Chemistry Commons^™

Molecular Sensitivity And Selectivity Of Metal Nanoparticles Decorated Graphene As ‘Smart’ Surface-Enhanced Raman Scattering (Sers) Platforms [Hybrid Poster 1-A], Alexander Banaszak, Tyler Smith

Posters-at-the-Capitol

Raman scattering signal enhancement that uses graphene as support, graphene-enhanced Raman scattering (GERS), is a recent phenomenon. It can produce clean and reproducible Raman signals of chemical molecules with significantly enhanced signal intensity in contrast to traditional surface- (SERS) and tip- enhanced Raman scattering (TERS) techniques. While enhancement in SERS and TERS arise due to the electromagnetic mechanism, GERS also relies on a chemical mechanism and therefore shows unique molecular sensitivity and selectivity. In this work, we developed graphene materials decorated with noble metal (silver and gold) nanoparticles for detection of different chemical molecules e.g. methylene blue (MB) and rhodamine …

Enriching Health-Related Research Through Glycobiological Approaches, Tarun K. Dam

TechTalks

In the Laboratory of Mechanistic Glycobiology at Michigan Technological University, we have been working in four distinct but related areas. Our findings can significantly influence human health-related research. (1) We have documented a molecular strategy that can improve drug designing. (2) We have shown that the tumor-associated protein galectin-3 can create problems in cancer biomarker assays by hiding the biomarkers. (3) In another project, we reported that the role of galectin-3 in cancer could be more complicated than what is reported in the literature. (4) Our team also detected a novel natural product with anti-fungal and anti-cancer activities.

Introducing The New 2d-Liquid Chromatograph And High-Resolution Mass Spectrometer In The Chemical Advanced Resolution Methods (Charm) Core Facility At Michigan Tech, Lynn Mazzoleni

TechTalks

A Thermo Scientific Orbitrap Elite Mass Spectrometer (high-resolution Orbitrap Elite MS) and a Dionex UltiMate 3000 two-dimensional liquid chromatographic (2d LC) system were recently acquired. The Orbitrap Elite MS is a hybrid instrument, which includes a dual pressure linear ion trap MS and a compact high-field Orbitrap MS. The instrument design enables high-quality, fast MSn characterization with ultrahigh resolution measurements (R = 240,000 at m/z 400) for mass measurements with less than 1 ppm mass error. Therefore, the instrument has the qualitative capability to identify molecular formulas and structure and, when paired with modern chromatography, provides quantitative assessment of analytes. …

Molecules, Surfaces, Crystals: A Quantum Chemical Quest From Fundamentals To Applications, Loredana Valenzano

TechTalks

My research focuses on applying fundamental laws governing the behavior of molecules and materials to predict their real-world performance. Using state-of-the-art quantum chemical approaches as my tool set, I computationally model a wide range of molecular and condensed-matter systems: explosives, pharmaceuticals, porous materials, catalysts, nanomaterials, polymers, soft-matter, films, membranes, surfaces, interfaces, layered materials; hybrid systems: molecules interacting with substrates; and, their properties: structural, energetic, vibrational, electronic, mechanical, adsorption, diffusion. Chemical processes such as reactivity and the change of properties after exposure to external agents (e.g. durability) can also be explored. The results of my investigations can contribute to speeding up, …

Hydrolytic And Nonhydrolytic Sol-Gel Zirconia-, Titania-, And Niobia-Based Capillary Microextraction Coatings For The Preconcentration And Hplc Analysis Of Catecholamine Neurotransmitters And Phosphorylated Peptides, Abdullah Awadh Alhendal

USF Tampa Graduate Theses and Dissertations

Sample preparation is the most error-prone step in chemical analysis. A great deal of efforts has been made to develop efficient techniques and protocols for sample preparation to accomplish important goals such as miniaturization and implementation of green analytical methodologies. Solid-phase microextraction (SPME) has successfully eliminated the use of hazardous organic solvents in extraction sampling, sample preparation, preconcentration and sample introduction to the analytical instrument in an effective manner. Ensuring thermal- and solvent-instability of traditional SPME extraction phases represented one of their main drawbacks. This was solved by the introduction of sol-gel SPME phases characterized by enhanced thermal-, solvent-, and …

