region and fixed electron affinity. This work focuses on the development of self-assembling n-type materials with controllable electronic properties by strategically lowering ELUMO to a level comparable to PCBM. Molecular design follows an acceptor-acceptor'-acceptor (A-A'-A) configuration; with A being two 2,3-dioctyloxyphenazine substituents connected to A’ …

Structural Variations Involving S-Block Metal Pyrazolates, Joshua Woods

Renée Crown University Honors Thesis Projects - All

Alkali and alkaline earth metal organometallics have been sought after for a variety of applications such as in electronic devices produced by novel metal organic chemical vapor deposition precursors, catalysts and as synthetic reagents. Despite significant advances in synthetic techniques, the chemistry of the highly reactive s-block metals is still relatively unexplored. It is difficult to predict properties, structure and binding modes of these compounds due to a number of factors including enhanced reactivity and tendency to aggregation due to the large metal diameter. On the other hand, many of the s-block metals are earth abundant and environmentally friendly, …

Exogenous Polyunsaturated Fatty Acid (Pufa) Scavenging Affects Phospholipid Profiles And Virulence Phenotypes In Vibrio Cholerae And Vibrio Parahaemolyticus, Anna Moravec

Honors Theses

AIM: This research had two primary objectives. First, this study sought to determine whether or not exposing Vibrio cholerae and Vibrio parahaemolyticus to polyunsaturated fatty acids (PUFAs) would lead to changes in their respective phospholipid profiles. Secondly, if membrane remodeling occurred, this study sought to determine the impact of membrane modifications on bacterial fitness by evaluating their effect on membrane permeability, biofilm formation, and response to stresses. METHODS: The Bligh and Dyer method was used to extract bacterial lipids, which were subsequently analyzed via thin-layer chromatography (TLC). The effect of fatty acids on bacterial fitness was assessed using stress, biofilm, …

Development Of Arginyl-Trna Synthetase From Pseudomonas Aeruginosa As A Platform To Screen For Inhibitors Of Protein Synthesis, Daniel Cantu

Theses and Dissertations

Pseudomonas aeruginosa is a Gram- negative bacteria that is the leading cause of mortality in immunocompromised patients. Arginyl-tRNA synthetase (ArgRS) is an enzyme that catalyzes the covalent attachment of arginine to the cognate tRNAArg during protein synthesis. Scintillation proximity assays (SPA) were adapted to the aminoacylation assay and used to screen, one natural compound library (800) and one synthetic compound library (890) to identify inhibitors of the activity of ArgRS. Five compounds were identified which inhibited greater than 50% of enzymatic activity, two of these compounds (BT04F10 and BT11F03) exhibited promising MICs against Gram+ bacteria and moderate activity against Gram- …

Synthesis And Characterization Of "Click Inspired" Thiol-Ene-Fullerene Nanocomposites, Amber Danielle Windham

Dissertations

This work explores the covalent incorporation of C₆₀ and Sc₃N@C₈₀ fullerenes into thiol-ene networks by a facile, one-pot photochemical reaction with multifunctional thiol and alkene monomers. Synthesis of disulfide bonds within the tri-functional thiol monomer served to photochemically initiate the reaction when cleaved. This was followed by thermal curing of the pre-polymer for preparation of fullerene-containing thiol-ene films. Films were characterized by standard techniques including infrared spectroscopy, gel percent, and thermogravimetric analysis. The role of C₆₀ and Sc₃N@C₈₀ as suitable alkenes for free-radical reaction with multifunctional thiols was investigated by preparing a …

Addressing The Issues Of Drug Delivery Via Advanced Macromolecular Design, Brooks Allen Abel

Dissertations

The work described in this dissertation focuses on the development of synthetic approaches toward novel polymer architectures that specifically address the issues of in vivo drug delivery. Successful implementation of the synthetic methodologies described herein required fundamental investigations into the underlying chemistries in ways that now provide greater insights into the nature of the these chemical reactions.

