Digital Commons Network^™

Use Of A Uav For Water Sampling To Assist Remote Sensing Of Bacterial Flora In Freshwater Environments, Dylan Cornell, Maryann Herman, Fernando Ontiveros

Undergraduate External Publications

Ground truth data collection in bodies of water traditionally relies on the use of watercraft and manual sampling. The transport and cost associated with the use of this type of equipment, as well as the time required to reach the site of collection, may all be significantly reduced by the use of small unmanned aerial vehicles (UAV) or drones. In this project we evaluate the implementation of a modified UAV with the ability to collect a small volume of surface water up to 400m offshore. The bacterial flora found in the water of several locations in the Lake Ontario-Rochester Embayment …

Infrared Spectroscopy Of The Nitrogenase Mofe Protein Under Electrochemical Control: Potential-Triggered Co Binding, P. Paengnakorn, Philip A. Ash, Sudipta K. Shaw, Karamatullah Danyal, T. Chen, Dennis R. Dean, Lance C. Seefeldt, Kylie A. Vincent

Chemistry and Biochemistry Faculty Publications

We demonstrate electrochemical control of the nitrogenase MoFe protein, in the absence of Fe protein or ATP, using europium(III/II) polyaminocarboxylate complexes as electron transfer mediators. This allows the potential dependence of proton reduction and inhibitor (CO) binding to the active site FeMo-cofactor to be established. Reduction of protons to H2 is catalyzed by the wild type MoFe protein and Β-98^Tyr→His and Β-^99Phe→His variants of the MoFe protein at potentials more negative than -800 mV (vs. SHE), with greater electrocatalytic proton reduction rates observed for the variants compared to the wild type protein. Electrocatalytic proton reduction is strongly …

The Tribology And Chemistry Of Phosphorus Containing Lubricant Additives, David W. Johnson

Chemistry Faculty Publications

Phosphate esters, thiophosphate esters and metal thiophosphates have been used as lubricant additives for over 50 years. Recently, phosphorus‐containing ionic liquids have emerged as a new class of lubricant additives. While the use of phosphorus compounds has been extensive, a detailed knowledge of how they work has been a much more recent development. In this chapter, the use of phosphate esters, thiophosphate esters, metal thiophosphates and phosphorus‐containing ionic liquids as antiwear or extreme pressure additives is discussed. The primary emphasis will be on how they form a protective film, which is both durable and reduces friction. The first part of …

Asymmetric Transformations Catalyzed By Chiral Binol Alkaline Earth Metal Phosphate Complexes, Sri Krishna Nimmagadda

USF Tampa Graduate Theses and Dissertations

Small molecule hydrogen bond donors have emerged as versatile catalysts in asymmetric synthesis. Within this class, chiral BINOL phosphoric acid is regarded as one of the pioneer catalysts used in several asymmetric transformations. The ability of the catalyst to activate the substrates could be controlled in two different ways. (1) Dual activation/bifunctional activation of substrate by hydrogen bond interactions or ion pairing with phosphoric acid or (2) By forming chiral BINOL phosphate metal complex that could significantly alter the interactions in chiral space. In particular, chiral alkaline earth metal phosphate complexes have unique advantages as catalysts owing to the ubiquitous …

Block Ionomer Complexes Consisting Of Sirna And ARaft-Synthesized Hydrophilic-Block-Cationic Copolymers Ii: The Influence Of Cationic Block Charge Density On Gene Suppression, Keith Hampton Parsons, Andrew Christopher Holley, Gabrielle A. Munn, Alex S. Flynt, Charles L. Mccormick

Faculty Publications

Block ionomer complex (BIC)–siRNA interactions and effectiveness in cell transfection are reported. Aqueous RAFT polymerization was used to prepare a series of hydrophilic-block-cationic copolymers in which the cationic block statistically incorporates increasing amounts of neutral, hydrophilic monomer such that the number of cationic groups remains unchanged but the cationic charge density is diluted along the polymer backbone. Reduced charge density decreases the electrostatic binding strength between copolymers and siRNA with the goal of improving siRNA release after targeted cellular delivery. However, lower binding strength resulted in decreased transfection and RNA interference pathway activation, leading to reduced gene knockdown. Enzymatic siRNA …