Development And Application Of An Expanded Streptomyces Genetic Code, Jingxuan He

Chemistry and Chemical Biology ETDs

Actinobacteria, especially those of genus Streptomyces, are a prominent source of bioactive natural products. The ability to site-specifically incorporate unnatural amino acids (UAAs) into natural product biosynthetic enzymes and ribosomally derived peptides in these organisms would constitute a valuable tool for drug discovery and development. The work described in this dissertation focuses on development and application of an expanded Streptomyces genetic code, including development of UAA incorporation systems based on amber suppression and sense codon reassignment, structural diversification of the model thiopeptide natural product thiostrepton using UAAs, and mapping protein-protein interactions in type II polyketide biosynthetic enzymes using photocrosslinking …

Development Of In Vivo Systems For Detecting And Studying Ribosome Inhibition By Small Molecules, Shijie Huang

Chemistry and Chemical Biology ETDs

The ribosome is the quintessential antibacterial drug target, with many structurally and mechanistically distinct classes of antibacterial agents acting by inhibiting ribosome function. Detecting and quantifying ribosome inhibition by small molecules and investigating their binding modes and mechanisms of action are critical to antibacterial drug discovery and development efforts. To develop a ribosome inhibition assay that is operationally simple, yet provides direct information on the drug target and the mechanism of action, we have developed engineered E. coli strains harboring an orthogonal ribosome controlled green fluorescent protein reporter that produce fluorescent signal when the O-ribosome is inhibited. As a proof …

Engineering Small Molecule Based Dimerization To Induce Translation And Provide Optogenetic Control, Catherine Wright

Chemistry and Chemical Biology ETDs

We wanted to develop a system that combines the spatial control of photoactivation and control of translation to build a tool to spatially control translation in neurons. This kind of tool could be used to investigate the role of spatially controlled translation of any protein in neural behavior. In this way the development and growth of neural processes could be studied to elucidate the mechanisms for spatially sensitive events such as pathfinding, repair, or long-term potentiation.

Chemically induced dimerization was used to install a switch into the activation of translation for specific genes. An abscisic acid (ABA) dependent dimerization of …

Peridynamic Modeling Of Ruptures In Biomembranes, Michael Taylor, Irep Gözen, Samir Patel, Aldo Jesorka, Katia Bertoldi

Mechanical Engineering

We simulate the formation of spontaneous ruptures in supported phospholipid double bilayer membranes, using peridynamic modeling. Experiments performed on spreading double bilayers typically show two distinct kinds of ruptures, floral and fractal, which form spontaneously in the distal (upper) bilayer at late stages of double bilayer formation on high energy substrates. It is, however, currently unresolved which factors govern the occurrence of either rupture type. Variations in the distance between the two bilayers, and the occurrence of interconnections (“pinning sites”) are suspected of contributing to the process. Our new simulations indicate that the pinned regions which form, presumably due to …

Band Gap Modulation In Polythiophene And Polypyrrolebased Systems, Thaneshwor P. Kaloni, Georg Schreckenbach, Michael S. Freund

Chemistry and Chemical Engineering Faculty Publications

In this paper, the structural and electronic properties of polythiophene and polyprrrole-based systems have been investigated using first-principles calculations both in periodic and oligomer forms. Of particular interest is the band gap modulation through substitutions and bilayer formation. Specifically, S has been substituted by Se and Te in polythiophene, leading to polyseleophene and polytellurophene, respectively, and N has been substituted by P and As in polypyrrole. The values obtained of the binding energy suggest that all the systems studied can be realized experimentally. Stacking (bilayer formation) of pure polythiophene, polypyrrole and their derivatives leads to linear suppression of the band …