In Section I, the synthesis of tunable pH- and CO₂-responsive sulfonamide-containing polymers using reversible addition-fragmentation chain transfer (RAFT) polymerization is described. Initially, poor polymerization control of methacryloyl sulfonamide (MSA) monomers was observed using traditional RAFT polymerization conditions. Ultimately, reducing the polymerization …

Proof Of Concept For The Forensic Analysis Of Blood Spots To Distinguish Time Since Deposition And Relative Age Of Blood Spot Originator, Roselyn Rodrigues

Chemistry

In the field of forensics, blood is considered a highly useful tool. DNA found in blood is currently viewed as the best source of identifying a suspect; however, DNA analysis is mainly used as a comparative method. DNA analysis can single out a suspect they are physically present in custody or if a match is made through a database of stored profiles, such as the Combined DNA Index System (CODIS).1-3 There are new methods of DNA analysis that can identify a person of African/Caribbean decent, hair and eye color, and even the age of a person.4-6 However, this DNA analysis …

Effect Of Concentration, Temperature, And Base Changes On Retrovirus Dimerization, Ashley Colvin

Chemistry

RNA-RNA junctions between hairpin loops are a common feature of RNA retroviruses, accounting for their high mechanical stability. Dimerization of Moloney Murine Leukemia Virus (MMLV) is dependent on H3 stem loop interactions, which are an example of such a junction. H3 in MMLV dimerizes via a two base pair hairpin loop enhanced by two adjacent stacking bases. All atom, explicit solvent molecular dynamics pulling simulations were performed to examine the stability of the junction. Salt concentrations and temperatures were varied and unstacking times of the flanking bases and breaking times of the kissing bonds were calculated. Survival curves revealed that …

Microdialysis Studies Using Porcine Pancreatic Elastase To Guide Mathematical Modeling Of Microdialysis Sampling For In Vivo Measurements., Mason W. Young

Biomedical Engineering Undergraduate Honors Theses

Microdialysis sampling uses a semi-permeable membrane to allow solute collection by diffusion. When used in conjunction with other instruments, analytes in question can be quantified. Matrix Metalloproteinases (MMPs) are enzymes involved in numerous biological processes where they serve the role of degrading extracellular matrix. Microdialysis sampling, in coordination with further analysis methods, can be used in order to measure the activity of these enzymes in a region of the body instantaneously. The intention of this project is to determine ways of measuring in vitro activity of elastase from porcine pancreas using determined activity values and the collection of elastase products. …

Placental ‘€˜Omics’€™ Study To Understand The Pathogenesis Of Preeclampsia, Komal Kedia

Theses and Dissertations

Preeclampsia (PE) is a potentially fatal complication of pregnancy characterized by an increase in blood pressure (>140/90 mmHg) and proteinuria (>300 mg/24 hrs), often accompanied by edema. Symptoms of PE start after 20 weeks of gestation. If PE remains untreated, it can lead to eclampsia, grand-mal seizures responsible for most fatalities. PE is believed to affect 2-10% of pregnancies worldwide, and claims the lives of over 75,000 mothers and 500,000 newborns yearly. No therapeutic agents have been developed to prevent or cure PE. Part of the reason for this is the absence of a complete understanding of the …

Identification Of Synthetic Chemical Compound Inhibitors Of Pseudomonas Aeruginosa Protein Synthesis And The Development Of Lead Series, Stephanie O. Palmer

Theses and Dissertations

Pseudomonas aeruginosa is a ubiquitous Gram-negative bacteria and a primary cause of nosocomial infections. An aminoacylation/translation (A/T) assay was developed using P. aeruginosa components to perform poly(U) mRNA directed protein synthesis. Using scintillation proximity assay (SPA) technology a high-throughput screening (HTS) platform was developed. A synthetic chemical compound library (>900) was screened, 36 hit compounds were identified and molecular targets were determined. Compounds were analyzed for enzymatic inhibition (IC50) and inhibition of bacterial cultures (MIC). Time-kill studies determined bacterial growth to be bacteriostatic or bactericidal in the presence of inhibitor. Mechanism of action, effects on eukaryotic cytosolic and mitochondrial …

Molecular Dynamic Simulation Studies Of The Androgen Receptor Complexed With 5Α-Dihydrotestosterone And An Allosteric Ligand, Everardo Villarreal Ii

Theses and Dissertations

Receptors are important drug targets for the pharmaceutical industry, since they are involved in many illnesses. Nuclear receptors are a subset of receptors that control a variety of physiological events, by expression of genes from DNA. One of the nuclear receptors, the androgen receptor, is a steroid binding receptor that controls a variety of regulatory and development functions in the body. It is also the cause of some types of cancer, so the inhibition of this receptor is crucial. One of the processes studied to inhibit the function of the receptor is to see if an allosteric ligand, TRIAC, can …

