Search Results - "Kolonay, J."

Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440 by Nelson, K. E., Weinel, C., Paulsen, I. T., Dodson, R. J., Hilbert, H., Martins dos Santos, V. A. P., Fouts, D. E., Gill, S. R., Pop, M., Holmes, M., Brinkac, L., Beanan, M., DeBoy, R. T., Daugherty, S., Kolonay, J., Madupu, R., Nelson, W., White, O., Peterson, J., Khouri, H., Hance, I., Lee, P. Chris, Holtzapple, E., Scanlan, D., Tran, K., Moazzez, A., Utterback, T., Rizzo, M., Lee, K., Kosack, D., Moestl, D., Wedler, H., Lauber, J., Stjepandic, D., Hoheisel, J., Straetz, M., Heim, S., Kiewitz, C., Eisen, J., Timmis, K. N., Düsterhöft, A., Tümmler, B., Fraser, C. M.

“…Summary Pseudomonas putida is a metabolically versatile saprophytic soil bacterium that has been certified as a biosafety host for the cloning of foreign…”
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Whole-Genome Comparison of Mycobacterium tuberculosis Clinical and Laboratory Strains by Fleischmann, R D, Alland, D, Eisen, J A, Carpenter, L, White, O, Peterson, J, DeBoy, R, Dodson, R, Gwinn, M, Haft, D, Hickey, E, Kolonay, J F, Nelson, W C, Umayam, L A, Ermolaeva, M, Salzberg, S L, Delcher, A, Utterback, T, Weidman, J, Khouri, H, Gill, J, Mikula, A, Bishai, W, Jacobs, Jr, W R, Venter, J C, Fraser, C M

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Genome of Geobacter sulfurreducens: Metal Reduction in Subsurface Environments by Methé, B. A., Nelson, K. E., Eisen, J. A., Paulsen, I. T., Nelson, W., Heidelberg, J. F., Wu, D., Wu, M., Ward, N., Beanan, M. J., Dodson, R. J., Madupu, R., Brinkac, L. M., Daugherty, S. C., DeBoy, R. T., Durkin, A. S., Gwinn, M., Kolonay, J. F., Sullivan, S. A., Haft, D. H., Selengut, J., Davidsen, T. M., Zafar, N., White, O., Tran, B., Romero, C., H. A Forberger, Weidman, J., Khouri, H., Feldblyum, T. V., Utterback, T. R., Van Aken, S. E., Lovley, D. R., Fraser, C. M.

“…The complete genome sequence of Geobacter sulfurreducens, a δ-proteobacterium, reveals unsuspected capabilities, including evidence of aerobic metabolism,…”
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Role of Mobile DNA in the Evolution of Vancomycin-Resistant Enterococcus faecalis by Paulsen, I. T., Banerjei, L., Myers, G. S. A., Nelson, K. E., Seshadri, R., Read, T. D., Fouts, D. E., Eisen, J. A., Gill, S. R., Heidelberg, J. F., Tettelin, H., Dodson, R. J., Umayam, L., Brinkac, L., Beanan, M., Daugherty, S., DeBoy, R. T., Durkin, S., Kolonay, J., Madupu, R., Nelson, W., Vamathevan, J., Tran, B., Upton, J., Hansen, T., Shetty, J., Khouri, H., Utterback, T., Radune, D., Ketchum, K. A., Dougherty, B. A., Fraser, C. M.

“…The complete genome sequence of Enterococcus faecalis V583, a vancomycin-resistant clinical isolate, revealed that more than a quarter of the genome consists…”
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Genome sequences of Chlamydia trachomatis MoPn and Chlamydia pneumoniae AR39 by Read, T D, Brunham, R C, Shen, C, Gill, S R, Heidelberg, J F, White, O, Hickey, E K, Peterson, J, Utterback, T, Berry, K, Bass, S, Linher, K, Weidman, J, Khouri, H, Craven, B, Bowman, C, Dodson, R, Gwinn, M, Nelson, W, DeBoy, R, Kolonay, J, McClarty, G, Salzberg, S L, Eisen, J, Fraser, C M

“…The genome sequences of Chlamydia trachomatis mouse pneumonitis (MoPn) strain Nigg (1 069 412 nt) and Chlamydia pneumoniae strain AR39 (1 229 853 nt) were…”
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Genetic Analysis of a High-Level Vancomycin-Resistant Isolate of Staphylococcus aureus by Weigel, Linda M., Clewell, Don B., Gill, Steven R., Clark, Nancye C., McDougal, Linda K., Flannagan, Susan E., Kolonay, James F., Shetty, Jyoti, Killgore, George E., Tenover, Fred C.

