© 2000 - 2012 Virginia Bioinformatics Institute
Wednesday, 16 May 2012
Mukhopadhyay, Biswarup , Ph.D.
Faculty - Publications - Mukhopadhyay, Biswarup

Associate Professor, Virginia Bioinformatics Institute
Adjunct Associate Professor, Department of Biochemistry, Virginia Tech
Adjunct Associate Professor, Department of Biological Sciences, Virginia Tech
Adjunct Associate Professor, Department of Internal Medicine, Virginia Tech Carilion School of Medicine

Phone: (540) 231-8015
Email:biswarup@vt.edu
Fax: 540-231-2606

Administrative Specialist: Maureen Lawrence-Kuether
Phone: (540) 231-3669
Email: mlawre04@vbi.vt.edu
Fax:540-231-2606

Personal_Page | Microbial Diversity Group | NSF-REU Site: Microbiology in the Post Genome Era



Publications:

2011


Dharmarajan L, Kraszewski JL, Mukhopadhyay B, Dunten PW. Structure of an archaeal-type phosphoenolpyruvate carboxylase sensitive to inhibition by aspartate. Proteins. 2011;79:1820–1829.  http://www.ncbi.nlm.nih.gov/pubmed/21491491

2010


Cho IM, Lai LB, Susanti D, Mukhopadhyay B, Gopalan V. Ribosomal protein L7Ae is a subunit of archaeal RNase P. Proc Natl Acad Sci U S A. 2010;107:14573–14578.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=20675586

2009


Anderson I, Ulrich LE, Lupa B, et al. Genomic characterization of methanomicrobiales reveals three classes of methanogens. PLoS One. 2009;4:e5797.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=19495416

Anderson IJ, Dharmarajan L, Rodriguez J, et al. The complete genome sequence of Staphylothermus marinus reveals differences in sulfur metabolism among heterotrophic Crenarchaeota. BMC Genomics. 2009;10:145.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=19341479

Case CL, Rodriguez J, Mukhopadhyay B. Characterization of a NADH oxidase of the flavin-Dependent disulfide reductase family from Methanocaldococcus jannaschii. Microbiology. 2009;155:69–79.  

Dharmarajan L, Kraszewski JL, Mukhopadhyay B, Dunten PW. Expression, purification and crystallization of an archaeal-type phosphoenolpyruvate carboxylase. Acta Crystallogr Sect F Struct Biol Cryst Commun. 2009;65:1193–1196.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=19923749

Kim KH, Willger SD, Park SW, et al. TmpL, a transmembrane protein required for intracellular redox homeostasis and virulence in a plant and an animal fungal pathogen. PLoS Pathog. 2009;5:e1000653.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=19893627

Purwantini E, Mukhopadhyay B. Conversion of NO2 to NO by reduced coenzyme F420 protects mycobacteria from nitrosative damage. Proc Natl Acad Sci U S A. 2009;106(15):6333–6338.  http://dx.doi.org/10.1073%2Fpnas.0812883106

2008


Anderson I, Rodriguez J, Susanti D, et al. Genome sequence of Thermofilum pendens reveals an exceptional loss of biosynthetic pathways without genome reduction. J Bacteriol. 2008;190:2957–2965.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=18263724

Dharmarajan L, Case CL, Dunten P, Mukhopadhyay B. Tyr235 of human cytosolic phosphoenolpyruvate carboxykinase influences catalysis through an anion-quadrupole interaction with phosphoenolpyruvate carboxylate. Febs J. 2008;275:5810–5819.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=19021757

Johnson EF, Mukhopadhyay B. Coenzyme F420-dependent sulfite reductase-enabled sulfite detoxification and use of sulfite as a sole sulfur source by Methanococcus maripaludis. Appl Environ Microbiol. 2008;74:3591–3595.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=18378657

2007


Case CL, Mukhopadhyay B. Kinetic characterization of recombinant human cytosolic phosphoenolpyruvate carboxykinase with and without a His10-tag. Biochimica et Biophysica Acta. 2007;(in press).  

Johnson EF, Mukhopadhyay B. A novel coenzyme F420-dependent sulfite reductase and a small size sulfite reductase in methanogenic archaea. In: Dahl C, Friedrich CG, eds. Proceedings of the International Symposium on Microbial Sulfur Metabolism. New York, N.Y.: Springer,; 2007.  