Design And Development Of Peptidomimetic Ligands For Targeting Radiopharmaceuticals, Imaging Probes, And Immunotherapeutics In Oncologic Disease, Michael Lawrence Doligalski

USF Tampa Graduate Theses and Dissertations

Cancer is a leading cause of morbidity and mortality in the developed world. While much has been learned about these diseases in the last few decades, one of the main barriers to widespread advancement is the heterogeneity of cancer biology. A growing body of evidence supports the idea that certain protein receptors are overexpressed on the surface of tumor cells as compared to normal tissues. These extracellular biomarkers provide a unique opportunity to selectively target the tumor with both imaging and therapeutic modalities. The research in this dissertation focuses on targeting proteins on the tumor cell surface with peptidomimetic ligands. …

A Thermodynamic Description Of The Adsorption Of Simple Water-Soluble Peptoids To Silica, Anna L. Calkins, Jennifer Yin, Jacenda L. Rangel, Madeleine R. Landry, Amelia A. Fuller, Grace Y. Stokes

Chemistry and Biochemistry

The first report of a water-soluble peptoid adsorbed to silica monitored by second harmonic generation (SHG) at the liquid/solid interface is presented here. The molecular insights gained from these studies will inform the design and preparation of novel peptoid coatings. Simple 6- and 15-residue peptoids were dissolved in phosphate buffered saline and adsorbed to bare silica surfaces. Equilibrium binding constants and relative surface concentrations of adsorbed peptoids were determined from fits to the Langmuir model. Complementary fluorescence spectroscopy studies were used to quantify the maximum surface excess. Binding constants, determined here by SHG, were comparable to those previously reported for …

Green Chemistry: Progress And Barriers, Sarah A. Green

Michigan Tech Publications, Part 1

Green chemistry can advance both the health of the environment and the primary objectives of the chemical enterprise: to understand the behavior of chemical substances and to use that knowledge to make useful substances. We expect chemical research and manufacturing to be done in a manner that preserves the health and safety of workers; green chemistry extends that expectation to encompass the health and safety of the planet. While green chemistry may currently be treated as an independent branch of research, it should, like safety, eventually become integral to all chemistry activities. While enormous progress has been made in shifting …

Highly Selective Halide Receptors Based Upon Chalcogen, Pnicogen, And Tetrel Bonds, Steve Scheiner

Chemistry and Biochemistry Faculty Publications

The interactions of halides with a number of bipodal receptors are examined via quantum chemical methods. The receptors are based upon a dithieno thiophene framework in which two S atoms can engage in a pair of chalcogen bonds with a halide. These two S atoms are replaced by P and As atoms to compare chalcogen with pnicogen bonding, and by Ge which engages in tetrel bonds with the receptor. Zero, one, and two O atoms are added to the thiophene S atom which is not directly involved in the interaction with the halides. Fluoride is bound the most strongly, followed …

Recent Approaches In Designing Bioadhesive Materials Inspired By Mussel Adhesive Protein, Pegah Kord Forooshani, Bruce P. Lee

Department of Biomedical Engineering Publications

Marine mussels secret protein-based adhesives, which enable them to anchor to various surfaces in a saline, intertidal zone. Mussel foot proteins (Mfps) contain a large abundance of a unique, catecholic amino acid, Dopa, in their protein sequences. Catechol offers robust and durable adhe-sion to various substrate surfaces and contributes to the curing of the adhesive plaques. In this article, we review the unique features and the key functionalities of Mfps, catechol chemistry, and strategies for preparing catechol-functionalized poly- mers. Specifically, we reviewed recent findings on the contributions of various features of Mfps on interfacial binding, which include coacervate formation, surface …

