Publications

Below is a list of recent publications from MU that incorporate data generated by the Charles W Gehrke Proteomics Center or *utilize Center instrumentation.

2015

Role of aA-crystallin-derived aA66-80 peptide in guinea pig lens crystallin aggregation and insolubilization.
Raju M, Mooney BP, Thakkar KM, Giblin FJ, Schey KL, Sharma KK.
Exp. Eye Res. 132:151-60

The Basis of Asymmetry in the SecA:SecB Complex
Yuying Suo, Simon J.S. Hardy, Linda L. Randall
J Mol Biol (2015)

Diethylaminobenzaldehyde Is a Covalent, Irreversible Inactivator of ALDH7A1
Min Luo, Kent S. Gates, Michael T. Henzl, and John J. Tanner
ACS Chem (Jan 2015)

2014

Interstrand DNA-DNA Cross-Link Formation Between Adenine Residues and Abasic Sites in Duplex DNA
Nathan E. Price, Kevin M. Johnson, Jin Wang, Mostafa I. Fekry, Yinsheng Wang, and Kent S. Gates
J.Am.Chem.Soc., 136, 3483-3490

Covalent Adduct Formation between the Antihypertensive Drug Hydralazine and Abasic Sites in Double- and Single-Stranded DNA
Douglas Melton, Calvin D. Lewis, Nathan E. Price, and Kent S. Gates
Chem. Res. Toxicol., 27, 2113-2118

Atrazine Affects Phosphoprotein and Protein Expression in MCF-10A Human Breast Epithelial Cells
Peixin Huang, John Yang, and Qisheng Song
Int. J. Mol. Sci., 15, 17806-17826

Dietary lufenuron reduces egg hatch and influences protein expression in the fruit fly Bactrocera latifrons (Hendel)
Chiou Ling Chang, Scott Geib, Il Kyu Cho, Qing X. Li, David Stanley
ARCHIVES OF INSECT BIOCHEMISTRY AND PHYSIOLOGY, Vol. 86, No. 4, 193–208

Compromised catalysis and potential folding defects in in vitro studies of missense mutants associated with hereditary phosphoglucomutase 1 deficiency
Yingying Lee, Kyle M. Stiers, Bailee N. Kain and Lesa J. Beamer
J. Biol. Chem. Published online Oct 6th 2014

NitroDIGE analysis reveals inhibition of protein S-nitrosylation by epigallocatechin gallates in lipopolysaccharide-stimulated microglial cells
Zhe Qu, Fanjun Meng, Hui Zhou, Jilong Li, Quanhui Wang, Fan Wei, Jianlin Cheng, C Michael Greenlief, Dennis B Lubahn, Grace Y Sun, Siqi Liu and Zezong Gu
Journal of Neuroinflammation, 11:17

Promotion of Enzyme Flexibility by Dephosphorylation and Coupling to the Catalytic Mechanism of a Phosphohexomutase
Yingying Lee, Maria T. Villar, Antonio Artigues, and Lesa J. Beamer
J. Biol. Chem. DOI:10.1074/jbc.M113.532226

2013

Membrane protein complex of APS reductase and Qmo is present in Desulfovibrio vulgaris and Desulfovibrio alaskensis.
LR Krumholz, L Wang, DAC Beck, T Wang, M Hackett, B Mooney, TR Juba, MJ McInerney, B Meyer, JD Wall, D Stahl (2013)
Microbiology 159 (Pt 10), 2162-2168

Proteomic analysis of the testa from developing soybean seeds.
Miernyk JA, Johnston ML.
J Proteomics. 2013 89:265-72

Identification of Subunit-Subunit Interaction Sites in aA-WT Crystallin and Mutant aA-G98R Crystallin Using Isotope-Labeled Cross-Linker and Mass Spectrometry
Rama Kannan, Puttur Santhoshkumar, Brian P. Mooney, and K. Krishna Sharma
PLOS ONE DOI:10.1371

The aA66-80 Peptide Interacts with Soluble a-Crystallin and Induces Its Aggregation and Precipitation: A Contribution to Age-Related Cataract Formation.
Kannan R, Santhoshkumar P, Mooney BP, Sharma KK.
Biochemistry. 2013 May 16. [Epub ahead of print]

Profiling of lens protease involved in generation of aA-66-80 crystallin peptide using an internally quenched protease substrate.
Hariharapura R, Santhoshkumar P, Krishna Sharma K.
Exp Eye Res. 2013 Apr;109:51-9.

