Chemistry Commons^™

Ruggedized Color Measurement For Beer, Wort, And Malt, Roger Barth, Randall H. Reiger, Yuki Kim

Chemistry Faculty Publications

The standard instrument for measuring malt, wort, and beer color is the spectrophotometer. Spectrophotometers are not rugged; they have critically aligned collimators, monochromators, lenses, slits, and mirrors that make them difficult to use and maintain in a production environment. Our research shows that wort and beer color can be measured accurately with rugged equipment based on light emitting diodes (LEDs) with results in agreement with those of a spectrophotometer. Two or more colored diodes were used. LED-based apparatus does not require critical alignment, is not highly sensitive to environmental conditions such as temperature, moisture, dust, and vibration, and can be …

Feasibility Of Modifying Existing Chemistry Demonstrations By Using Substitute Materials, Dane Mykel M. Quiambao, Armando M. Guidote Jr, Rhodora F. Nicdao

Chemistry Faculty Publications

This study aimed to reiterate the use of Chemistry demonstrations as effective teaching tools to students while addressing some of its drawbacks, which discourages teachers from doing them such as cost and safety. Four chosen existing Chemistry demonstrations (Blue Bottle Experiment, Copper Sulfate Experiment, Blown Away, Dancing Flames) were modified by using substitute reagents, which are more accessible, relatively safer, and at lower cost. These demonstrations were chosen based on how easily the substitute reagents will be obtained. Afterwards, with the permission of a private junior high school, they were presented to a group of Grade 9 students of their …

Mitochondrial Oxidative And Nitrosative Stress And Alzheimer Disease, D. Allan Butterfield, Debra Boyd-Kimball

Chemistry Faculty Publications

Oxidative and nitrosative stress are widely recognized as critical factors in the pathogenesis and progression of Alzheimer disease (AD) and its earlier stage, amnestic mild cognitive impairment (MCI). A major source of free radicals that lead to oxidative and nitrosative damage is mitochondria. This review paper discusses oxidative and nitrosative stress and markers thereof in the brain, along with redox proteomics, which are techniques that have been pioneered in the Butterfield laboratory. Selected biological alterations in—and oxidative and nitrosative modifications of—mitochondria in AD and MCI and systems of relevance thereof also are presented. The review article concludes with a section …

The Bach1/Nrf2 Axis In Brain In Down Syndrome And Transition To Alzheimer Disease-Like Neuropathology And Dementia, Marzia Perluigi, Antonella Tramutola, Sara Pagnotta, Eugenio Barone, D. Allan Butterfield

Chemistry Faculty Publications

Down syndrome (DS) is the most common genetic cause of intellectual disability that is associated with an increased risk to develop early-onset Alzheimer-like dementia (AD). The brain neuropathological features include alteration of redox homeostasis, mitochondrial deficits, inflammation, accumulation of both amyloid beta-peptide oligomers and senile plaques, as well as aggregated hyperphosphorylated tau protein-containing neurofibrillary tangles, among others. It is worth mentioning that some of the triplicated genes encoded are likely to cause increased oxidative stress (OS) conditions that are also associated with reduced cellular responses. Published studies from our laboratories propose that increased oxidative damage occurs early in life in …

High-Frequency Data Reveal Differential Dissolved And Suspended Solids Behavior From A Mixed Restored Prairie And Agricultural Catchment, Andrew Miller, Ashlee L. Dere, Tracy Coleman

Chemistry Faculty Publications

Quantifying temporal variability and fluxes within hydrologic catchments is critical to understanding the underlying chemical and physical processes leading to material transport. Measuring variability and fluxes requires sampling at time scales similar to the time scale of process occurrence. This demand has led to the development of automated sampling systems designed to sample at high frequencies, on the order of minutes. While widely deployed in a variety of systems, we installed two high-frequency sampling devices in a single drainage comprised of restored prairie and agricultural land uses in temperate Eastern Nebraska. The sampling systems determined flow rate, conductivity, and turbidity …

The Bio3d Packages For Structural Bioinformatics, Barry J. Grant, Lars Skjærven, Xin-Qiu Joe Yao