Atomic Tiles: Manipulative Resources For Exploring Bonding And Molecular Structure, Alan L. Kiste, Rebecca G. Hooper, Gregory E. Scott, Seth Bush

Chemistry and Biochemistry

A simple manipulative resource, Atomic Tiles, is described for scaffolding the learning of Lewis structures without using algorithmic, rule-based methods of drawing. Students use Atomic Tiles to (1) create models of bonding that lead to drawing Lewis structures, (2) use the structures they create to infer patterns required for rational structures and common organic functional groups, (3) translate between Lewis structures and molecular models, and (4) use molecular models to identify isomers.

The Structure Of The Antibiotic Deactivating, N-Hydroxylating Rifampicin Monooxygenase, Li Kai Liu, Heba Abdelwahab, Julia S. Martin Del Campo, Ritcha Mehra-Chaudhary, Pablo Sobrado, John J. Tanner

Chemistry Faculty Research & Creative Works

Rifampicin monooxygenase (RIFMO) catalyzes the N-hydroxylation of the natural product antibiotic rifampicin (RIF) to 2′-N-hydroxy-4-oxo-rifampicin, a metabolite with much lower antimicrobial activity. RIFMO shares moderate sequence similarity with well characterized flavoprotein monooxygenases, but the protein has not been isolated and characterized at the molecular level. Herein, we report crystal structures of RIFMO from Nocardia farcinica, the determination of the oligomeric state in solution with small angle x-ray scattering, and the spectrophotometric characterization of substrate binding. The structure identifies RIFMO as a class A flavoprotein monooxygenase and is similar in fold and quaternary structure to MtmOIV and OxyS, which are enzymes …

The Missing Electrostatic Interactions Between Dna Substrate And Sulfolobus Solfataricus Dna Photolyase: What Is The Role Of Charged Amino Acids In Thermophilic Dna Binding Proteins?, Yvonne Gindt, Ban H. Edani, Antonia Olejnikova, Ariana N. Roberts, Sudipto Munshi, Robert J. Stanley

Department of Chemistry and Biochemistry Faculty Scholarship and Creative Works

DNA photolyase can be used to study how a protein with its required cofactor has adapted over a large temperature range. The enzymatic activity and thermodynamics of substrate binding for protein from Sulfolobus solfataricus were directly compared to protein from Escherichia coli. Turnover numbers and catalytic activity were virtually identical, but organic cosolvents may be necessary to maintain activity of the thermophilic protein at higher temperatures. UV-damaged DNA binding to the thermophilic protein is less favorable by ∼2 kJ/mol. The enthalpy of binding is ∼10 kJ/mol less exothermic for the thermophile, but the amount and type of surface area buried …

Synthesis And Characterization Of Polycyclic Aromatic Hydrocarbon ( Pah )-Porphyrin Hybrids, Ruixiao Gao

Theses and Dissertations

Carbaporphyrins are porphyrin analogs where one or more pyrrole units are replaced with a carbocyclic ring. Benziporphyrins are porphyrin analogues with a 1,3-phenylene unit replacing one of the pyrrole subunits. Because of cross-conjugation, benziporphyrins are not aromatic species. However, protonation of benziporphyrins can afford some aromatic characteristics. Although the synthesis of many examples of monocarbaporphyrins have been successfully executed, no examples of porphyrinoids with pyrene subunits have been prepared. Pyrene-containing porphyrinoids, which have been named as pyreniporphyrins, are theoretically significant molecules that provide insights into the aromaticity and reactivity of porphyrinoid systems.

