Publications

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2000

Zhang S, Yasuo T, Lenz RW, Goodwin S. 2000. Kinetic and mechanistic characterization of the polyhydroxybutyrate synthase from Ralstonia eutropha.. Biomacromolecules. 1(2):244-51.

2001

Holden JF, Poole Ii FL, Tollaksen SL, Giometti CS, Lim H, Yates Iii JR, Adams MW. 2001. Identification of membrane proteins in the hyperthermophilic archaeon pyrococcus furiosus using proteomics and prediction programs.. Comp Funct Genomics. 2(5):275-88.

2003

Lim H, Eng J, Yates JR, Tollaksen SL, Giometti CS, Holden JF, Adams MWW, Reich CI, Olsen GJ, Hays LG. 2003. Identification of 2D-gel proteins: a comparison of MALDI/TOF peptide mass mapping to mu LC-ESI tandem mass spectrometry.. J Am Soc Mass Spectrom. 14(9):957-70.

2004

Yan B, Methé BA, Lovley DR, Krushkal J. 2004. Computational prediction of conserved operons and phylogenetic footprinting of transcription regulatory elements in the metal-reducing bacterial family Geobacteraceae.. J Theor Biol. 230(1):133-44.

2005

Renzette N, Gumlaw N, Nordman JT, Krieger M, Yeh S-P, Long E, Centore R, Boonsombat R, Sandler SJ. 2005. Localization of RecA in Escherichia coli K-12 using RecA-GFP.. Mol Microbiol. 57(4):1074-85.

2006

Yan B, Núñez C, Ueki T, Esteve-Núñez A, Puljic M, Adkins RM, Methé BA, Lovley DR, Krushkal J. 2006. Computational prediction of RpoS and RpoD regulatory sites in Geobacter sulfurreducens using sequence and gene expression information.. Gene. 384:73-95.

Khare T, Esteve-Núñez A, Nevin KP, Zhu W, Yates JR, Lovley D, Giometti CS. 2006. Differential protein expression in the metal-reducing bacterium Geobacter sulfurreducens strain PCA grown with fumarate or ferric citrate.. Proteomics. 6(2):632-40.

Boonsombat R, Yeh S-P, Milne A, Sandler SJ. 2006. A novel dnaC mutation that suppresses priB rep mutant phenotypes in Escherichia coli K-12.. Mol Microbiol. 60(4):973-83.

2007

Yennaco LJ, Hu Y, Holden JF. 2007. Characterization of malate dehydrogenase from the hyperthermophilic archaeon Pyrobaculum islandicum.. Extremophiles. 11(5):741-6.

Li X, Foulkes AS, Yucel RM, Rich SM. 2007. An expectation maximization approach to estimate malaria haplotype frequencies in multiply infected children.. Stat Appl Genet Mol Biol. 6:Article33.

Krushkal J, Yan B, DiDonato LN, Puljic M, Nevin KP, Woodard TL, Adkins RM, Methé BA, Lovley DR. 2007. Genome-wide expression profiling in Geobacter sulfurreducens: identification of Fur and RpoS transcription regulatory sites in a relGsu mutant.. Funct Integr Genomics. 7(3):229-55.

Yan B, Lovley DR, Krushkal J. 2007. Genome-wide similarity search for transcription factors and their binding sites in a metal-reducing prokaryote Geobacter sulfurreducens.. Biosystems. 90(2):421-41.

Ahrendt AJ, Tollaksen SL, Lindberg C, Zhu W, Yates JR, Nevin KP, Babnigg G, Lovley DR, Giometti CS. 2007. Steady state protein levels in Geobacter metallireducens grown with iron (III) citrate or nitrate as terminal electron acceptor.. Proteomics. 7(22):4148-57.

2008

Mahadevan R, Yan B, Postier B, Nevin KP, Woodard TL, O'Neil R, Coppi MV, Methé BA, Krushkal J. 2008. Characterizing regulation of metabolism in Geobacter sulfurreducens through genome-wide expression data and sequence analysis.. OMICS. 12(1):33-59.

2009

Ishikawa E, Ishikawa T, Morita YS, Toyonaga K, Yamada H, Takeuchi O, Kinoshita T, Akira S, Yoshikai Y, Yamasaki S. 2009. Direct recognition of the mycobacterial glycolipid, trehalose dimycolate, by C-type lectin Mincle.. J Exp Med. 206(13):2879-88.

Ishikawa E, Ishikawa T, Morita YS, Toyonaga K, Yamada H, Takeuchi O, Kinoshita T, Akira S, Yoshikai Y, Yamasaki S. 2009. Direct recognition of the mycobacterial glycolipid, trehalose dimycolate, by C-type lectin Mincle.. J Exp Med. 206(13):2879-88.

Ishikawa E, Ishikawa T, Morita YS, Toyonaga K, Yamada H, Takeuchi O, Kinoshita T, Akira S, Yoshikai Y, Yamasaki S. 2009. Direct recognition of the mycobacterial glycolipid, trehalose dimycolate, by C-type lectin Mincle.. J Exp Med. 206(13):2879-88.

Krushkal J, Leang C, Barbe JF, Qu Y, Yan B, Puljic M, Adkins RM, Lovley DR. 2009. Diversity of promoter elements in a Geobacter sulfurreducens mutant adapted to disruption in electron transfer.. Funct Integr Genomics. 9(1):15-25.

Butler JE, Young ND, Lovley DR. 2009. Evolution from a respiratory ancestor to fill syntrophic and fermentative niches: comparative fenomics of six Geobacteraceae species.. BMC Genomics. 10:103.

Yi H, Nevin KP, Kim B-C, Franks AE, Klimes A, Tender LM, Lovley DR. 2009. Selection of a variant of Geobacter sulfurreducens with enhanced capacity for current production in microbial fuel cells.. Biosens Bioelectron. 24(12):3498-503.

2010

Nagarajan H, Butler JE, Klimes A, Qiu Y, Zengler K, Ward J, Young ND, Methé BA, Palsson BØ, Lovley DR et al.. 2010. De Novo assembly of the complete genome of an enhanced electricity-producing variant of Geobacter sulfurreducens using only short reads.. PLoS One. 5(6):e10922.

Butler JE, Young ND, Lovley DR. 2010. Evolution of electron transfer out of the cell: comparative genomics of six Geobacter genomes.. BMC Genomics. 11:40.

Aklujkar M, Young ND, Holmes D, Chavan M, Risso C, Kiss HE, Han CS, Land ML, Lovley DR. 2010. The genome of Geobacter bemidjiensis, exemplar for the subsurface clade of Geobacter species that predominate in Fe(III)-reducing subsurface environments.. BMC Genomics. 11:490.

Yang T H, Coppi MV, Lovley DR, Sun J. 2010. Metabolic response of Geobacter sulfurreducens towards electron donor/acceptor variation.. Microb Cell Fact. 9:90.

Morita YS, Yamaryo-Botte Y, Miyanagi K, Callaghan JM, Patterson JH, Crellin PK, Coppel RL, Billman-Jacobe H, Kinoshita T, McConville MJ. 2010. Stress-induced synthesis of phosphatidylinositol 3-phosphate in mycobacteria.. J Biol Chem. 285(22):16643-50.

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