Staples CR, Lahiri S, Raymond J, Von Herbulis L, Mukhophadhyay B, Blankenship RE. The Expression and Association of Group IV Nitrogenase NifD and NifH Homologs in the Non-Nitrogen Fixing Archaeon Methanocaldococcus jannaschii. J Bacteriol. 2007.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=17660283

2006


Case CL, Concar EM, Boswell KL, Mukhopadhyay B. Roles of Asp75, Asp78, and Glu83 of GTP-dependent phosphoenolpyruvate carboxykinase from Mycobacterium smegmatis. J Biol Chem. 2006;281:39262–39272.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=17015450

Lai H, Kraszewski JL, Purwantini E, Mukhopadhyay B. Identification of pyruvate carboxylase genes in Pseudomonas aeruginosa PAO1 and development of a P. aeruginosa-based overexpression system for alpha4- and alpha4beta4-type pyruvate carboxylases. Appl Environ Microbiol. 2006;72:7785–7792.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16997990

Seleem MN, Ali M, Boyle SM, et al. Establishment of a gene expression system in Ochrobactrum anthropi. Appl Environ Microbiol. 2006;72:6833–6836.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=17021239

2005


Guss AM, Mukhopadhyay B, Zhang JK, Metcalf WW. Genetic analysis of mch mutants in two Methanosarcina species demonstrates multiple roles for the methanopterin-dependent C-1 oxidation/reduction pathway and differences in H2 metabolism between closely related species. Mol Microbiol. 2005;55:1671–1680.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=15752192

Johnson EF, Mukhopadhyay B. A new type of sulfite reductase, a novel coenzyme F420-dependent enzyme, from the methanarchaeon Methanocaldococcus jannaschii. J Biol Chem. 2005;280:38776–38786.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16048999

2004


Patel HM, Kraszewski JL, Mukhopadhyay B. The phosphoenolpyruvate carboxylase from Methanothermobacter thermautotrophicus has a novel structure. J Bacteriol. 2004;186:5129–5137.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=15262949

Patrie SM, Charlebois JP, Whipple D, et al. Construction of a hybrid quadrupole/Fourier transform ion cyclotron resonance mass spectrometer for versatile MS/MS above 10 kDa. J Am Soc Mass Spectrom. 2004;15:1099–1108.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=15234368

2003


McInerney T, Johnson EJ, Mukhopadhyay B, Borthwick A. Analysing 2-D gels at High Throughput, Data mining with Progenesis Discovery Informatics Tool. Genetic Engineering News. 2003;23:31–32,36.  

2002


Galagan JE, Nusbaum C, Roy A, et al. The genome of M. acetivorans reveals extensive metabolic and physiological diversity. Genome Res. 2002;12:532–542.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=11932238

2001


Fabrega C, Farrow MA, Mukhopadhyay B, de Crecy-Lagard V, Ortiz AR, Schimmel P. An aminoacyl tRNA synthetase whose sequence fits into neither of the two known classes. Nature. 2001;411:110–114.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=11333988

Mukhopadhyay B, Concar EM, Wolfe RS. A GTP-dependent vertebrate-type phosphoenolpyruvate carboxykinase from Mycobacterium smegmatis. J Biol Chem. 2001;276:16137–16145.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=11278451

Mukhopadhyay B, Purwantini E, Kreder CL, Wolfe RS. Oxaloacetate synthesis in the methanarchaeon Methanosarcina barkeri: pyruvate carboxylase genes and a putative Escherichia coli-type bifunctional biotin protein ligase gene (bpl/birA) exhibit a unique organization. J Bacteriol. 2001;183:3804–3810.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=11371547

2000


Mukhopadhyay B, Johnson EF, Wolfe RS. A novel pH2 control on the expression of flagella in the hyperthermophilic strictly hydrogenotrophic methanarchaeaon Methanococcus jannaschii. Proc Natl Acad Sci U S A. 2000;97:11522–11527.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=11027352

Mukhopadhyay B, Patel VJ, Wolfe RS. A stable archaeal pyruvate carboxylase from the hyperthermophile Methanococcus jannaschii. Arch Microbiol. 2000;174:406–414.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=11195096

Mukhopadhyay B, Purwantini E. Pyruvate carboxylase from Mycobacterium smegmatis: stabilization, rapid purification, molecular and biochemical characterization and regulation of the cellular level. Biochim Biophys Acta. 2000;1475:191–206.  http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=10913817