Identification of an essential active-site residue in the a-D-phosphohexomutase enzyme superfamily.
Lee Y, Mehra-Chaudhary R, Furdui C and Beamer LJ
The FEBS Journal (online April 8th 2013)

On the formation and properties of interstrand DNA-DNA cross-Links forged by reaction of an abasic site with the opposing guanine residue of 5'-CAp sequences in duplex DNA.
Johnson KM, Price NE, Wang J, Fekry MI, Dutta S, Seiner DR, Wang Y, and Gates KS.
J. Am. Chem. Soc., 135, 1015-1025


2012

aA-Crystallin-derived mini-chaperone modulates stability and function of cataract causing aAG98R-crystallin.
Raju M, Santhoshkumar P, Sharma KK.
PLoS One. 2012;7(9):e44077.

Specific changes in total and mitochondrial proteomes are associated with higher levels of heterosis in maize hybrids
Diwakar Dahal, Brian P. Mooney, Kathleen J. Newton
The Plant Journal, 72: 70-83

A Proteomic analysis of liver after ethanol binge in chronically ethanol treated rats
Annayya R Aroor, Roy J Lowery, Ricardo J Restrepo, Brian P Mooney and Shivendra D Shukla
Proteome Science, 10: 29

Prostaglandin A2 Influences Gene Expression In an Established Insect Cell Line (BCIRL-HzAM1) Cells
Stanley, D.W., Goodman, C., An, S., Song, Q.
Journal of Insect Physiology, 58:, 837-849


Larval Dietary Wheat Germ Oil Influences Age-specific Protein Expression In Adults of the Oriental Fruit Fly
Chang, C.L., Coudron, T.A., Goodman, C.L., Stanley, D.W.
Journal of Insect Physiology, 58: 690-698

Solution NMR of a 463-residue Phosphohexomutase: Domain 4 Mobility, Substates, and Phosphoryl Transfer Defect
Sarma, A.V.S., Anbanandam, A., Kelm, A, Mehra-Chaudhary, R., Wei, Y, Qin, P., Lee, Y, Berjanskii, M.V., Mick, J.A., Beamer, L.J., and Van Doren, S.R.
Biochemistry, 51: 807-019

2011

Mapping the lipoylation site of Arabidopsis thaliana plastidial dihydrolipoamide S-acetyltransferase using mass spectrometry and site-directed mutagenesis.
Jill Casteel, Ján A. Miernyk, Jay J. Thelen
Plant Physiology and Biochemistry xxx (epub ahead of print)

Core unit of chemotaxis signaling complexes
Mingshan Li and Gerald L Hazelbauer
PNAS Vol. 108: 9390-9395

Asp295 Stabilizes the Active-Site Loop Structure of Pyruvate Dehydrogenase, Facilitating Phosphorylation of Ser292 by Pyruvate Dehydrogenase-Kinase.
Tripty A. Hirani, Alejandro Tovar-Méndez, Ján A. Miernyk, and Douglas D. Randall Enzyme Research Volume 2011, Article ID 939068

Simplified enrichment of plasma membrane proteins for proteomic analyses in Arabidopsis thaliana.*
Zhang ZJ, Peck SC.
Proteomics. 11(9):1780-8

alphaA-crystallin peptide 6680 accumulating in aging lens inpairs the function of alpha-crystallin and induces lens protein aggregation
Puttur Santhoshkumar, Murugesan Raju, K. Krishna Sharma
PLoS ONE 6(4): e19291

Identification and characterization of a copper-binding site in alphaA-crystallin.
Murugesan Raju, Puttur Santhoshkumar, T. Michael Henzl, K. Krishna Sharma
Free Radical Biology & Medicine 50:1429–1436

Phenotypic and gene expression analyses of a ploidy series of maize inbred Oh43.
Hong Yao, Akio Kato, Brian Mooney and James A. Birchler
Plant Molecular Biology. 75:237-251 (published on-line December 2010)