In this thesis, two projects were conducted to …

Fluselenamyl: A Novel Benzoselenazole Derivative For Pet Detection Of Amyloid Plaques (Aβ) In Alzheimer's Disease, Nigam Rath, G.S.M. Sundaram, Dhruva Dhavale, Julie Prior, Ping Yan, John Cirrito, Richard Laforest, Nigel Cairns, Jin-Moo Lee, Paul Kotzbauer, Vijay Sharma

Chemistry & Biochemistry Faculty Works

Fluselenamyl (5), a novel planar benzoselenazole shows traits desirable of enabling noninvasive imaging of Aβ pathophysiology in vivo; labeling of both diffuse (an earlier manifestation of neuritic plaques) and fibrillar plaques in Alzheimer’s disease (AD) brain sections, and remarkable specificity for mapping Aβ compared with biomarker proteins of other neurodegenerative diseases. Employing AD homogenates, [18F]-9, a PET tracer demonstrates superior (2–10 fold higher) binding affinity than approved FDA tracers, while also indicating binding to high affinity site on Aβ plaques. Pharmacokinetic studies indicate high initial influx of [18F]-9 in normal mice brains accompanied by rapid clearance in the absence of …

Chemistry Department Newsletter 2016, Ken Overway

Chemistry Department Newsletters

This document contains a summary of news and events from the chemistry department from the 2015-2016 academic year.

The Coastal Monitor: Vol. 1, No. 3, John Tanacredi Ph.D.

The Coastal Monitor

Each fall I teach a course in “Ecology” and in the spring, “Marine Biology”; two seminal courses absolutely necessary and required to complete a BS Degree in Earth and Environmental Studies at Molloy College. To a large extent I draw on my 48 years of life experiences; flight meteorologist, “Hurricane Hunter” in the US Navy (1968-1970), environmental impact analyst with the US Coast Guard’s Bridge Administration on Governors Island (1974-1978); Coastal Barrier Parks Coordinator and Research Ecologist with the National Park Service (1978-2001); Research Associate in the Invertebrate Zoology Department at the American Museum of Natural History(1982-2000); Chairman Department of …

The Periodical Fall 2016, Southern Adventist University

the Periodical – Chemistry Department Newsletter

Volume 4, issue 1 of the Periodical includes articles about renovations to the Chemistry and Math departments, a chemistry professor conference, the high school forensic chemistry academic summer camp, an alumni spotlight, and a pictorial listing of December 2016 graduates.

Feasibility Of The Use Of Neutron Activation Analysis Techniques In An Underwater Environment, Michael D. Chick

Masters Theses & Specialist Projects

Elements when bombarded with neutrons emit a gamma ray that is characteristic of the isotope that underwent a neutron induced nuclear reaction; this is known as neutron activation. The characteristic gamma energy of an isotope can then be detected and recorded. One can then analyze the gamma energies captured and determine the elemental makeup of the sample. This form of analysis can be used in an underwater environment making it potentially a valuable tool for agencies tasked with maritime security of ports and waterways, or clean-up operations. This thesis will focus on the feasibility of neutron interrogation using pulsed fast/thermal …

Metal-Organic Hybrid Nanocomposites For Energy Harvesting Applications, Thulitha Madawa Abeywickrama

Masters Theses & Specialist Projects

Various synthetic methods have been developed to produce metal nanostructures including copper and iron nanostructures. Modification of nanoparticle surface to enhance their characteristic properties through surface functionalization with organic ligands ranging from small molecules to polymeric materials including organic semiconducting polymers is a key interest in nanoscience. However, most of the synthetic methods developed in the past depend widely on non-aqueous solvents, toxic reducing agents, and high temperature and high-pressure conditions. Therefore, to produce metal nanostructures and their nanocomposites with a simpler and greener method is indeed necessary and desirable for their nano-scale applications. Hence the objective of this thesis …

Development Of Dihydrochalcone Functionalized Gold Nanoparticles For Augmented Antineoplastic Activity, Jason N. Payne

Masters Theses & Specialist Projects

Phloridzin, an antidiabetic and antineoplastic agent usually found in fruit trees, is a dihydrochalcone constituent that has a clinical/pharmaceutical significance as a sodiumglucose linked transport 2 (SGLT2) inhibitor. Phloridzin never experienced widespread clinical usage in the pharmaceutical market due to its side effects and poor bioavailability when compared to other antidiabetic therapeutics. The poor bioavailability is primarily attributed to the degradation of the glycosidic bond of the phloridzin, resulting in the formation of phloretin, the aglycone of phloridzin and glucose. While phloretin displays a reduced capacity of SGLT2 inhibition, this nutraceutical shows enhanced antineoplastic activity in comparison to phloridzin. Gold …