Chemistry Faculty Publications

Bio3D is a family of R packages for the analysis of biomolecular sequence, structure, and dynamics. Major functionality includes biomolecular database searching and retrieval, sequence and structure conservation analysis, ensemble normal mode analysis, protein structure and correlation network analysis, principal component, and related multivariate analysis methods. Here, we review recent package developments, including a new underlying segregation into separate packages for distinct analysis, and introduce a new method for structure analysis named ensemble difference distance matrix analysis (eDDM). The eDDM approach calculates and compares atomic distance matrices across large sets of homologous atomic structures to help identify the residue wise …

Response Of Photoluminescence Of H-Terminated And Hydrosilylated Porous Si Powders To Rinsing And Temperature, Kurt W. Kolasinski, Joseph D. Swanson, Benjamin Roe, Teresa Lee

Chemistry Faculty Publications

The photoluminescence (PL) response of porous Si has potential applications in a number of sensor and bioimaging techniques. However, many questions still remain regarding how to stabilize and enhance the PL signal, as well as how PL responds to environmental factors. Regenerative electroless etching (ReEtching) was used to produce photoluminescent porous Si directly from Si powder. As etched, the material was H-terminated. The intensity and peak wavelength were greatly aected by the rinsing protocol employed. The highest intensity and bluest PL were obtained when dilute HCl(aq) rinsing was followed by pentane wetting and vacuum oven drying. Roughly half of the …

Plasma And Serum Proteins Bound To Nanoceria: Insights Into Pathways By Which Nanoceria May Exert Its Beneficial And Deleterious Effects In Vivo, D. Allan Butterfield, Binghui Wang, Peng Wu, Sarita S. Hardas, Jason M. Unrine, Eric A. Grulke, Jian Cai, Jon B. Klein, William M. Pierce, Robert A. Yokel, Rukhsana Sultana

Chemistry Faculty Publications

Nanoceria (CeO2, cerium oxide nanoparticles) is proposed as a therapeutic for multiple disorders. In blood, nanoceria becomes protein-coated, changing its surface properties to yield a different presentation to cells. There is little information on the interaction of nanoceria with blood proteins. The current study is the first to report the proteomics identification of plasma and serum proteins adsorbed to nanoceria. The results identify a number of plasma and serum proteins interacting with nanoceria, proteins whose normal activities regulate numerous cell functions: antioxidant/detoxification, energy regulation, lipoproteins, signaling, complement, immune function, coagulation, iron homeostasis, proteolysis, inflammation, protein folding, protease inhibition, adhesion, protein/RNA …

Teaching College Chemistry In The Time Of Covid-19 Pandemic: A Personal Account Of Teaching In The Old Normal Vs. The New Normal, Armando M. Guidote Jr

Chemistry Faculty Publications

The SARS CoV-2 (Severe Acute Respiratory Syndrome CoronaVirus 2), cause of COVID-19 (CoronaVirus Disease 2019) has afflicted close to 10 million people all over the world resulting to almost half a million deaths. This disease is severely contagious and necessitates social or physical distancing between persons. As such, traditional face-to-face learning is not advised and teachers need to shift to online teaching. There are challenges to online teaching and learning for students, teachers, and the higher education institute, e.g. hardware, bandwidth, and software issues. These will be difficult but these can be overcome eventually. This work is a personal account …

Conversion Between Triplet Pair States Is Controlled By Molecular Coupling In Pentadithiophene Thin Films, Natalie A. Pace, Brandon K. Rugg, Christopher H. Chang, Obadiah G. Reid, Karl J. Thorley, Sean Parkin, John E. Anthony, Justin C. Johnson

Chemistry Faculty Publications

In singlet fission (SF) the initially formed correlated triplet pair state, ¹(TT), may evolve toward independent triplet excitons or higher spin states of the (TT) species. The latter result is often considered undesirable from a light harvesting perspective but may be attractive for quantum information sciences (QIS) applications, as the final exciton pair can be spin-entangled and magnetically active with relatively long room temperature decoherence times. In this study we use ultrafast transient absorption (TA) and time-resolved electron paramagnetic resonance (TR-EPR) spectroscopy to monitor SF and triplet pair evolution in a series of alkyl silyl-functionalized pentadithiophene (PDT) thin films …