2010

NMR and Bioinformatics Discovery of Exosites that Tune Metalloelastase Specificity for Solubilized Elastin and Collagen Triple Helices
Mark O. Palmier, Yan G. Fulcher, Rajagopalan Bhaskaran, Vinh Q. Duong, Gregg B. Fields, and Steven R. Van Doren
JBC online July 27th

Baculovirus infection influences host protein expression in two established insect cell lines.
Holly J.R. Popham, James J. Grasela, Cynthia L. Goodman, Arthur H. McIntosh
J. Insect Physiol. (in press)

Wheat germ oil in larval diet influences gene expression in adult oriental fruit fly.
Chiou Ling Chang, Thomas A. Coudron, Cynthia Goodman, David Stanley, Shiheng An, Qisheng Song
Journal of Insect Physiology 56: 356–365

A quantitative mass spectrometry-based approach for identifying protein kinase clients and quantifying kinase activity.*
Yadong Huang, Norma L. Houston, Alejandro Tovar-Mendez, Severin E. Stevenson, Jan A. Miernyk, Douglas D. Randall, Jay J. Thelen
Analytical Biochemistry 402: 69–76

Maize 27 kDa alpha-Zein Is a Potential Allergen for Early Weaned Pigs.
HARI B. KRISHNAN, MONTY S. KERLEY, GARY L. ALLEE, SUNGCHAN JANG, WON-SEOK KIM, AND CHUNJIANG J. FU
J. Agric. Food Chem. 58: 7323–7328

Regulation of growth response to water stress in the soybean primary root. I. Proteomic analysis reveals region-specific regulation of phenylpropanoid metabolism and control of free iron in the elongation zone
MINEO YAMAGUCHI, BABU VALLIYODAN, JUAN ZHANG, MARY E. LENOBLE, OLIVER YU, ELIZABETH E. ROGERS, HENRY T. NGUYEN & ROBERT E. SHARP
Plant, Cell and Environment 33, 223–243

2009

Confidence assessment for protein identification by using peptide-mass fingerprinting data.
Zhao Song 1, Luonan Chen 2, Dong Xu
Proteomics 9: 3090-99

A rapid method for depletion of Rubisco from soybean (Glycine max) leaf for proteomic analysis of lower abundance proteins.
Krishnan, H.B. and S.S. Natarajan
Phytochemistry 70, 1958–1964

A rapid and simple procedure for the depletion of abundant storage proteins from legume seeds to advance proteome analysis: A case study using Glycine max. **
Krishnan, H.B., N.W. Oehrle and S. Natarajan
Proteomics 9, 3174-3188

Identification of a ß-casein-like peptide in breast nipple aspirate fluid that is associated with breast cancer
Edward R Sauter, Wade Davis, Wenyi Qin, Sarah Scanlon, Brian Mooney, Karen Bromert, and William R Folk
Biomarkers Med. 3 (5) 577-588

Composition, vigor, and proteome of mature soybean seeds developed under high temperature
C. Ren, K. D. Bilyeu and P. R. Beuselinck
Crop Sci 49:1010-1022

System analysis of an Arabidopsis mutant altered in de novo fatty acid synthesis reveals diverse changes in seed composition and metabolism
Mingjie Chen, Brian P. Mooney, Martin Hajduch, Trupti Joshi, Mingyi Zhou, Dong Xu, and Jay J. Thelen
Plant Physiol. 150: 27-41

Peroxiredoxin 2 and Peroxidase Enzymatic Activity of Mammalian Spermatozoa
Gaurishankar Manandhar, Antonio Miranda-Vizuete, Jose R Pedrajas, William J Krause, Shawn Zimmerman, Miriam Sutovsky, Peter Sutovsky
Biol Reprod. 2009 Feb 4 (Epub ahead of print)

Establishment of a Protein Reference Map for Soybean Root Hair Cells
Laurent Brechenmacher, Joohyun Lee, Sherri Sachdev, Zhao Song, Tran Hong Nha Nguyen, Trupti Joshi, Nathan Oehrle, Marc Libault, Brian Mooney, Dong Xu, Bret Cooper, and Gary Stacey
Plant Physiology. 149(2): p. 670-682

 