“…Vancomycin is usually reserved for treatment of serious infections, including those caused by multidrug-resistant Staphylococcus aureus. A clinical isolate of…”
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Phylogenomics of the reproductive parasite Wolbachia pipientis wMel: a streamlined genome overrun by mobile genetic elements by Wu, Martin, Sun, Ling V, Vamathevan, Jessica, Riegler, Markus, Deboy, Robert, Brownlie, Jeremy C, McGraw, Elizabeth A, Martin, William, Esser, Christian, Ahmadinejad, Nahal, Wiegand, Christian, Madupu, Ramana, Beanan, Maureen J, Brinkac, Lauren M, Daugherty, Sean C, Durkin, A Scott, Kolonay, James F, Nelson, William C, Mohamoud, Yasmin, Lee, Perris, Berry, Kristi, Young, M Brook, Utterback, Teresa, Weidman, Janice, Nierman, William C, Paulsen, Ian T, Nelson, Karen E, Tettelin, Hervé, O'Neill, Scott L, Eisen, Jonathan A

“…The complete sequence of the 1,267,782 bp genome of Wolbachia pipientis wMel, an obligate intracellular bacteria of Drosophila melanogaster, has been…”
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complete genome sequence of the Arabidopsis and tomato pathogen Pseudomonas syringae pv. tomato DC3000 by Buell, C. Robin, Joardar, Vinita, Lindeberg, Magdalen, Selengut, Jeremy, Paulsen, Ian T, Gwinn, Michelle L, Dodson, Robert J, Deboy, Robert T, Durkin, A. Scott, Kolonay, James F, Madupu, Ramana, Daugherty, Sean, Brinkac, Lauren, Beanan, Maureen J, Haft, Daniel H, Nelson, William C, Davidsen, Tanja, Zafar, Nikhat, Zhou, Liwei, Liu, Jia, Yuan, Qiaoping, Khouri, Hoda, Fedorova, Nadia, Tran, Bao, Russell, Daniel, Berry, Kristi, Utterback, Teresa, Van Aken, Susan E, Feldblyum, Tamara V, D'Ascenzo, Mark, Deng, Wen-Ling, Ramos, Adela R, Alfano, James R, Cartinhour, Samuel, Chatterjee, Arun K, Delaney, Terrence P, Lazarowitz, Sondra G, Martin, Gregory B, Schneider, David J, Tang, Xiaoyan, Bender, Carol L, White, Owen, Fraser, Claire M, Collmer, Alan

“…We report the complete genome sequence of the model bacterial pathogen Pseudomonas syringae pathovar tomato DC3000 (DC3000), which is pathogenic on tomato and…”
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The genome sequence of the anaerobic, sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough by Heidelberg, John F, Seshadri, Rekha, Haveman, Shelley A, Hemme, Christopher L, Paulsen, Ian T, Kolonay, James F, Eisen, Jonathan A, Ward, Naomi, Methe, Barbara, Brinkac, Lauren M, Daugherty, Sean C, Deboy, Robert T, Dodson, Robert J, Durkin, A Scott, Madupu, Ramana, Nelson, William C, Sullivan, Steven A, Fouts, Derrick, Haft, Daniel H, Selengut, Jeremy, Peterson, Jeremy D, Davidsen, Tanja M, Zafar, Nikhat, Zhou, Liwei, Radune, Diana, Dimitrov, George, Hance, Mark, Tran, Kevin, Khouri, Hoda, Gill, John, Utterback, Terry R, Feldblyum, Tamara V, Wall, Judy D, Voordouw, Gerrit, Fraser, Claire M

“…Desulfovibrio vulgaris Hildenborough is a model organism for studying the energy metabolism of sulfate-reducing bacteria (SRB) and for understanding the…”
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The genome sequence of Bacillus anthracis Ames and comparison to closely related bacteria by Read, Timothy D, Peterson, Scott N, Tourasse, Nicolas, Baillie, Les W, Paulsen, Ian T, Nelson, Karen E, Tettelin, Hervé, Fouts, Derrick E, Eisen, Jonathan A, Gill, Steven R, Holtzapple, Erik K, Økstad, Ole Andreas, Helgason, Erlendur, Rilstone, Jennifer, Wu, Martin, Kolonay, James F, Beanan, Maureen J, Dodson, Robert J, Brinkac, Lauren M, Gwinn, Michelle, DeBoy, Robert T, Madpu, Ramana, Daugherty, Sean C, Durkin, A. Scott, Haft, Daniel H, Nelson, William C, Peterson, Jeremy D, Pop, Mihai, Khouri, Hoda M, Radune, Diana, Benton, Jonathan L, Mahamoud, Yasmin, Jiang, Lingxia, Hance, Ioana R, Weidman, Janice F, Berry, Kristi J, Plaut, Roger D, Wolf, Alex M, Watkins, Kisha L, Nierman, William C, Hazen, Alyson, Cline, Robin, Redmond, Caroline, Thwaite, Joanne E, White, Owen, Salzberg, Steven L, Thomason, Brendan, Friedlander, Arthur M, Koehler, Theresa M, Hanna, Philip C, Kolstø, Anne-Brit, Fraser, Claire M