R-Silsesquioxane-Based Network Polymers By Fluoride Catalyzed Synthesis: An Investigation Of Cross-Linker Structure And Its Influence On Porosity, Nai-Hsuan Hu, Joseph C. Furgal

Chemistry Faculty Publications

Silsesquioxane-based networks are an important class of materials that have many applications where high thermal/oxidative stability and porosity are needed simultaneously. However, there is a great desire to be able to design these materials for specialized applications in environmental remediation and medicine. To do so requires a simple synthesis method to make materials with expanded functionalities. In this article, we explore the synthesis of R-silsesquioxane-based porous networks by fluoride catalysis containing methyl, phenyl and vinyl corners (R-Si(OEt)) combined with four different bis-triethoxysilyl cross-linkers (ethyl, ethylene, acetylene and hexyl). Synthesized materials were then analyzed for their porosity, surface area, thermal stability …

The Generality Of The Guga Mrci Approach In Columbus For Treating Complex Quantum Chemistry, Hans Lischka, Ron Shepard, Thomas Müller, Peter G. Szalay, Russell M. Pitzer, Adelia J. A. Aquino, Carol A. Parish, Et Al.

Chemistry Faculty Publications

The core part of the program system COLUMBUS allows highly efficient calculations using variational multireference (MR) methods in the framework of configuration interaction with single and double excitations (MR-CISD) and averaged quadratic coupled-cluster calcu- lations (MR-AQCC), based on uncontracted sets of configurations and the graphical unitary group approach (GUGA). The availability of analytic MR-CISD and MR-AQCC energy gradients and analytic nonadiabatic couplings for MR-CISD enables exciting applications including, e.g., investigations of π-conjugated biradicaloid compounds, calculations of multitudes of excited states, development of dia- batization procedures, and furnishing the electronic structure information for on-the-fly surface nonadiabatic dynamics. With fully vari- ational …

Regenerative Electroless Etching (U.S. Patent), Kurt W. Kolasinski, Jarno Salonen, Ermei Makila

Chemistry Faculty Publications

A regenerative electroless etching process produces nanostructured semiconductors in which an oxidant (Ox 1 ) is used as a catalytic agent to facilitate reaction between a semiconductor and a second oxidant (Ox2) that would be unreactive (or slowly reactive compared to Ox 1 ) in the primary reaction. Ox2 is used to regenerate Ox1 , which can initiate etching by injecting holes into the semiconductor valence band. The extent of reaction is controlled by the amount of Ox2 added; the reaction rate, by the injection rate of Ox2 . This general strategy is demonstrated specifically to produce highly luminescent nanocrystalline …

Chitosan Curcumin Film As A Sensor For Detection Of O-Nitrophenol And Fluoride Ion Using Fluoresce Quenching Technique, Soma Chakraborty, Andrea Paola D. Ilagan

Chemistry Faculty Publications

Curcumin was immobilized in chitosan films fabricated by solvent casting method. The amount of curcumin immobilization was more when methanol was used as a solvent to dissolve curcumin than the butanol solvent. The maximum amount of curcumin immobilized per gram of chitosan film was 0.023 g. Immobilized curcumin was not released back in water even after prolong contact of the films with water. Fluorescence intensity of the films got quenched when these films were in contact with an aqueous solution of o-nitrophenol (ONP) and sodium fluoride (NaF). The extent of quenching depended on the concentration of these attributes. Fluorescence intensity …

Quantitative Trait Loci (Qtl) Underlying Phenotypic Variation In Bioethanol-Related Processes In Neurospora Crassa, Joshua C. Waters, Deval Jhaveri, Justin C. Biffinger, Kwangwon Lee

Chemistry Faculty Publications

Bioethanol production from lignocellulosic biomass has received increasing attention over the past decade. Many attempts have been made to reduce the cost of bioethanol produc- tion by combining the separate steps of the process into a single-step process known as consolidated bioprocessing. This requires identification of organisms that can efficiently decompose lignocellulose to simple sugars and ferment the pentose and hexose sugars lib- erated to ethanol. There have been many attempts in engineering laboratory strains by add- ing new genes or modifying genes to expand the capacity of an industrial microorganism. There has been less attention in improving bioethanol-related processes …