Hydrodesulfurization Of Dibenzothiophene Using Comos2, Jacob S. Sollner

Theses and Dissertations

The hydrodesulphurization (HDS) of crude oils is an important industrial process to remove sulfur from fuels. In this study, DBT was used as a model compound to study the removal of sulfur from a decahydronaphthalene solution. The catalyst was synthesized through low pressure pathways in the absence of H2S. All the synthesized catalyst were investigated using a combination of SEM, RAMAN spectroscopy, and XRD. The materials were studied for their ability to remove DBT from solution and the reaction products were analyzed. It was observed that the major reaction pathway was the direct desulphurization pathway and zero order reaction kinetics …

Computational Studies Of Spin Trapping Of Biologically Relevant Radicals By New Heteroaryl Nitrones, Eyram Asempa

Electronic Theses and Dissertations

Heteroaryl nitrone spin traps have been suggested to act as free radical scavengers. The geometry optimizations and the single-point energies of the spin trapping reactions of the heteroaryl nitrones, 5,5-dimethylpyrroline-N-oxide (DMPO) and α-phenyl-N-t-butylnitrone (PBN) have been computationally studied using ab initio (Hartree-Fock (HF) and second-order Møller-Plesset (MP2)) methods and Density Functional Theory (DFT) methods. The effects of new heteroaryl substituents on a parent nitrone spin trap have been examined at the HF and MP2 levels with the 6-31G*, and cc-pVnZ (n=D, T, Q) basis sets. The thermodynamics of the spin trapping at the C-site and O-site with •H, …

Improving Photocatalytic Activity By Appending A Quinone To Ruthenium Polypyridyl Complex, Amy N. James

Chemistry & Biochemistry Undergraduate Honors Theses

By converting natural light energy into chemical energy, chemists are studying ways to take advantage of clean energy. The rising precedence of “green chemistry” has led to academic interest in the activity of photocatalysts and harnessing visible light in an efficient, accessible, and safe manner. Photochemistry is an upcoming and fascinating field of study that has made significant progress, but also has great potential for future work. By utilizing light as a natural energy source, many reaction processes in chemistry can be viewed with a new perspective. Ru(bpy)₃²⁺ is one of the most widely used photocatalysts. An efficient …

Staphylococcal Nuclease And Ubiquitin Local Folding Energies And Rates Using Peps-Hdx-Esi-Ms, Julie Rhee

Chemistry & Biochemistry Undergraduate Honors Theses

In this study, Protein Equilibrium Population Snapshot Hydrogen-Deuterium Exchange Electrospray Ionization Mass Spectrometry (PEPS-HDX-ESI-MS) was applied to study the local regions of model proteins, staphylococcal nuclease and ubiquitin. The hydrogen deuterium exchange (HDX) has become a key technique for studying the structural and dynamic aspects of proteins in solution. This technique creates a rapid exchange between all of the exchangeable hydrogen ions with deuterium when the protein is exposed to a solvent. The PEPS method is an equilibrium-based method used to determine the populations of the closed native and open denatured states of a protein. By combining the applications of …

Synthesis Of Microgel Polymers As Catalysts, Hannah N. Miller

Chemistry & Biochemistry Undergraduate Honors Theses

New developments in organic synthesis show promise in achieving the best catalytic properties for the hydrolysis of glycosidic bonds through microgel polymers and transition metal complexes. A monomer mix of ethylene glycol dimethacrylate, butyl acrylate, and styrene form miniemulsion polymers after sonication and exposure to UV light. Gravimetrical analysis is used to determine the most suitable polymerization conditions by performing experiments at varying pH values, temperatures, monomer amounts, initiator amounts, and lamp heights. The final data show that the best polymerization conditions are a pH of 10.50 at 0°C with a high monomer ratio, 20% initiator amount, and a lamp …

Influence Of Cholesterol On Single Arginine-Containing Transmembrane Helical Peptides, Jordana K. Thibado

