Analytical Chemistry Commons^™

Chemoselective Alteration Of Fluorophore Scaffolds As A Strategy For The Development Of Ratiometric Chemodosimeters, Xinqi Zhou, Lauren Lesiak, Rui Lai, Jon R. Beck, Jia Zhao, Christian Elowsky, Hui Li, Cliff I. Stains

Department of Chemistry: Faculty Publications

Ratiometric sensors generally couple binding events or chemical reactions at a distal site to changes in the fluorescence of a core fluorophore scaffold. However, such approaches are often hindered by spectral overlap of the product and reactant species. We provide a strategy to design ratiometric sensors that display dramatic spectral shifts by leveraging the chemoselective reactivity of novel functional groups inserted within fluorophore scaffolds. As a proof-of-principle, fluorophores containing a borinate (RF₆₂₀) or silanediol (SiOH2R) functionality at the bridging position of the xanthene ring system are developed as endogenous H₂O₂ sensors. Both …

The Future Of Nmr-Based Metabolomics, John L. Markley, Rafael Bruschweiler, Arthur S. Edison, Hamid R. Eghbalnia, Robert Powers, Daniel Raftery, David S. Wishart

Department of Chemistry: Faculty Publications

The two leading analytical approaches to metabolomics are mass spectrometry (MS) and nuclear magnetic resonance (NMR) spectroscopy. Although currently overshadowed by MS in terms of numbers of compounds resolved, NMR spectroscopy offers advantages both on its own and coupled with MS. NMR data are highly reproducible and quantitative over a wide dynamic range and are unmatched for determining structures of unknowns. NMR is adept at tracing metabolic pathways and fluxes using isotope labels. Moreover, NMR is non-destructive and can be utilized in vivo. NMR results have a proven track record of translating in vitro findings to in vivo clinical …

Resolving The Cofactor-Binding Site In The Proline Biosynthetic Enzyme Human Pyrroline-5-Carboxylate Reductase 1, Emily M. Christensen, Sagar M. Patel, David A. Korasick, Ashley C. Campbell, Kurt L. Krause, Donald F. Becker, John J. Tanner

Department of Chemistry: Faculty Publications

Pyrroline-5-carboxylate reductase (PYCR) is the final enzyme in proline biosynthesis, catalyzing the NAD(P)H-dependent reduction of [?]1-pyrroline-5-carboxylate (P5C) to proline. Mutations in the PYCR1 gene alter mitochondrial function and cause the connective tissue disorder cutis laxa. Furthermore, PYCR1 is overexpressed in multiple cancers, and the PYCR1 knock-out suppresses tumorigenic growth, suggesting that PYCR1 is a potential cancer target. However, inhibitor development has been stymied by limited mechanistic details for the enzyme, particularly in light of a previous crystallographic study that placed the cofactor-binding site in the C-terminal domain rather than the anticipated Rossmann fold of the N-terminal domain. To fill this …

Indole-Induced Reversion Of Intrinsic Multiantibiotic Resistance In Lysobacter Enzymogenes, Yong Han, Yan Wang, Yameng Yu, Haotong Chen, Yuemao Shen, Liangcheng Du

Department of Chemistry: Faculty Publications

Lysobacter species are a group of environmental bacteria that are emerging as a new source of antibiotics. One characteristic of Lysobacter is intrinsic resistance to multiple antibiotics, which had not been studied. To understand the resistance mechanism, we tested the effect of blocking two-component regulatory systems (TCSs) on the antibiotic resistance of Lysobacter enzymogenes, a prolific producer of antibiotics. Upon treatment with LED209, an inhibitor of the widespread TCS QseC/QseB, L. enzymogenes produced a large amount of an unknown metabolite that was barely detectable in the untreated culture. Subsequent structural elucidation by nuclear magnetic resonance (NMR) unexpectedly revealed that …

Synthesis Of Cerium Oxide Nanorods, Chin Li Cheung, Zane Charles Gernhart

Department of Chemistry: Faculty Publications

Cerium oxide nanorods having a variety of aspect ratios can be produced by providing a first mixture that includes a cerium precursor material, and using microwave to heat the first mixture to a first temperature for a period of time to produce first plurality of cerium oxide nanorods having a first range of aspect ratios. A second mixture that includes a cerium precursor material heated using microwave to a second temperature for a period of time to produce second plurality of cerium oxide nanorods having a second range of aspect ratios. The first plurality of cerium oxide nanorods and the …