Electrochemical Studies Of Cobalt(Ii) Diphenylazodioxide Complexes, Lakshmi Balarama, Kylin A. Emhoff, Ahmed M.H. Salem, Jovana Hanna, Mohamed N. Alsabony, Mekki Bayachou, Jerry Mundell, W. Christropher Boyd

Chemistry Faculty Publications

The electrochemical behavior of the unusual cobalt(II) diphenylazodioxide complex salts [Co(az)₄](PF₆)₂ 1 and [Co(bpy)(az)₂](PF₆)₂ 2 has been studied by cyclic voltammetry. Each complex displays two quasireversible redox couples, which are proposed to correspond to a reduction of Co(II) to Co(I), followed by a ligand-based reduction. Irreversible reductions of 1 are observed at more negative potentials, and are proposed to arise from deposition of elemental Co and the decomposition of transiently formed Co(-I) species. Spectroelectrochemical experiments on both 1 and 2, involving electrolytic reduction followed by reoxidation, are consistent with …

Plasma Krebs Cycle Intermediates In Nonalcoholic Fatty Liver Disease, Yana Sandlers, Rohan R. Shah, Ryan W. Pearce, Jaividhya Dasarathy, Arthur J. Mccullough, Srinivasan Dasarathy

Chemistry Faculty Publications

Nonalcoholic liver disease (NAFLD) is manifested with a wide spectrum of clinical symptoms and is closely associated with the metabolic syndrome, inflammation, and mitochondrial dysfunction. Although the mechanism of mitochondrial dysfunction in NAFLD is still not fully elucidated, multiple studies have demonstrated evidence of molecular, biochemical, and biophysical mitochondrial abnormalities in NAFLD. Given the association between NAFLD and mitochondrial dysfunction, the aim of this study is to analyze circulating levels of Krebs cycle intermediates in a cohort of NAFLD-affected individuals and matching healthy controls and to correlate our findings with the liver function metrics. Standard serum biochemistry and Krebs cycle …

Aromatic Ouroboroi: Heterocycles Involving A Sigma-Donor-Acceptor Bond And 4n+2 Pi-Electrons, Kelling J. Donald, William Tiznado, Rodrigo Baez-Grez, Diego Inostroza

Chemistry Faculty Publications

The aromaticity and dynamics of a set of recently proposed neutral 5- and 6-membered heterocycles that are closed by dative (donor–acceptor) or multi-center s bonds, and have resonance forms with a Hu¨ckel number of p-electrons, are examined. The donors and acceptors in the rings include N, O, and F, and B, Be, and Mg, respectively. The planar geometry of the rings, coupled with evidence from different measures of aromaticity, namely the NICSzz, and NICSpzz components of the conventional nucleus independent chemical shifts (NICS), and ring current strengths (RCS), indicate non-trivial degrees of aromaticity in certain cases, including the cyclic C3B2OH6 …

Aromatic Hydrazide Compounds That Inhibit The Growth Of Mycobacterium Tuberculosis, Ronald Bartzatt, Preeti Sule, Thushara Galbadage, Jeffrey D. Cirillo

Chemistry Faculty Publications

Aims: To demonstrate the efficacy of aromatic hydrazide compounds to inhibit growth of Mycobacterium tuberculosis.

Study Design: To synthesize tuberculostats and test their antibacterial activity in-vitro.

Place and Duration of Study: University of Nebraska, Durham Science Center, 6001 Dodge Street, Omaha NE 68182, and Texas A&M Health Science Center, Department of Microbial Pathogenesis and Immunology, 8447 State Hwy 47, Medical Research and Education Building, Room #3012, Bryan, TX 7780. From March 2019 to October 2019.