Visible-Light Generation Of High-Valent Metal-Oxo Intermediates And A Biomimetic Oxidation Catalyzed By Manganese Porphyrins With Iodobenzene Diacetate, Ka Wai Kwong

Masters Theses & Specialist Projects

High-valent iron-oxo intermediates play central roles as active oxidants in enzymatic and synthetic catalytic oxidations. Many transition metal catalysts are designed for biomimetic studies of the predominant oxidation catalysts in Nature, the cytochrome P450 enzymes.

In this work, a new photochemical method to generate high-valent iron-oxo porphyrin models was discovered. As controlled by the electronic nature of porphyrin ligands, iron(IV)-oxo porphyrin radical cations (Compound I model) and iron(IV)-oxo porphyrin derivatives (Compound II model) were produced. These observations indicate that the photochemical reactions involve a heterolytic cleavage of O-Br in precursors to give a putative iron(V)-oxo intermediate, which might relax to …

The Investigation Of The Electrical Control Of Hemimicelles And Admicelles On Gold For Analyte Preconcentration, Dheyaa Hussein Al-Karawi

Masters Theses & Specialist Projects

Hemimicelles and admicelles are well-investigated wonders in modern science; they are surfactant monolayers and surface adsorbed micelles, respectively. Capacitance measurements for monitoring the formation of dodecyl sulfate (DS) surfactant monolayer on positively charged gold substrates (planar gold) and the adsorbance of 2-naphthol onto DS surfactant monolayer were performed. The investigation of the electrical control of DS at various concentrations (4, 6, 16, and 32 mM) below and above the critical micelle concentration (CMC= 8 mM) on gold surfaces for analyte preconcentration, prior to chromatographic analysis, is presented. Charged ionic surfactants, such as DS, drawn to a surface of opposite charge …

Dealloying Behavior Of Nico And Nicocu Thin Films, Benjamin Peecher, Jennifer R. Hampton

Faculty Publications

Porous metals and alloys, such as those fabricated via electrochemical dealloying, are of interest for a variety of energy applications, ranging from their potential for enhanced catalytic behavior to their use as high surface area supports for pseudocapacitor materials. Here, the electrochemical dealloying process was explored for electrodeposited binary NiCo and ternary NiCoCu thin films. For each of the four different metal ratios, films were dealloyed using linear sweep voltammetry to various potentials in order to gain insight into the evolution of the film over the course of the linear sweep. Electrochemical capacitance, scanning electron microscopy, and energy dispersive X-ray …

Responding To The U.S. Research Community's Liquid Helium Crisis, Simon R. Bare, Michael Lilly, Janie Chermak, Rod Eggert, William Halperin, Scott Hannahs, Sophia Hayes, Michael Hendrich, Alan Hurd, Mike Osofsky, Cathy Tway

Chemistry Faculty Research

An Action Plan to Preserve U.S. Innovation. This report lays out the issues facing researchers who use liquid helium and the negative impact on U.S. innovation. The report then proposes five key steps that will have a transformative effect on the ability to maintain the ready availability of helium and ensure the vibrancy of the U.S. low-temperature research capability. These recommendations focus on: conservation of helium use; a mechanism to pay for the capital investment required for helium recycling; a mechanism to ensure an appropriate price is paid by researchers for helium; and a methodology which allows researchers to best …

Mechanism Of Rifampicin Inactivation In Nocardia Farcinica, Heba Abdelwahab, Julia S.Martin Del Campo, Yumin Dai, Camelia Adly, Sohby El-Sohaimy, Pablo Sobrado