Human Serine Racemase Structure/Activity Relationship Studies Provide Mechanistic Insight And Point To Position 84 As A Hot Spot For Β-Elimination Function, David L. Nelson, Greg A. Applegate, Matthew L. Beio, Danielle L. Graham, David B. Berkowitz

Department of Chemistry: Faculty Publications

There is currently great interest in human serine racemase, the enzyme responsible for producing the NMDA co-agonist D-serine. Reported correlation of D-serine levels with disorders including Alzheimer’s disease, ALS, and ischemic brain damage (elevated D-serine) and schizophrenia (reduced D-serine) has further piqued this interest. Reported here is a structure/activity relationship study of position Ser⁸⁴, the putative re-face base. In the most extreme case of functional reprogramming, the S84D mutant displays a dramatic reversal of β-elimination substrate specificity in favor of L-serine over the normally preferred L-serine-O-sulfate (~1200-fold change in k_cat/K_{m …}

Assessment Of Metabolic Changes In Mycobacterium Smegmatis Wild Type And Alr Mutant Strains: Evidence For A New Pathway Of D-Alanine Biosynthesis., Darrell D. Marshall, Steven Halouska, Denise K. Zinniel, Robert J. Fenton, Katie Kenealy, Harpreet K. Chahal, Govardhan Rathnaiah, Raul G. Barletta, Robert Powers

Department of Chemistry: Faculty Publications

In mycobacteria, D-alanine is an essential precursor for peptidoglycan biosynthesis. The only confirmed enzymatic pathway to form D-alanine is through the racemization of L-alanine by alanine racemase (Alr, EC 5.1.1.1). Nevertheless, the essentiality of Alr in Mycobacterium tuberculosis and Mycobacterium smegmatis for cell survivability in the absence of D-alanine has been a point of controversy with contradictory results reported in the literature. To address this issue, we examined the effects of alr inactivation on the cellular metabolism of M. smegmatis. The M. smegmatis alr insertion mutant TAM23 exhibited essentially identical growth to wild type mc²155 in the …

Ion Mobility-Resolved Collision-Induced Dissociation And Electron Transfer Dissociation Of N-Glycopeptides: Gathering Orthogonal Connectivity Information From A Single Mass- Selected Precursor Ion Population, Venkata Kolli, Katherine N. Schumacher, Eric Dodds

Department of Chemistry: Faculty Publications

Glycopeptide-level mass spectrometry (MS) and tandem mass spectrometry (MS/MS) analyses are commonly performed to establish site-specific protein glycosylation profiles that are of central importance to gaining structure-function insights on glycoproteins. Confoundingly, the complete characterization of glycopeptide connectivity usually requires the acquisition of multiple MS/MS fragmentation spectra. Complementary ion fragmentation techniques such as collision-induced dissociation (CID) and electron transfer dissociation (ETD) are often applied in concert to address this need. While structurally informative, the requirement for acquisition of two MS/MS spectra per analyte places considerable limitations upon the breadth and depth of large-scale glycoproteomic inquiry. Here, a previously developed method of …

Criegee Intermediate-Hydrogen Sulfide Chemistry At The Air/Water Interface, Manoj Kumar, Jie Zhong, Joseph S. Francisco, Xiao Cheng Zeng

Xiao Cheng Zeng Publications

We carry out Born–Oppenheimer molecular dynamic simulations to show that the reaction between the smallest Criegee intermediate, CH₂OO, and hydrogen sulfide (H₂S) at the air/water interface can be observed within few picoseconds. The reaction follows both concerted and stepwise mechanisms with former being the dominant reaction pathway. The concerted reaction proceeds with or without the involvement of one or two nearby water molecules. An important implication of the simulation results is that the Criegee-H₂S reaction can provide a novel non-photochemical pathway for the formation of a C–S linkage in clouds and could be a …

