Search Results - "Durkin, Scott A"

RefSeq and the prokaryotic genome annotation pipeline in the age of metagenomes by Haft, Daniel H, Badretdin, Azat, Coulouris, George, DiCuccio, Michael, Durkin, A Scott, Jovenitti, Eric, Li, Wenjun, Mersha, Megdelawit, O’Neill, Kathleen R, Virothaisakun, Joel, Thibaud-Nissen, Françoise

“…Abstract The Reference Sequence (RefSeq) project at the National Center for Biotechnology Information (NCBI) contains over 315 000 bacterial and archaeal…”
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Major Structural Differences and Novel Potential Virulence Mechanisms from the Genomes of Multiple Campylobacter Species by Fouts, Derrick E, Mongodin, Emmanuel F, Mandrell, Robert E, Miller, William G, Rasko, David A, Ravel, Jacques, Brinkac, Lauren M, DeBoy, Robert T, Parker, Craig T, Daugherty, Sean C, Dodson, Robert J, Durkin, A. Scott, Madupu, Ramana, Sullivan, Steven A, Shetty, Jyoti U, Ayodeji, Mobolanle A, Shvartsbeyn, Alla, Schatz, Michael C, Badger, Jonathan H, Fraser, Claire M, Nelson, Karen E

“…The genome of C. jejuni RM1221 is a single circular chromosome, 1,777,831 bp in length, with an average G+C content of 30.31%. There are a total of 1,884…”
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Comparative genomics of Gardnerella vaginalis strains reveals substantial differences in metabolic and virulence potential by Yeoman, Carl J, Yildirim, Suleyman, Thomas, Susan M, Durkin, A Scott, Torralba, Manolito, Sutton, Granger, Buhay, Christian J, Ding, Yan, Dugan-Rocha, Shannon P, Muzny, Donna M, Qin, Xiang, Gibbs, Richard A, Leigh, Steven R, Stumpf, Rebecca, White, Bryan A, Highlander, Sarah K, Nelson, Karen E, Wilson, Brenda A

“…Gardnerella vaginalis is described as a common vaginal bacterial species whose presence correlates strongly with bacterial vaginosis (BV). Here we report the…”
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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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Draft Genome Sequence of Turicibacter sanguinis PC909, Isolated from Human Feces by CUIV, Páraic O, KLAASSENS, Eline S, DURKIN, A. Scott, HARKINS, Derek M, FOSTER, Les, MCCORRISON, Jamison, TORRALBA, Manolito, NELSON, Karen E, MORRISON, Mark

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Genome Sequence of Synechococcus CC9311: Insights into Adaptation to a Coastal Environment by Palenik, Brian, Ren, Qinghu, Dupont, Chris L., Myers, Garry S., Heidelberg, John F., Badger, Jonathan H., Madupu, Ramana, Nelson, William C., Brinkac, Lauren M., Dodson, Robert J., Durkin, A. Scott, Daugherty, Sean C., Sullivan, Stephen A., Khouri, Hoda, Mohamoud, Yasmin, Halpin, Rebecca, Paulsen, Ian T.

“…Coastal aquatic environments are typically more highly productive and dynamic than open ocean ones. Despite these differences, cyanobacteria from the genus…”
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Life in hot carbon monoxide: the complete genome sequence of Carboxydothermus hydrogenoformans Z-2901 by Wu, Martin, Ren, Qinghu, Durkin, A Scott, Daugherty, Sean C, Brinkac, Lauren M, Dodson, Robert J, Madupu, Ramana, Sullivan, Steven A, Kolonay, James F, Haft, Daniel H, Nelson, William C, Tallon, Luke J, Jones, Kristine M, Ulrich, Luke E, Gonzalez, Juan M, Zhulin, Igor B, Robb, Frank T, Eisen, Jonathan A

“…We report here the sequencing and analysis of the genome of the thermophilic bacterium Carboxydothermus hydrogenoformans Z-2901. This species is a model for…”
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The complete genome of Teredinibacter turnerae T7901: an intracellular endosymbiont of marine wood-boring bivalves (shipworms) by Yang, Joyce C, Madupu, Ramana, Durkin, A Scott, Ekborg, Nathan A, Pedamallu, Chandra S, Hostetler, Jessica B, Radune, Diana, Toms, Bradley S, Henrissat, Bernard, Coutinho, Pedro M, Schwarz, Sandra, Field, Lauren, Trindade-Silva, Amaro E, Soares, Carlos A G, Elshahawi, Sherif, Hanora, Amro, Schmidt, Eric W, Haygood, Margo G, Posfai, Janos, Benner, Jack, Madinger, Catherine, Nove, John, Anton, Brian, Chaudhary, Kshitiz, Foster, Jeremy, Holman, Alex, Kumar, Sanjay, Lessard, Philip A, Luyten, Yvette A, Slatko, Barton, Wood, Nicole, Wu, Bo, Teplitski, Max, Mougous, Joseph D, Ward, Naomi, Eisen, Jonathan A, Badger, Jonathan H, Distel, Daniel L