“…Bacillus anthracis is an endospore-forming bacterium that causes inhalational anthrax. Key virulence genes are found on plasmids (extra-chromosomal, circular,…”
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Complete Genome Sequence of a Virulent Isolate of Streptococcus pneumoniae by Tettelin, Hervé, Nelson, Karen E., Paulsen, Ian T., Eisen, Jonathan A., Read, Timothy D., Peterson, Scott, Heidelberg, John, DeBoy, Robert T., Haft, Daniel H., Dodson, Robert J., Durkin, A. Scott, Gwinn, Michelle, Kolonay, James F., Nelson, William C., Peterson, Jeremy D., Umayam, Lowell A., White, Owen, Salzberg, Steven L., Lewis, Matthew R., Radune, Diana, Holtzapple, Erik, Khouri, Hoda, Wolf, Alex M., Utterback, Terry R., Hansen, Cheryl L., McDonald, Lisa A., Feldblyum, Tamara V., Angiuoli, Samuel, Dickinson, Tanja, Hickey, Erin K., Holt, Ingeborg E., Loftus, Brendan J., Yang, Fan, Smith, Hamilton O., Venter, J. Craig, Dougherty, Brian A., Morrison, Donald A., Hollingshead, Susan K., Fraser, Claire M.

“…The 2,160,837-base pair genome sequence of an isolate of Streptococcus pneumoniae, a Gram-positive pathogen that causes pneumonia, bacteremia, meningitis, and…”
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Complete Genome Sequence of the Oral Pathogenic Bacterium Porphyromonas gingivalis Strain W83 by Nelson, Karen E, Fleischmann, Robert D, DeBoy, Robert T, Paulsen, Ian T, Fouts, Derrick E, Eisen, Jonathan A, Daugherty, Sean C, Dodson, Robert J, Durkin, A Scott, Gwinn, Michelle, Haft, Daniel H, Kolonay, James F, Nelson, William C, Mason, Tanya, Tallon, Luke, Gray, Jessica, Granger, David, Tettelin, Hervé, Dong, Hong, Galvin, Jamie L, Duncan, Margaret J, Dewhirst, Floyd E, Fraser, Claire M

“…AUTHOR'S CORRECTION ( vol. 186 , p. 593 ) Article Usage Stats Services JB Citing Articles Google Scholar PubMed Related Content Social Bookmarking CiteULike…”
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Complete Genome Sequence of Caulobacter crescentus by Nierman, William C., Feldblyum, Tamara V., Laub, Michael T., Paulsen, Ian T., Nelson, Karen E., Eisen, Jonathan, Heidelberg, John F., Alley, M. R. K., Ohta, Noriko, Maddock, Janine R., Potocka, Isabel, Nelson, William C., Newton, Austin, Stephens, Craig, Phadke, Nikhil D., Ely, Bert, DeBoy, Robert T., Dodson, Robert J., Durkin, A. Scott, Gwinn, Michelle L., Haft, Daniel H., Kolonay, James F., Smit, John, Craven, M. B., Khouri, Hoda, Shetty, Jyoti, Berry, Kristi, Utterback, Teresa, Tran, Kevin, Wolf, Alex, Vamathevan, Jessica, Ermolaeva, Maria, White, Owen, Salzberg, Steven L., Venter, J. Craig, Shapiro, Lucy, Fraser, Claire M.

“…The complete genome sequence of Caulobacter crescentus was determined to be 4,016,942 base pairs in a single circular chromosome encoding 3,767 genes. This…”
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Purification and characterization of the cytochrome bd complex from Azotobacter vinelandii: comparison to the complex from Escherichia coli by KOLONAY, J. F, FARHAD MOSHIRI, GENNIS, R. B, KAYSSER, T. M, MAIER, R. J

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Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440 by Nelson, K. E., Weinel, C., Paulsen, I. T., Dodson, R. J., Hilbert, H., Martins dos Santos, V. A. P., Fouts, D. E., Gill, S. R., Pop, M., Holmes, M., Brinkac, L., Beanan, M., DeBoy, R. T., Daugherty, S., Kolonay, J., Madupu, R., Nelson, W., White, O., Peterson, J., Khouri, H., Hance, I., Lee, P. Chris, Holtzapple, E., Scanlan, D., Tran, K., Moazzez, A., Utterback, T., Rizzo, M., Lee, K., Kosack, D., Moestl, D., Wedler, H., Lauber, J., Stjepandic, D., Hoheisel, J., Straetz, M., Heim, S., Kiewitz, C., Eisen, J. A., Timmis, K. N., Düsterhöft, A., Tümmler, B., Fraser, C. M.