Chemistry & Biochemistry Undergraduate Honors Theses

An essential component of animal cells, cholesterol exerts significant influence on the physical properties of the cell membrane and in turn, its constituents. One such category of constituents, the membrane proteins, are responsible for diverse and essential biological functions and often contain polar amino acids. Although sparse within the hydrophobic interior of lipid-bilayer membranes, polar amino acid residues are highly conserved and may play pivotal roles in determining specific structural and functional properties of key proteins. To gain greater understanding of the lipid membrane environment, and more broadly, cellular function, a model peptide framework termed “GWALP23” (acetyl-GGALWLALALAL¹²AL^{14 …}

Regulation Of The Reaction Between Cytochrome C And Cytochrome Oxidase, Jennifer Silva-Nash

Chemistry & Biochemistry Undergraduate Honors Theses

Irreversible brain damage is commonly seen in patients that have suffered strokes, cardiac arrest, or other brain ischemia events. The hypoxic conditions result in neuron death, and previous studies have shown that additional damage occurs when blood flow is restored. It is thought that the lack of energy production during post-ischemia events also causes severe brain damage, as the brain heavily depends on oxidative phosphorylation. Cytochrome c (Cyt c) plays a crucial role in this energy production by means of the electron transport chain (ETC), transferring electrons between complexes ΙΙΙ (cytochrome bc1) and ΙV (cytochrome c oxidase, CcO). Mitochondrial …

Heterogeneous And Homogeneous Nickel-Based Electrocatalysts For Oxygen Evolution And Carbon Dioxide Reduction, Meili Sheng

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

The growing global energy demand and the increasing concentration of CO₂ in the atmosphere have encouraged the development of renewable energy to replace carbon-based fossil fuels. Electrocatalytic water splitting to form H₂ and O₂ and reduction of CO₂ to CO are appealing processes and we can be directly utilize H₂ and CO as fuels or commodity chemicals in mature industrial processes, which will not alter the current carbon cycle. However, the O₂ evolution reaction of water splitting is a reaction of four-proton and four-electron transfer process, whose kinetics is very sluggish under normal conditions. …

Preparation Of Novel Steroidal Conjugates As Potential Diagnostic And Therapeutic Agents With An Emphasis On Quinoid And Halogenated Moieties, Nuha Obaid Juma Alsoom

Theses

Steroids bonded to pharmaceutically active molecules are interesting candidates as therapeutic agents. In this work, a number of potentially bioactive residues, which include the quinoid moiety, have been synthesized as a simple steroid quinone hybrid, where the steroid component will be estradiol derived or the steroid cholesterol derived. For this purpose, two novel reactions have been explored namely, the modification of the APPEL reaction to connect residues by using PPh3/BrCCl3 for amidation and esterification of carboxylic acids. Another one is the hydrogenation reaction of alkenes by using NaBH4, AcOH, Pd/C and toluene or benzene in the presence of benzyl groups …

Development Of Electrochemical Sensors Suitable For In Vivo Detection For Neurotransmitters, Mengjia Hu

Graduate Theses and Dissertations

The electrochemical method of redox cycling was exploited to achieve new discoveries in neurotransmitter detection and to advance its suitability toward in vivo use. Redox cycling has advantages in signal amplification, selectivity of species based on their electrochemical reaction mechanisms, and limited or no background subtraction. Distinction of dopamine from norepinephrine in a mixture with an electrochemical method at unmodified electrodes was demonstrated for the first time in vitro. This ability resulted from a series of fundamental studies of redox cycling behavior of the catecholamines (dopamine, norepinephrine and epinephrine) using different electrode configurations. Taking advantage of the ECC’ mechanism associated …

The Effect Of Pure Infrared Light On The Growth Of Rhodospirrilum Rubrum, Jordan Lee Wilkes

Undergraduate Honors Capstone Projects

Scientists who study aquatic ecosystems quickly notice a diversity of pathways that different microbes and organisms can use to metabolize nutrients found in common ponds or pools. Competition for vital resources, such as light and inorganic minerals, allow only certain organisms to grow in certain niches within these ecosystems. Rhodospirillum rubrum is a gram negative, photosynthetic bacteria that competes for light within aquatic ecosystems in order to survive. R. rubrum is believed to specifically absorb light for photosynthesis at wavelengths in the range of infrared light. It was found that R. rubrum indeed can grow in "dark", anaerobic environments by …