Critical Role Of The Secondary Binding Pocket In Modulating The Enzymatic Activity Of Dusp5 Toward Phosphorylated Erks, Marat R. Talipov, Jaladhi Nayak, Michael Lepley, Robert D. Bongard, Daniel Sem, Ramani Ramchandran, Rajendra Rathore

Chemistry Faculty Research and Publications

DUSP5 is an inducible nuclear dual-specificity phosphatase that specifically interacts with and deactivates extracellular signal-regulated kinases ERK1 and ERK2, which are responsible for cell proliferation, differentiation, and survival. The phosphatase domain (PD) of DUSP5 has unique structural features absent from other nuclear DUSPs, such as the presence of a secondary anion-binding site in the proximity of the reaction center and a glutamic acid E264 positioned next to the catalytic cysteine C263, as well as a remote intramolecular disulfide linkage. The overall 400 ns molecular dynamics simulations indicate that the secondary binding site of DUSP5 PD acts as an allosteric regulator …

Size And Site Dependence Of The Catalytic Activity Of Iridium Clusters Towards Ethane Dehydrogenation, Yingbin Ge, Hao Jiang, Russell Kato, Prasuna Gummagatta

All Faculty Scholarship for the College of the Sciences

This research focuses on optimizing transition metal nanocatalyst immobilization and activity to enhance ethane dehydrogenation. Ethane dehydrogenation, catalyzed by thermally stable Ir_n (n = 8, 12, 18) atomic clusters that exhibit a cuboid structure, was studied using the B3LYP method with triple-ζ basis sets. Relativistic effects and dispersion corrections were included in the calculations. In the dehydrogenation reaction Ir_n + C₂H₆ → H−Ir_n−C₂H₅ → (H)₂−Ir_n−C₂H₄, the first H-elimination is the rate-limiting step, primarily because the reaction releases sufficient heat to facilitate …

P-26 Detection Of Counterfeit Antimalarial Drugs By Sers, Getahun Merga, P. Shepard, M. Trujillo, J. Camden

Celebration of Research and Creative Scholarship

Substandard antimalarial drugs are a major problem to the health of citizens in developing countries, and it is likely that the problem persists due to the lack of means to detect substandard drugs. Various colorimetric techniques have been implemented to determine if a drug contains the stated active ingredient or not, but vibrational spectroscopies such as NIR and Raman can be used to more reliably quantify the amount of active ingredient. The use of Raman, however, has been limited by the presence of significant sample fluorescence that interferes with detection of the SERS signals of the active ingredients. Thus, we …

Giant Electrorheological Fluids With Ultrahigh Electrorheological Efficiency Based On A Micro/Nano Hybrid Calcium Titanyl Oxalate Composite, Jinghua Wu, Zhenyang Song, Fenghua Liu, Jianjun Guo, Yuchuan Cheng, Shengqian Ma, Gaojie Xu

Chemistry Faculty Publications

A novel micro/nanoparticle hybrid calcium titanyl oxalate electrorheological (ER) material composed of micron-sized spindly particles and nanometer-sized irregular particles was successfully fabricated. The giant ER fluid based on the composite exhibits enhanced not only yield stress but also low field-off viscosity, thereby resulting in an ultrahigh ER efficiency that greatly exceeds that of any existing giant ER (GER) material. The synergistic effect between the spindly microparticles and irregular nanoparticles discovered in this study suggests a promising method for solving the long-standing ER efficiency problems. Moreover, the one-step synthesis approach presented in this work can be readily expanded for mass production …

Synthesis And Characterization Of Novel Polyurethanes And Polyimides, Kenneth Kull

USF Tampa Graduate Theses and Dissertations

Four novel high performance soft thermoplastic polyurethane elastomers utilizing methylene bis(4-cyclohexylisocyanate) as a hard segment, 1,4 butanediol as a chain extender and modified low crystallinity carbonate copolymer as a soft segment were synthesized. The samples were characterized by infrared spectroscopy (FTIR), tensile, elongation, hardness, abrasion resistance and atomic force microscopy (AFM). SAXS data shows evidence of an interdomain "center-to-center" distance of 45Å. DSC traces show evidence of one glass transition temperature and a weak melting region. DMA analysis reveals a low temperature secondary relaxation and the glass to rubber transition followed by a rubbery plateau. All samples demonstrated the ability …