Chemistry Faculty Research & Creative Works

A novel mechanism of rifampicin (Rif) resistance has recently been reported in Nocardia farcinica. This new mechanism involves the activity of rifampicin monooxygenase (RifMO), a flavin-dependent monooxygenase that catalyzes the hydroxylation of Rif, which is the first step in the degradation pathway. Recombinant RifMO was overexpressed and purified for biochemical analysis. Kinetic characterization revealed that Rif binding is necessary for effective FAD reduction. RifMO exhibits only a 3-fold coenzyme preference for NADPH over NADH. RifMO catalyzes the incorporation of a single oxygen atom forming an unstable intermediate that eventually is converted to 20-N-hydroxy-4-oxo-Rif. Stable C4a-hydroperoxyflavin was not detected by rapid …

An Investigation Of The Requirements For Excimer Formation And Charge Stabilization In Model Pi-Stacked Assemblies, Brandon Uhler

Dissertations (1934 -)

Formation of -stacked excimers plays an important role in many systems, ranging from biological phenomena and polymer formation and function to photovoltaic devices and organic molecular electronics. In these systems, the geometrical reorganization of the ground state upon photoexcitation is still a subject of debate. In this work, we compare the dynamics of excimer formation and hole (charge) stabilization in fluorene and fluorene-based model systems. We use a variety of gas-phase methods to examine the spectroscopy and dynamics of these systems, including Two-Color Resonant Two-Photon Ionization (2CR2PI), Hole-Burning (HB), Laser Induced Fluorescence (LIF), and Dispersed Fluorescence (DF). In order to …

Quantitative Analysis Of Acetylsalicylic Acid By Q-Nmr (Quantitative-Nuclear Magnetic Resonance Spectroscopy), Charles Flemming Jr.

All Student Theses and Dissertations

Quantitative analysis is an important step during pharmaceutical drug development. Currently, the pharmaceutical industry uses high performance liquid chromatography (HPLC) for quantitative analysis of organic compounds as the preferred technique. The proton nuclear magnetic resonance (NMR) technique has an inherent ability to quantify a given analyte and may be used to quantify organic compounds. Quantitative nuclear magnetic resonance spectroscopy (q-NMR) of acetylsalicylic acid (ASA) was conducted using tert-butyl alcohol (tert-butanol) as the internal standard and deuterated chloroform (CDCl₃) as the solvent. Preparations of ASA solutions in low and high concentration ranges, 1.0 mM – 10.1 …

Bioenergetics: Experimental Demonstration Of Excess Protons And Related Features, Haitham A. Saeed

Chemistry & Biochemistry Theses & Dissertations

Over the last 50 years, ever since the Nobel-prize work of Peter Mitchell’s Chemiosmotic theory, the question whether bioenergetics energy transduction occurs through localized or delocalized protons has been a controversial issue among scientists. Recently, a proton-electrostatics localization hypothesis was formulated which may provide a new and clear understanding of localized and delocalized proton-coupling energy transduction in many biological systems. The aim of this dissertation was to test this new hypothesis.

To demonstrate the fundamental behavior of localized protons in a pure water-membrane-water system in relation to the newly derived pmf equation, excess protons and excess hydroxyl anions were generated …

Electrochemical Nanoprobes For Electron Transfer Kinetics And Electrocatalysis Study, Yun Yu

Dissertations, Theses, and Capstone Projects

The studies of electrochemical processes on the nanoscale have led to a significant progress in understanding of electrochemical mechanisms and characterization of nanomaterials in the fields of energy, catalysis, and biological research. Electrochemical experiments at nanoscale require the fabrication and characterization of nanometer-sized electrochemical probes. The main advantages of the nanoprobes include very fast mass-transfer rate, high signal-to-noise ratio and extremely fine spatial resolution of electrochemical imaging. In the course of my Ph.D. research, different types of electrochemical probes were developed for measuring electron-transfer kinetics, probing single catalytic nanoparticles and sampling ultra-small volume of liquids.

We developed methodologies to fabricate …