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Formation of pH and potential gradients by the reconstituted Azotobacter vinelandii cytochrome bd respiratory protection oxidase by Kolonay, J.F. Jr. (The Johns Hopkins University, Baltimore, MD.), Maier, R.J

“…To directly characterize the bioenergetic properties of the cytochrome bd terminating branch of the Azotobacter vinelandii electron transport chain, the…”
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The genome sequence of Bacillus cereus ATCC 10987 reveals metabolic adaptations and a large plasmid related to Bacillus anthracis pXO1 by Rasko, David A., Ravel, Jacques, Økstad, Ole Andreas, Helgason, Erlendur, Cer, Regina Z., Jiang, Lingxia, Shores, Kelly A., Fouts, Derrick E., Tourasse, Nicolas J., Angiuoli, Samuel V., Kolonay, James, Nelson, William C., Kolstø, Anne‐Brit, Fraser, Claire M., Read, Timothy D.

“…We sequenced the complete genome of Bacillus cereus ATCC 10987, a non‐lethal dairy isolate in the same genetic subgroup as Bacillus anthracis. Comparison of…”
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The Brucella suis Genome Reveals Fundamental Similarities between Animal and Plant Pathogens and Symbionts by Paulsen, Ian T., Seshadri, Rekha, Nelson, Karen E., Eisen, Jonathan A., Heidelberg, John F., Read, Timothy D., Dodson, Robert J., Umayam, Lowell, Brinkac, Lauren M., Beanan, Maureen J., Daugherty, Sean C., Deboy, Robert T., Durkin, A. Scott, Kolonay, James F., Madupu, Ramana, Nelson, William C., Ayodeji, Bola, Kraul, Margaret, Shetty, Jyoti, Malek, Joel, van Aken, Susan E., Riedmuller, Steven, Tettelin, Herve, Gill, Steven R., White, Owen, Salzberg, Steven L., Hoover, David L., Lindler, Luther E., Halling, Shirley M., Boyle, Stephen M., Fraser, Claire M.

“…The 3.31-Mb genome sequence of the intracellular pathogen and potential bioterrorism agent, Brucella suis, was determined. Comparison of B. suis with Brucella…”
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Comparison of the Genome of the Oral Pathogen Treponema denticola with Other Spirochete Genomes by Seshadri, Rekha, Garry S. A. Myers, Tettelin, Hervé, Eisen, Jonathan A., Heidelberg, John F., Dodson, Robert J., Davidsen, Tanja M., DeBoy, Robert T., Fouts, Derrick E., Haft, Dan H., Selengut, Jeremy, Ren, Qinghu, Brinkac, Lauren M., Madupu, Ramana, Kolonay, Jamie, Durkin, Scott A., Daugherty, Sean C., Shetty, Jyoti, Shvartsbeyn, Alla, Gebregeorgis, Elizabeth, Geer, Keita, Tsegaye, Getahun, Malek, Joel, Ayodeji, Bola, Shatsman, Sofiya, McLeod, Michael P., Šmajs, David, Howell, Jerrilyn K., Pal, Sangita, Amin, Anita, Vashisth, Pankaj, McNeill, Thomas Z., Xiang, Qin, Sodergren, Erica, Baca, Ernesto, Weinstock, George M., Norris, Steven J., Fraser, Claire M., Paulsen, Ian T., Haselkorn, Robert

“…We present the complete 2,843,201-bp genome sequence of Treponema denticola (ATCC 35405) an oral spirochete associated with periodontal disease. Analysis of…”
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The Complete Genome Sequence of Chlorobium tepidum TLS, A Photosynthetic, Anaerobic, Green-Sulfur Bacterium by Eisen, Jonathan A., Nelson, Karen E., Paulsen, Ian T., Heidelberg, John F., Wu, Martin, Dodson, Robert J., Deboy, Robert, Gwinn, Michelle L., Nelson, William C., Haft, Daniel H., Hickey, Erin K., Peterson, Jeremy D., Durkin, A. Scott, Kolonay, James L., Yang, Fan, Holt, Ingeborg, Umayam, Lowell A., Mason, Tanya, Brenner, Michael, Shea, Terrance P., Parksey, Debbie, Nierman, William C., Feldblyum, Tamara V., Hansen, Cheryl L., Craven, M. Brook, Radune, Diana, Vamathevan, Jessica, Khouri, Hoda, White, Owen, Gruber, Tanja M., Ketchum, Karen A., Venter, J. Craig, Tettelin, Hervé, Bryant, Donald A., Fraser, Claire M.

“…The complete genome of the green-sulfur eubacterium Chlorobium tepidum TLS was determined to be a single circular chromosome of 2,154,946 bp. This represents…”
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