“…Here we report the complete genome sequence of Teredinibacter turnerae T7901. T. turnerae is a marine gamma proteobacterium that occurs as an intracellular…”
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RefSeq: expanding the Prokaryotic Genome Annotation Pipeline reach with protein family model curation by Li, Wenjun, O’Neill, Kathleen R, Haft, Daniel H, DiCuccio, Michael, Chetvernin, Vyacheslav, Badretdin, Azat, Coulouris, George, Chitsaz, Farideh, Derbyshire, Myra K, Durkin, A Scott, Gonzales, Noreen R, Gwadz, Marc, Lanczycki, Christopher J, Song, James S, Thanki, Narmada, Wang, Jiyao, Yamashita, Roxanne A, Yang, Mingzhang, Zheng, Chanjuan, Marchler-Bauer, Aron, Thibaud-Nissen, Françoise

“…Abstract The Reference Sequence (RefSeq) project at the National Center for Biotechnology Information (NCBI) contains nearly 200 000 bacterial and archaeal…”
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Complete Genome Sequence of the Broad-Host-Range Vibriophage KVP40: Comparative Genomics of a T4-Related Bacteriophage by Miller, Eric S, Heidelberg, John F, Eisen, Jonathan A, Nelson, William C, Durkin, A Scott, Ciecko, Ann, Feldblyum, Tamara V, White, Owen, Paulsen, Ian T, Nierman, William C, Lee, Jong, Szczypinski, Bridget, Fraser, Claire M

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Draft Genome Sequence of Bacteroides vulgatus PC510, a Strain Isolated from Human Feces by O CUIV, Paraic, KLAASSENS, Eline S, SCOTT DURKIN, A, HARKING, Derek M, FOSTER, Les, MCCORRISON, Jamison, TORRALBA, Manolito, NELSON, Karen E, MORRISON, Mark

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Complete Genome Sequences of Mycoplasma leachii Strain PG50T and the Pathogenic Mycoplasma mycoides subsp. mycoides Small Colony Biotype Strain Gladysdale by Wise, Kim S, Calcutt, Michael J, Foecking, Mark F, Madupu, Ramana, DeBoy, Robert T, Röske, Kerstin, Hvinden, Miranda L, Martin, Tara R, Durkin, A. Scott, Glass, John I, Methé, Barbara A

“…Mycoplasma mycoides subsp. mycoides small colony biotype (SC) is the high-consequence animal pathogen causing contagious bovine pleuropneumonia. We report the…”
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Comparative genomics of plant-associated Pseudomonas spp.: insights into diversity and inheritance of traits involved in multitrophic interactions by Loper, Joyce E, Hassan, Karl A, Mavrodi, Dmitri V, Davis, 2nd, Edward W, Lim, Chee Kent, Shaffer, Brenda T, Elbourne, Liam D H, Stockwell, Virginia O, Hartney, Sierra L, Breakwell, Katy, Henkels, Marcella D, Tetu, Sasha G, Rangel, Lorena I, Kidarsa, Teresa A, Wilson, Neil L, van de Mortel, Judith E, Song, Chunxu, Blumhagen, Rachel, Radune, Diana, Hostetler, Jessica B, Brinkac, Lauren M, Durkin, A Scott, Kluepfel, Daniel A, Wechter, W Patrick, Anderson, Anne J, Kim, Young Cheol, Pierson, 3rd, Leland S, Pierson, Elizabeth A, Lindow, Steven E, Kobayashi, Donald Y, Raaijmakers, Jos M, Weller, David M, Thomashow, Linda S, Allen, Andrew E, Paulsen, Ian T

“…We provide here a comparative genome analysis of ten strains within the Pseudomonas fluorescens group including seven new genomic sequences. These strains…”
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Three Genomes from the Phylum Acidobacteria Provide Insight into the Lifestyles of These Microorganisms in Soils by Ward, Naomi L, Challacombe, Jean F, Janssen, Peter H, Henrissat, Bernard, Coutinho, Pedro M, Wu, Martin, Xie, Gary, Haft, Daniel H, Sait, Michelle, Badger, Jonathan, Barabote, Ravi D, Bradley, Brent, Brettin, Thomas S, Brinkac, Lauren M, Bruce, David, Creasy, Todd, Daugherty, Sean C, Davidsen, Tanja M, DeBoy, Robert T, Detter, J. Chris, Dodson, Robert J, Durkin, A. Scott, Ganapathy, Anuradha, Gwinn-Giglio, Michelle, Han, Cliff S, Khouri, Hoda, Kiss, Hajnalka, Kothari, Sagar P, Madupu, Ramana, Nelson, Karen E, Nelson, William C, Paulsen, Ian, Penn, Kevin, Ren, Qinghu, Rosovitz, M.J, Selengut, Jeremy D, Shrivastava, Susmita, Sullivan, Steven A, Tapia, Roxanne, Thompson, L. Sue, Watkins, Kisha L, Yang, Qi, Yu, Chunhui, Zafar, Nikhat, Zhou, Liwei, Kuske, Cheryl R