2008

Inactivation of N-TIMP-1 by N-terminal acetylation when expressed in bacteria
Steven R. Van Doren, Shuo Wei, Guanghua Gao, Beverly B DaGue, Mark O Palmier, Harinath Badudhanapati, Keith Brew
Biopolymers 89: 960-968

Proteomics of soybean nodule cytosol.
Oehrle, N.W., A.D. Sarma, J.K. Waters and D.W. Emerich.
Phytochemisty 69, 2426-2438

Plant protein isolation and stabilization for enhanced resolution of two-dimensional polyacrylamide gel electrophoresis.
Sarma, A.D., N.W. Oehrle and D.W. Emerich
Analytical Biochemistry 379, 192-195

Maximal Efficiency of Coupling between ATP Hydrolysis and Translocation of Polypeptides Mediated by SecB Requires Two Protomers of SecA.
Mao C, Hardy SJ, Randall LL
J Bacteriol. 2008 Oct 31. [Epub ahead of print]

Anti-chaperone ßA3/A1102-117 peptide interacting sites in human aB-crystallin
Guruprasad Rao, Puttur Santhoshkumar, and K. Krishna Sharma
Mol Vis. 2008; 14: 666–674

Significance of Interactions of Low Molecular Weight Crystallin Fragments in Lens Aging and Cataract Formation
Puttur Santhoshkumar, Padmanabha Udupa, Raju Murugesan, and K. Krishna Sharma
J. Biol. Chem. 283: 9477-85

Prostaglandins A1 and E1 influence gene expression in an established insect cell line (BCIRL-HzAM1 cells)
David W. Stanley, Cynthia Goodman, Shiheng An, Arthur McIntosh, and Qisheng Song
Insect Biochemistry and Molecular Biology 38: 275–284

2007

Accumulation of glial fibrillary acidic protein and histone H4 in brain storage bodies of Tibetan terriers with hereditary neuronal ceroid lipofuscinosis
M.L. Katz, D.N. Sanders, B.P. Mooney, G.S. Johnson
J Inherit Metab Dis 30: 952-63

Effect of a single AGE modification on the structure and chaperone activity of human alphaB-Crystallin
Jaya Bhattacharyya, Ekaterina V. Shipova, Puttur Santhoshkumar, K. Krishna Sharma, and Beryl J. Ortwerth
Biochemistry 46: 14682-92

Cell wall proteome in the maize primary root elongation zone. II. Region-specific changes in water soluble and lightly ionically bound proteins under water deficit **
Jinming Zhu, Sophie Alvarez, Ellen L. Marsh, Mary E. LeNoble, In-Jeong Cho, Mayandi Sivaguru, Sixue Chen, Henry T. Nguyen, Yajun Wu, Daniel P. Schachtman, and Robert E. Sharp
Plant Physiology 145: 1533–1548

Ubiquitin C-terminal hydrolase-activity is involved in sperm acrosomal function and anti-polyspermy defense during porcine fertilization
Young-Joo Yi , Gaurishankar Manandhar , Miriam Sutovsky , Rongfeng Li , Vra Jonáková , Richard Oko, Chang-Sik Park, Randall S Prather, and Peter Sutovsky
Biology of Reproduction 77: 780–793

Guest and ligand behavior in Zinc-seamed Pyrogallol[4]arene molecular capsules
Nicholas P. Power, Scott J. Dalgarno, Jerry L. Atwood
Angewandte Chemie International Edition 46: 8601-04

Proteomics of canine lymphoma identifies potential cancer-specific protein markers
Dudley L. McCaw, Arvan S. Chan, Andrew L. Stegner, Brian Mooney, Jeffrey N. Bryan, Susan E. Turnquist, Carolyn J. Henry, Hannah Alexander, and Stephen Alexander
Clin Cancer Res 13: 2496-2503

Proteomic identification of PKC-mediated expression of 20E-induced protein in Drosophila melanogaster
Y Sun, S An, V.C. Henrich, X Sun, Q Song
J Proteome Research 6; 4478-88

Development and assessment of scoring functions for protein identification using PMF data**
Song Z, Chen L, Ganapathy A, Wan XF, Brechenmacher L, Tao N, Emerich D, Stacey G, Xu D.
Electrophoresis 28: 864-70