Elucidating The Effects Of Fluoro And Nitro Substituents On Halogen Bond Driven Assemblies Of Pyridyl-Capped Π-Conjugated Molecules, Suong T. Nguyen, Arnold L. Rheingold, Gregory S. Tschumper, Davita L. Watkins

Chemistry Faculty Research & Creative Works

Among recent advances toward efficient semiconducting materials, rational design guidelines have emerged focusing on the synergy between various intermolecular interactions to improve the solid-state order of π-conjugated molecules in organic electronic devices. Herein, we focus our attention on halogen bonding (XB) interactions and the crucial role of electron withdrawing substituents (e.g., nitro and fluoro) toward influencing solid-state properties via secondary interactions. Employing iodoethynyl benzene derivatives (F2BAI and (NO2)2BAI) and thiophene/furan-based building blocks equipped with pyridyl groups as self-assembling domains (PyrTF and PyrT2), co-crystals driven by XB, and π-stacking interactions were formed and studied. Spectroscopic and thermal analysis of 1:1 mixture …

The Application Of Electrochemical Impedance Spectroscopy To Immediately Diagnose The Protective Quality Of Coatings On Artistic And Architectural Metalwork, Kathryn Nicole Hosbein

Dissertations and Theses

Corrosion is a spontaneous process that causes irreversible damage to nearly all metals, which has world-wide implications for architectural and artistic metalwork, such as bridges, buildings, airplanes and sculptures. Protective coatings such as wax, paint, or polymeric clear coatings are used to prolong the lifetime of metals such as steel and bronze. Unfortunately, these coatings fail over time due to oxidative damage by UV rays and by failure to exclude water that can carry salts and pollutants that cause corrosion of the underlying substrate. The current method of coating assessment is visual inspection but when coating failure is detected at …

Molecular Tetrapods For Optoelectronic Applications, Jianzhong Yang

Chemistry and Chemical Biology ETDs

Most conjugated molecules including polymers and small molecules applied in organic solar cells (OSCs) have linear structures containing multiple aromatic groups connected in series. However, unfavorable film forming ability and grain boundaries both originated from high crystallinity of linear small molecules are detrimental to device performances. Thus, among multi-dimensional structures, tetrapodal molecules are especially interesting owing to their unique ability to mutually interlock, which prevents dislodging and provides high structural stabilities. Such molecular design can also increase absorption cross-sections and provide more extensively percolating pathways for charge transport, making such molecular tetrapods promising in OSCs applications. In my dissertation, I …

Towards An Understanding Of The Propensity For Crystalline Hydrate Formation By Molecular Compounds, Alankriti Bajpai, Hayley S Scott, Tony Pham, Kai-Jie Chen, Brian Space, Matteo Lusi, Miranda L Perry, Michael J Zaworotko

Chemistry Faculty Publications

Hydrates are technologically important and ubiquitous yet they remain a poorly understood and understudied class of molecular crystals. In this work, we attempt to rationalize propensity towards hydrate formation through crystallization studies of molecules that lack strong hydrogen-bond donor groups. A Cambridge Structural Database (CSD) survey indicates that the statistical occurrence of hydrates in 124 molecules that contain five- and six-membered N-heterocyclic aromatic moieties is 18.5%. However, hydrate screening experiments on a library of 11 N-heterocyclic aromatic compounds with at least two acceptor moieties and no competing hydrogen-bond donors or acceptors reveals that over 70% of this group …

Version 1.3 Aim Sofie Measured Methane (Ch4): Validation And Seasonal Climatology, P. P. Rong, J. M. Russell Iii, B. T. Marshall, D. E. Siskind, M. E. Hervig, L. L. Gordley, P. F. Bernath, K. A. Walker