“…The complete genomes of three strains from the phylum Acidobacteria were compared. Phylogenetic analysis placed them as a unique phylum. They share genomic…”
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Genome Analysis of Multiple Pathogenic Isolates of Streptococcus agalactiae: Implications for the Microbial "Pan-Genome" by Tettelin, Hervé, Masignani, Vega, Cieslewicz, Michael J., Donati, Claudio, Medini, Duccio, Ward, Naomi L., Angiuoli, Samuel V., Crabtree, Jonathan, Jones, Amanda L., Durkin, A. Scott, DeBoy, Robert T., Davidsen, Tanja M., Mora, Marirosa, Scarselli, Maria, Immaculada Margarit y Ros, Peterson, Jeremy D., Hauser, Christopher R., Sundaram, Jaideep P., Nelson, William C., Madupu, Ramana, Brinkac, Lauren M., Dodson, Robert J., Rosovitz, Mary J., Sullivan, Steven A., Daugherty, Sean C., Haft, Daniel H., Selengut, Jeremy, Gwinn, Michelle L., Zhou, Liwei, Zafar, Nikhat, Khouri, Hoda, Radune, Diana, Dimitrov, George, Watkins, Kisha, Kevin J. B. O'Connor, Smith, Shannon, Utterback, Teresa R., White, Owen, Rubens, Craig E., Grandi, Guido, Madoff, Lawrence C., Kasper, Dennis L., Telford, John L., Wessels, Michael R., Rappuoli, Rino, Fraser, Claire M.

“…The development of efficient and inexpensive genome sequencing methods has revolutionized the study of human bacterial pathogens and improved vaccine design…”
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Insights on Evolution of Virulence and Resistance from the Complete Genome Analysis of an Early Methicillin-Resistant Staphylococcus aureus Strain and a Biofilm-Producing Methicillin-Resistant Staphylococcus epidermidis Strain by GILL, Steven R, FOUTS, Derrick E, DODSON, Robert J, DAUGHERTY, Sean C, MADUPU, Ramana, ANGIUOLI, Samuel V, DURKIN, A. Scott, HAFT, Daniel H, VAMATHEVAN, Jessica, KHOURI, Hoda, UTTERBACK, Terry, LEE, Chris, ARCHER, Gordon L, DIMITROV, George, LINGXIA JIANG, HAIYING QIN, JAN WEIDMAN, TRAN, Kevin, KANG, Kathy, HANCE, Ioana R, NELSON, Karen E, FRASER, Claire M, MONGODIN, Emmanuel F, DEBOY, Robert T, RAVEL, Jacques, PAULSEN, Ian T, KOLONAY, James F, BRINKAC, Lauren, BEANAN, Mauren

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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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Genome sequence of Silicibacter pomeroyi reveals adaptations to the marine environment by Moran, Mary Ann, Buchan, Alison, González, José M, Heidelberg, John F, Whitman, William B, Kiene, Ronald P, Henriksen, James R, King, Gary M, Belas, Robert, Fuqua, Clay, Brinkac, Lauren, Lewis, Matt, Johri, Shivani, Weaver, Bruce, Pai, Grace, Eisen, Jonathan A, Rahe, Elisha, Sheldon, Wade M, Ye, Wenying, Miller, Todd R, Carlton, Jane, Rasko, David A, Paulsen, Ian T, Ren, Qinghu, Daugherty, Sean C, Deboy, Robert T, Dodson, Robert J, Durkin, A. Scott, Madupu, Ramana, Nelson, William C, Sullivan, Steven A, Rosovitz, M. J, Haft, Daniel H, Selengut, Jeremy, Ward, Naomi

“…Since the recognition of prokaryotes as essential components of the oceanic food web, bacterioplankton have been acknowledged as catalysts of most major…”
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Genome sequence of the dissimilatory metal ion-reducing bacterium Shewanella oneidensis by Fraser, Claire M, Heidelberg, John F, Paulsen, Ian T, Nelson, Karen E, Gaidos, Eric J, Nelson, William C, Read, Timothy D, Eisen, Jonathan A, Seshadri, Rekha, Ward, Naomi, Methe, Barbara, Clayton, Rebecca A, Meyer, Terry, Tsapin, Alexandre, Scott, James, Beanan, Maureen, Brinkac, Lauren, Daugherty, Sean, DeBoy, Robert T, Dodson, Robert J, Durkin, A. Scott, Haft, Daniel H, Kolonay, James F, Madupu, Ramana, Peterson, Jeremy D, Umayam, Lowell A, White, Owen, Wolf, Alex M, Vamathevan, Jessica, Weidman, Janice, Impraim, Marjorie, Lee, Kathy, Berry, Kristy, Lee, Chris, Mueller, Jacob, Khouri, Hoda, Gill, John, Utterback, Terry R, McDonald, Lisa A, Feldblyum, Tamara V, Smith, Hamilton O, Venter, J. Craig, Nealson, Kenneth H

“…Shewanella oneidensis is an important model organism for bioremediation studies because of its diverse respiratory capabilities, conferred in part by…”
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