Methodology: Hydrazide functional groups were formed by covalently bonding hydrazine onto a carbonyl carbon that is a substituent of a single aromatic …

Cr Reprograms Acetyl-Coa Metabolism And Induces Long-Chain Acyl-Coa Dehydrogenase And Crat Expression, Volha Mezhnina, Ryan Pearce, Allan Poe, Nikkhil Velingkaar, Artem Astafev, Oghogho P. Ebeigbe, Kuldeep Makwana, Yana Sandlers, Roman V. Kondratov

Chemistry Faculty Publications

© 2020 The Authors. Aging Cell published by the Anatomical Society and John Wiley & Sons Ltd. Calorie restriction (CR), an age delaying diet, affects fat oxidation through poorly understood mechanisms. We investigated the effect of CR on fat metabolism gene expression and intermediate metabolites of fatty acid oxidation in the liver. We found that CR changed the liver acylcarnitine profile: acetylcarnitine, short-chain acylcarnitines, and long-chain 3-hydroxy-acylcarnitines increased, and several long-chain acylcarnitines decreased. Acetyl-CoA and short-chain acyl-CoAs were also increased in CR. CR did not affect the expression of CPT1 and upregulated the expression of long-chain and very-long-chain Acyl-CoA dehydrogenases …

A Protocol For Metabolic Characterization Of Human Induced Pluripotent Stem Cell-Derived Cardiomyocytes (Ips-Cm), Alisha House, Erica Fatica, Rohan Shah, Jared Stergar, Ryan Pearce, Yana Sandlers

Chemistry Faculty Publications

© 2019 The Authors Recent advances in human induced pluripotent stem cell-derived cardiomyocytes (iPSCM) field offer a novel platform for modeling cardiac metabolism, heart diseases drug candidates screening and cardiac toxicity assessments. These workflows require a fully functional characterization of iPSCMs. Here we report a step by step protocol for iPSCM metabolic characterization. The described assays cover analysis of small metabolites involved in a vital metabolic pathways.

Allylic Amination And Carbon–Carbon Double Bond Transposition Catalyzed By Cobalt(Ii) Azodioxide Complexes, Kylin A. Emhoff, Ahmed M.H. Salem, Lakshmi Balaraman, Drew M. Kingery, W. Christropher Boyd

Chemistry Faculty Publications

The unusual cobalt(II) diphenylazodioxide complex salts [Co(az)₄](PF₆)₂ and [Co(bpy)(az)₂](PF₆)₂ have been shown to catalyze the allylic amination/C–C double bond transposition reaction of 2-methyl-2-pentene with PhNHOH, with a turnover number of about 4. The mechanism is proposed to involve a nitroso-ene-like transfer of a PhNO moiety from the azodioxide ligand to the alkene, followed by reduction of the organic product to yield a cobalt(III) intermediate, which is itself reduced back to cobalt(II) by PhNHOH, regenerating PhNO. Hetero-Diels-Alder trapping experiments suggest that an “off-metal” mechanism, in which PhNO is released from the …

New Rna Research Demonstrates Prebiotic Possibility, David W. Ball

Chemistry Faculty Publications

No abstract provided.

Improving The Value Of The Coconut With Biotechnology, Fabian M. Dayrit, Quang Nguyen

Chemistry Faculty Publications

The fruit of the coconut tree is perhaps the most useful plant resource in the tropics. All parts of the coconut fruit have traditional uses that have been developed commercially in recent times (Foale 2003, Dayrit and Dayrit 2013). Due to its widespread household use, trade and industry statistics on coconut products reflect only part of the actual importance of the coconut. Today, coconut-based products have gone beyond the tropics and are consumed in many temperate countries and global regions such as Australia, China, Europe, North America, and the Middle East (Costello 2018). Coconut milk is the basic ingredient of …

Feasibility Of Cyclodextrin-Potassium Ion Assemblies Synthesis And Its Application In Loading Bio-Active Molecules, Yomkippur Perez, Gilbert U. Yu

Chemistry Faculty Publications

In the study, colorless cubic crystals of “green” cyclodextrin (CD)-based assemblies were synthesized and their potential to load bio-active molecules such as drugs and, separately, enzymes were investigated. Busulfan (Bu), an anti-cancer drug widely used to treat chronic myelogenous leukemia (CML), was used as a test drug while trypsin and lipase were used as model enzymes. These porous CD-K+ ion assemblies were prepared by dissolving alkali metal salts and γ-CD in water followed by vapor diffusion in varying solvents for several days. Crystals were activated via dichloromethane dispersion and in vacuo drying. Slow vapor diffusion with ethanol was found to …

Fabrication Of A 3d Printed Porous Junction For Ag|Agcl|Gel-Kcl Reference Electrode, Sarah May Sibug-Torres, Lance P. Go, Erwin Enriquez