Reply To ‘On The Bonding In Ligand-Protected Gold Clusters’, Wen Wu Xu, Xiao Cheng Zeng, Yi Gao

Xiao Cheng Zeng Publications

In the recent Correspondence, Professor Henrik Grönbeck made several comments on the recently developed grand unified model (GUM), in particular using the ligand-protected gold cluster [Au₂₅(SR)₁₈]¹⁻ as an example. We noted that the latter cluster can be viewed as belonging to a special group of ligand-protected gold clusters that contain one or several icosahedral Au₁₃ motifs. For this group of clusters, a secondary block Au₁₃(8e) has been identified as a more convenient way to describe their structure anatomy and evolution. Another extension of the GUM is the identification of the new elementary …

Assessment Of Surface Water Contamination From Coalbed Methane Fracturing-Derived Volatile Contaminants In Sullivan County, Indiana, Usa, Nicholas Meszaros, Bikram Subedi, Tristan Stamets, Naima Shifa

Faculty & Staff Research and Creative Activity

There is a growing concern over the contamination of surface water and the associated environmental and public health consequences from the recent proliferation in hydraulic fracturing in the USA. Petroleum hydrocarbon-derived contaminants of concern [benzene, toluene, ethylbenzene, and xylene (BTEX)] and various dissolved cations and anions were spatially determined in surface waters around 14 coalbed methane fracking wells in Sullivan County, IN, USA. At least one BTEX was detected in 69% of sampling sites (n=13) and 23% of sampling sites were found to be contaminated with all of the BTEX. Toluene was the most common BTEX compound detected across all …

Purification And Analysis Of A Pteroic Acid Conjugate, Naveen Kumar Ganji

All Capstone Projects

(FR) is overexpressed on the cell membrane in cancer tissues and activated macrophages associated with rheumatoid conditions. However, FR is restricted in normal healthy tissues. Folic acid has shown high affinity to folate receptors and thus can be used in targeting the tumor cells. Folic acid residue, pteroic acid is also used in several studies that are involved in targeting cancer cells. Several examples include technetium -99m radiotracer labelled pteroyl-lys conjugates, pteroic acid-conjugated nitroheterocyclic phosphoramidates..

In this project, we were successfully able to conjugate pteroic acid with polyethylene Glycol-Amine to create an elegant building block(pte-PEG-amine) for synthesis of future imaging …

Synthesis And Analysis Of Folate Histidine, Alexander Kampner

All Capstone Projects

A compound was specifically designed to further aid research on the detection and treatment of folate receptor positive cancer cells. A small but complex peptide chain was commercially produced to have a flexible glycine spacer and a six-histidine tag. Histidine tagging was chosen for its ability to bind to nickel. The compound in this report was purified and analyzed by HPLC and confirmed via mass spectrometry. This binding capacity and the ability of folate conjugates to bind to cancer cell receptors have both been explored for the past quarter of a century [1-3]. Folate conjugates have been successfully used as …

Biomarker Discovery Using Urinary Metabolomics For Noninvasive Early Cancer Detection, Casey Franklin Burton

Doctoral Dissertations

"The development of new screening methods for the early detection of cancer remains one of the foremost challenges facing modern cancer research. The emergence of new analytical technologies and their application to 'omics'-based approaches has provided researchers with powerful new tools for molecular biomarker discovery that may benefit early screening of cancer. This dissertation outlines several key advances made toward the application of urinary metabolomics to cancer biomarker discovery. The term urinary metabolomics here refers to the investigation of small metabolites in urine as potential disease biomarkers. The advantage of using this approach lies in its noninvasive sampling characteristics and …

Rapid Quantification Of Trypsin Inhibitors In Food And Feed Formulations With Electrospray Ionization Mass Spectrometry, Radheshyam Panta

Doctoral Dissertations

"Presence of anti- nutrients deteriorate the nutritional value of animal foods and feed formulations. The important one being trypsin inhibitors. Trypsin inhibitors in food and feed formulations lower the protein supplement and hence the ultimate consequence is the decrease in growth and development of animals. It is therefore, crucial to monitor trypsin inhibitors in animal food and feed formulations. Research work mentioned in this dissertation is based on the development of rapid, more accurate and robust method for determination of trypsin inhibitor in food and feed formulations. The developed method includes extraction of trypsin inhibitor from food and feed formulation …