Chemistry & Biochemistry Faculty Publications

The V1.3 methane (CH₄) measured by the Aeronomy of Ice in the Mesosphere (AIM) Solar Occultation for Ice Experiment (SOFIE) instrument is validated in the vertical range of ~25–70 km. The random error for SOFIE CH₄ is ~0.1–1% up to ~50 km and degrades to ~9% at ∼ 70 km. The systematic error remains at ~4% throughout the stratosphere and lower mesosphere. Comparisons with CH₄ data taken by the SCISAT Atmospheric Chemistry Experiment-Fourier Transform Spectrometer (ACE-FTS) and the Envisat Michelson Interferometer for Passive Atmospheric Sounding (MIPAS) show an agreement within ~15% in the altitude range ~30–60 …

Structural Elements Of An Nrps Cyclization Domain And Its Intermodule Docking Domain, Daniel P. Dowling, Yan Kung, Anna K. Croft, Koli Taghizadeh, Wendy L. Kelly, Christopher T. Walsh, Catherine L. Drennan

Chemistry Faculty Research and Scholarship

Epothilones are thiazole-containing natural products with anticancer activity that are biosynthesized by polyketide synthase (PKS)-nonribosomal peptide synthetase (NRPS) enzymes EpoA–F. A cyclization domain of EpoB (Cy) assembles the thiazole functionality from an acetyl group and L-cysteine via condensation, cyclization, and dehydration. The PKS carrier protein of EpoA contributes the acetyl moiety, guided by a docking domain, whereas an NRPS EpoB carrier protein contributes L-cysteine. To visualize the structure of a cyclization domain with an accompanying docking domain, we solved a 2.03-Å resolution structure of this bidomain EpoB unit, comprising residues M1-Q497 (62 kDa) of the 160-kDa EpoB protein. We find …

Synthesis Of Orthogonally Protected Thioamide Dipeptides For Use In Solid-Phase Peptide Synthesis, Fintan Kelleher, Kim Manzor

Articles

Orthogonally protected thioamide-containing dipeptides were efficiently and cleanly prepared from the precursor dipeptides using Curphey’s method (P₄S₁₀, hexamethyldisiloxane (HMDO), reflux, DCM) in 67-96% isolated yield. This was in contrast to the use of Lawesson’s or Berzelius’ reagents where significant issues with reaction non-completion, decomposition and purification were observed. Subsequent clean removal of the dipeptides’ t-butyl ester protecting groups gave thioamide dipeptide acids which were suitable for use in solid-phase peptide synthesis (SPPS).

Thermolysis Of Hypervalent Iodine Complexes: Synthesis Of Fluorinated Radiotracers For Positron Emission Tomography And Synthesis Of Quaternary Α-Alkyl Α-Aryl Amino Acids, Jayson J. Kempinger

Department of Chemistry: Dissertations, Theses, and Student Research

Hypervalent iodine complexes can be used to deliver a variety of functional groups to arenes. Delivery of fluorine‑18, in a manner compatible with positron emission tomography (PET), is especially attractive. Vizamyl^TM, an injectable solution of [¹⁸F]Flutemetamol, is currently used to diagnose and monitor the progression of Alzheimer’s Disease (AD), the most common form of dementia. AD affects 47.5 million people across the world as of 2015, and is projected to affect 1 in 85 people by 2050. An improved radiosynthesis of [¹⁸F]Flutemetamol via a diaryliodonium salt is described. The use of nonpolar solvents minimizes …

Self-Aligned Carbon Nanotube Yarns For Multifunctional Optoelectronic Applications, Mohammed Uddin, Glenn Grissom, Miguel Leal, Veronica Galvez, Tarek Trad, Ahmed Touhami, Nazmul Islam, Jason Parsons, H. Justin Moore

School of Integrative Biological & Chemical Sciences (Formerly Dept. of Chemistry)