Kinetics and mechanism of protein Tyrosine Phosphatase 1B inactivation by Acrolein
Derrick R. Seiner, Jason N. LaButti, and Kent S. Gates
Chem Res Toxicol 20: 1315-20


2006

PGAM5, a Bcl-XL-interacting protein, is a novel substrate for the redox-regulated Keap1-dependent ubiquitin ligase complex
Shih-Ching Lo and Mark Hannink
J.Biol. Chem. 281: 37893-903

A comparative proteomic evaluation of culture grown vs nodule isolated Bradyrhizobium japonicum
Annamraju Sarma and David Emerich
Proteomics 6: 3008-28

Sites of interaction of a precursor polypeptide on the export chaperone SecB mapped by site-directed spin labeling
Jennine M. Crane, Yuying Suo, Angela A. Lilly, Chunfeng Mao, Wayne L. Hubbell, and Linda L. Randall
J. Mol. Biol. 363: 63–74

Characterization of three areas of interactions stabilizing complexes between SecA and SecB, two proteins involved in protein export
Chetan N. Patel, Virginia F. Smith and Linda L. Randall
Protein Sci. 15: 1379-1386

Using quantitative proteomics of Arabidopsis roots and leaves to predict metabolic activity
Mooney B.P., Miernyk J.A., Greenlief C.M., Thelen, J.J.
Physiologia Plantarum 128: 237–250

Chemical cross-linking immobilized concanavalin A for use in proteomic analyses
Jan A Miernyk, Mark L Johnston
Preparative Biochem and Biotechnol 36: 2003-14

Characterization of recombinant Francisella tularensis acid phosphatase A
Thomas J. Reilly, Richard L. Felts, Michael T. Henzl, Michael J. Calcutt, and John J. Tanner
Protein Expression and Purification Volume 45: 132-141


2005

Proteomic analysis of soybean root hairs after infection by Bradyrhizobium japonicum
J Wan, M Torres, A Ganapathy, J Thelen, BB DaGue, B Mooney, D Xu, and G Stacey
Mol Plant Microbe Interact 18: 458-67.

Mapping of the docking of SecA onto the chaperone SecB by site-directed spin labeling: Insight into the mechanism of ligand transfer during protein export
Jennine M. Crane, Chunfeng Mao, Angela A. Lilly, Virginia F. Smith, Yuying Suo, Wayne L. Hubbell, and Linda L. Randall
J Mol Biol 2: 295-307

Expression and proteasomal degradation of the major vault protein (MVP) in mammalian oocytes and zygotes
Peter Sutovsky, Gaurishankar Manandhar, Jozef Laurincik, Juraj Letko, Jose Nestor Caamaño, Billy N Day, Liangxue Lai, Randall S Prather, Kathy L Sharpe-Timms, Randall Zimmer, and Miriam Sutovsky
Reproduction 129: 269-282

Golgi-to-late endosome trafficking of the yeast pheromone processing enzyme Ste13p is regulated by a phosphorylation site in its cytosolic domain
Holly D. Johnston, Christopher Foote, Andrea Santeford and Steven F. Nothwehr
Molecular Biology of the Cell 16: 1456–1468

Global protein expression pattern of Bradyrhizobium japonicum bacteroids: A prelude to functional proteomics
Annamraju D. Sarma and David W. Emerich
Proteomics 5: 4170-84


2004

High-throughput peptide mass fingerprinting of soybean seed proteins: automated workflow and utility of UniGene expressed sequence tag databases for protein identification
Mooney B P, Krishnan H, and Thelen J J
Phytochemistry 65: 1733-44

Proteomic analysis to identify breast cancer biomarkers in Nipple Aspirate Fluid
Hannah Alexander, Andrew L. Stegner, Colette Wagner-Mann, Garrett C. Du Bois, Stephen Alexander, and Edward R. Sauter
Clinical Cancer Research 10: 7500-10

Statistical assessment for mass-spec protein identification using peptide fingerprinting approach
Ganapathy A, Wan XF, Wan J, Thelen J, Emerich DW, Stacey G, Xu D.
Conf Proc IEEE Eng Med Biol Soc. 4: 3051-4

**Staff consultation was the only contribution to this manuscript


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