An Stm Study On The Structure Of Pt(100)/Ionic Liquid Omipf6 Interface, Jin Peng, Mian-Gang Li, Li-Qiang Xie, Jia-Wei Yan, Bing-Wei Mao

Journal of Electrochemistry

Potential-dependent structures of Pt(100)/ionic liquid 1-methyl-3-octylimidazolium hexafluorophosphate (OMIPF₆) interface have been studied by electrochemical scanning tunneling microscopy (ECSTM). The cation OMI⁺ forms ordered structure on Pt(100) surface, which exists in a potential region of about 1.2 V. When the potential is more negative than -0.6 V, it can be seen that the ordered structure transforms to disordered structure. When the potential shifts positively to +0.6 V, the desorption of cations OMI⁺ occurs, which indicates that strong electrostatic repulsion is needed to overcome chemical interaction between OMIPF6 and Pt(100) surface, leading to the desorption. The above results …

Stm Investigation Of Oxygen Reduction Reaction On Solid Interface In Fuel Cell, Zhen-Feng Cai, Bing Sun, Wen-Jie Jiang, Ting Chen, Dong Wang, Li-Jun Wan

Journal of Electrochemistry

An electrocatalyst for oxygen reduction reaction (ORR) is an important component for fuel cells. An investigation at interfacial electrochemical reactions toward ORR at a molecular scale benefits mechanistic understanding as well as rational design of catalysts. Scanning tunneling microscopy (STM) has been proven to be a powerful tool to monitor chemical reactions and to provide in-situ information about the interfacial electrochemical reactions at a molecular level. This review summarizes the recent STM studies in monitoring the interface processes such as morphological changes, molecular changes, reaction intermediates, and oxidation products. The prospects of future development in this field are outlined.

Synthesis Of Ultrathin Co3O4 Nanoflakes Film Material For Electrochemical Sensing, Hui-Juan Wang

Journal of Electrochemistry

Ultrathin cobalt oxide (Co₃O₄) nanoflakes film material was synthesized by using an electro-deposited cobalt layer as a raw material through a simple oxidation method and followed by a heat treatment at 350 ^oC. The physical characterizations of the Co₃O₄ nanoflakes film were performed by scanning electron microscopy (SEM), X-ray diffraction (XRD) and transmission electron microscopy (TEM) technologies, and the electrochemical activity was measured by cyclic voltammetry (CV). As a promising material for electrochemical sensing, the as-synthesized ultrathin Co₃O₄ nanoflakes film material exhibited excellent electrochemical activity for H₂O …

Polyol Induced Partitioning Of Essential Oils In Aqueous Organic Solvent Mixtures, Thomas Delmastro

Seton Hall University Dissertations and Theses (ETDs)

Polyol Induced Extraction (PIE) was developed and patented at Seton Hall University by Drs. John R. Sowa Jr., Wyatt R. Murphy, and Mithilesh Deshpande. It was originally discovered and implemented as a method to recycle and reuse waste acetonitrile during the production shortage in 2008. Through the use of PIE, a solvent mixture containing acetonitrile and water can be separated by employing a polyol mass separating agent, which induces a phase separation. The system is separated into its corresponding aqueous and organic phases, with the organic phase being a highly purified organic liquid. Based on the successful experimental results that …

A Grand Unified Model For Liganded Gold Clusters, Wen Wu Xu, Beien Zhu, Xiao Cheng Zeng, Yi Gao

Xiao Cheng Zeng Publications

A grand unified model (GUM) is developed to achieve fundamental understanding of rich structures of all 71 liganded gold clusters reported to date. Inspired by the quark model by which composite particles (for example, protons and neutrons) are formed by combining three quarks (or flavours), here gold atoms are assigned three ‘flavours’ (namely, bottom, middle and top) to represent three possible valence states. The ‘composite particles’ in GUM are categorized into two groups: variants of triangular elementary block Au₃(2e) and tetrahedral elementary block Au₄(2e), all satisfying the duet rule (2e) of the valence shell, akin to …