In this work, the morphology and electrocatalytic features of carbon nanotube yarns at the structural level allow for enhanced photoconversion efficiency. The energy conversion of electronhole pairs within the carbon nanotube yarn (CNY) due to the functionalization with nanostructured photoactive TiO₂ phases is remarkable. A well oriented anatase TiO₂ thin layer (approximately 100 nm) forms at the interfaces of CNY and TiO₂ mesoporous film when the sample is precoated and annealed at 350ºC. Field Emission Scanning Electron Microscopy (FESEM) images show the integrity and homogeneity of the TiO₂ surface, which is indicative of the overall durability of the CNY-based dye …

Conformational States Of Cytochrome P450 Oxidoreductase Evaluated By Förster Resonance Energy Transfer Using Ultrafast Transient Absorption Spectroscopy, Elizaveta A. Kovrigina, Brian Pattengale, Chuanwu Xia, Azamat R. Galiakhmetov, Jier Huang, Jung Ja Kim, Evgenii L. Kovrigin

Chemistry Faculty Research and Publications

NADPH-cytochrome P450 oxidoreductase (CYPOR) was shown to undergo large conformational rearrangements in its functional cycle. Using a new Förster resonance energy transfer (FRET) approach based on femtosecond transient absorption spectroscopy (TA), we determined the donor–acceptor distance distribution in the reduced and oxidized states of CYPOR. The unmatched time resolution of TA allowed the quantitative assessment of the donor–acceptor FRET, indicating that CYPOR assumes a closed conformation in both reduced and oxidized states in the absence of the redox partner. The described ultrafast TA measurements of FRET with readily available red–infrared fluorescent labels open new opportunities for structural studies in chromophore-rich …

Imparting Amphiphobicity On Single-Crystalline Porous Materials., Qi Sun, Hongming He, Wen-Yang Gao, Briana Aguila, Lukasz Wojtas, Zhifeng Dai, Jixue Li, Yu-Sheng Chen, Feng-Shou Xiao, Shengqian Ma

Chemistry Faculty Publications

The sophisticated control of surface wettability for target-specific applications has attracted widespread interest for use in a plethora of applications. Despite the recent advances in modification of non-porous materials, surface wettability control of porous materials, particularly single crystalline, remains undeveloped. Here we contribute a general method to impart amphiphobicity on single-crystalline porous materials as demonstrated by chemically coating the exterior of metal-organic framework (MOF) crystals with an amphiphobic surface. As amphiphobic porous materials, the resultant MOF crystals exhibit both superhydrophobicity and oleophobicity in addition to retaining high crystallinity and intact porosity. The chemical shielding effect resulting from the amphiphobicity of …

The “Phunger Games”: Manuscript Review To Assess Graduating Chemistry Majors, David J. Gorin, Elizabeth R. Jamieson, Kate Queeny, Kevin M. Shea, Carrie G. Read Spray

Chemistry: Faculty Publications

Numerous options exist to assess student performance using standardized, multiple-choice exams at the course and department levels. This paper describes the development and implementation of an alternative department-level assessment for graduating chemistry majors. The assessment detailed here evaluates students’ ability to transfer chemical knowledge from their classes to a real life application, namely the review of a scientific paper. Working in groups of three with full access to reference materials, students review a paper intentionally doctored by the faculty to contain a variety of errors. Student groups identify and correct mistakes in a paper with content spanning numerous chemistry subdisciplines. …

Metal-Organic Frameworks As Potential Platforms For Carbon Dioxide Capture And Chemical Transformation, Wenyang Gao

USF Tampa Graduate Theses and Dissertations

The anthropogenic carbon dioxide (CO₂) emission into the atmosphere, mainly through the combustion of fossil fuels, has resulted in a balance disturbance of the carbon cycle. Overwhelming scientific evidence proves that the escalating level of atmospheric CO₂ is deemed as the main culprit for global warming and climate change. It is thus imperative to develop viable CO₂ capture and sequestration (CCS) technologies to reduce CO₂ emissions, which is also essential to avoid the potential devastating effects in future. The drawbacks of energy-cost, corrosion and inefficiency for amine-based wet-scrubbing systems which are currently used in industry, …

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 …

Special Issue On Energy Electrochemical Materials, Jun Chen

Journal of Electrochemistry

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