Chemistry Faculty Publications

Fused filament fabrication (FFF) is a 3D printing method that is attracting increased interest in the development of miniaturized electrochemical sensor systems due to its versatility, low cost, reproducibility, and capability for rapid prototyping. A key component of miniaturized electrochemical systems is the reference electrode (RE). However, reports of the fabrication of a true 3D-printed RE that exhibits stability to variations in the sample matrix remain limited. In this work, we report the development and characterization of a 3D-printed Ag|AgCl|gel-KCl reference electrode (3D-RE). The RE was constructed using a Ag|AgCl wire and agar-KCl layer housed in a watertight 3D-printed acrylonitrile …

Biodegradability Of Single And Mixed Surfactant Formulations, Jarrent R. Tayag, Ronaldo M. Fabicon

Chemistry Faculty Publications

Even though detergent surfactants are mandated to be biodegradable, the environmental fate of these surfactants when mixed together in bodies of water is still not established. The study aimed to determine the biodegradability of NaLAS/CTAB surfactant combinations by measuring the amount of evolved CO2 which was measured using the OECD 301b procedure. The 90/10 and 10/90 NaLAS/CTAB systems showed a decline in biodegradation behaviors which were recorded as 55.88% and 40.12% biodegradation, respectively, after a 28-day monitoring period. Conductivity results revealed changes in the availability of ions in the system. An inflection point was observed at a CTAB concentration of …

One-Pot Silyl Ketene Imine Formation-Nucleophilic Addition Reactions Of Acetonitrile With Acetals And Nitrones, C. Wade Downey, Grace Ann L. Robertson, Jhonmattew Santa, Kari R. Flicker, William M. Stith

Chemistry Faculty Publications

Trimethylsilyl trifluoromethanesulfonate (TMSOTf) and a trialkylamine base promote the conversion of acetonitrile to its silyl ketene imine in situ when acetonitrile is employed as solvent. Residual TMSOTf acts as a Lewis acid catalyst to activate acetals and nitrones in the reaction mixture, yielding β-methoxynitriles and β-(silyloxy)aminonitriles, respectively. Some reaction products undergo elimination under the reaction conditions to provide the α,β-unsaturated nitrile directly.

Mild Deprotection Of The N-Tert-Butyloxycarbonyl (N-Boc) Group Using Oxalyl Chloride, Nathaniel George, Samuel Ofori, Sean R. Parkin, Samuel G. Awuah

Chemistry Faculty Publications

We report a mild method for the selective deprotection of the N-Boc group from a structurally diverse set of compounds, encompassing aliphatic, aromatic, and heterocyclic substrates by using oxalyl chloride in methanol. The reactions take place under room temperature conditions for 1–4 h with yields up to 90%. This mild procedure was applied to a hybrid, medicinally active compound FC1, which is a novel dual inhibitor of IDO1 and DNA Pol gamma. A broader mechanism involving the electrophilic character of oxalyl chloride is postulated for this deprotection strategy.

(Cyclopentadienone)Iron-Catalyzed Transfer Dehydrogenation Of Symmetrical And Unsymmetrical Diols To Lactones, Yidan Tang, Rowan I.L. Meador, Casina T. Malinchak, Emily E. Harrison, Kimberly A. Mccaskey, Melanie C. Hempel, Timothy W. Funk

Chemistry Faculty Publications

Air-stable iron carbonyl compounds bearing cyclopentadienone ligands with varying substitution were explored as catalysts in dehydrogenative diol lactonization reactions using acetone as both the solvent and hydrogen acceptor. Two catalysts with trimethylsilyl groups in the 2- and 5-positions, [2,5-(SiMe3)2-3,4-(CH2)4(η4-C4C═O)]Fe(CO)3 (1) and [2,5-(SiMe3)2-3,4-(CH2)3(η4-C4C═O)]Fe(CO)3 (2), were found to be the most active, with 2 being the most selective in the lactonization of diols containing both primary and secondary alcohols. Lactones containing five-, six-, and seven-membered rings were successfully synthesized, and no over-oxidations to carboxylic acids were detected. The lactonization of unsymmetrical diols containing two …