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2012 Journal Article Comparative analyses of foregut and hindgut bacterial communities in hoatzins and cowsGodoy-Vitorino, Filipa, Goldfarb, Katherine C., Karaoz, Ulas, Leal, Sara, Garcia-Amado, Maria A., Hugenholtz, Philip, Tringe, Susannah G., Brodie, Eoin L. and Dominguez-Bello, Maria Gloria (2012). Comparative analyses of foregut and hindgut bacterial communities in hoatzins and cows. ISME Journal, 6 (3), 531-541. doi: 10.1038/ismej.2011.131 |
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2012 Journal Article Complete genome sequence of the facultatively anaerobic, appendaged bacterium Muricauda ruestringensis type strain (B1(T))Huntemann, Marcel, Teshima, Hazuki, Lapidus, Alla, Nolan, Matt, Lucas, Susan, Hammon, Nancy, Deshpande, Shweta, Cheng, Jan-Fang, Tapia, Roxanne, Goodwin, Lynne A., Pitluck, Sam, Liolios, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Mavromatis, Konstantinos, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Pan, Chongle, Brambilla, Evelyne-Marie, Rohde, Manfred, Spring, Stefan, Goeker, Markus, Detter, John C., Bristow, James, Eisen, Jonathan A. ... Woyke, Tanja (2012). Complete genome sequence of the facultatively anaerobic, appendaged bacterium Muricauda ruestringensis type strain (B1(T)). Standards in Genomic Sciences, 6 (2), 185-193. doi: 10.4056/sigs.2786069 |
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2012 Journal Article Impact of training sets on classification of high-throughput bacterial 16s rRNA gene surveysWerner, Jeffrey J., Koren, Omry, Hugenholtz, Philip, DeSantis, Todd Z., Walters, William A., Caporaso, J. Gregory, Angenent, Largus T., Knight, Rob and Ley, Ruth E (2012). Impact of training sets on classification of high-throughput bacterial 16s rRNA gene surveys. ISME Journal, 6 (1), 94-103. doi: 10.1038/ismej.2011.82 |
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2012 Journal Article Complete genome sequence of the aerobic, heterotroph Marinithermus hydrothermalis type strain (T1(T)) from a deep-sea hydrothermal vent chimneyCopeland, Alex, Gu, Wei, Yasawong, Montri, Lapidus, Alla, Lucas, Susan, Deshpande, Shweta, Pagani, Ioanna, Tapia, Roxanne, Cheng, Jan-Fang, Goodwin, Lynne, Pitluck, Sam, Liolios, Konstantinos, Ivanova, Natalia, Mavromatis, Konstantinos, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Pan, Chongle, Brambilla, Evelyne-Marie, Rohde, Manfred, Tindall, Brian J., Sikorski, Johannes, Goker, Markus, Detter, John C., Bristow, James, Eisen, Jonathan A., Markowitz, Victor ... Woyke, Tanja (2012). Complete genome sequence of the aerobic, heterotroph Marinithermus hydrothermalis type strain (T1(T)) from a deep-sea hydrothermal vent chimney. Standards in Genomic Sciences, 6 (1), 21-30. doi: 10.4056/sigs.2435521 |
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2012 Journal Article Complete genome sequence of the termite hindgut bacterium Spirochaeta coccoides type strain (SPN1(T)), reclassification in the genus Sphaerochaeta as Sphaerochaeta coccoides comb. nov and emendations of the family Spirochaetaceae and the genus SphaerochaeAbt, Birte, Han, Cliff, Scheuner, Carmen, Lu, Megan, Lapidus, Alla, Nolan, Matt, Lucas, Susan, Hammon, Nancy, Deshpande, Shweta, Cheng, Jan-Fang, Tapia, Roxanne, Goodwin, Lynne A., Pitluck, Sam, Liolios, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Mavromatis, Konstantinos, Mikhailova, Natalia, Huntemann, Marcel, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Brambilla, Evelyne-Marie, Rohde, Manfred, Spring, Stefan, Gronow, Sabine, Goeker, Markus ... Detter, John C. (2012). Complete genome sequence of the termite hindgut bacterium Spirochaeta coccoides type strain (SPN1(T)), reclassification in the genus Sphaerochaeta as Sphaerochaeta coccoides comb. nov and emendations of the family Spirochaetaceae and the genus Sphaerochae. Standards in Genomic Sciences, 6 (2), 194-209. doi: 10.4056/sigs.2796069 |
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2012 Journal Article Complete genome sequence of the sulfur compounds oxidizing chemolithoautotroph Sulfuricurvum kujiense type strain (YK-1(T))Han, Cliff, Kotsyurbenko, Oleg, Chertkov, Olga, Held, Brittany, Lapidus, Alla, Nolan, Matt, Lucas, Susan, Hammon, Nancy, Deshpande, Shweta, Cheng, Jan-Fang, Tapia, Roxanne, Goodwin, Lynne, Pitluck, Sam, Liolios, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Mavromatis, Konstantinos, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Chang, Yun-juan, Jeffries, Cynthia D., Brambilla, Evelyne-Marie, Rohde, Manfred, Spring, Stefan, Sikorski, Johannes ... Detter, John C. (2012). Complete genome sequence of the sulfur compounds oxidizing chemolithoautotroph Sulfuricurvum kujiense type strain (YK-1(T)). Standards in Genomic Sciences, 6 (1), 94-103. doi: 10.4056/sigs.2456004 |
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2012 Journal Article Genome sequence of the Antarctic rhodopsins-containing flavobacterium Gillisia limnaea type strain (R-8282(T))Riedel, Thomas, Held, Brittany, Nolan, Matt, Lucas, Susan, Lapidus, Alla, Tice, Hope, Del Rio, Tijana Glavina, Cheng, Jan-Fang, Han, Cliff, Tapia, Roxanne, Goodwin, Lynne A., Pitluck, Sam, Liolios, Konstantinos, Mavromatis, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Rohde, Manfred, Tindall, Brian J., Detter, John C., Goeker, Markus, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip ... Woyke, Tanja (2012). Genome sequence of the Antarctic rhodopsins-containing flavobacterium Gillisia limnaea type strain (R-8282(T)). Standards in Genomic Sciences, 7 (1), 107-119. doi: 10.4056/sigs.3216895 |
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2012 Journal Article Complete genome sequence of the orange-red pigmented, radioresistant Deinococcus proteolyticus type strain (MRPT)Copeland, Alex, Zeytun, Ahmet, Yassawong, Montri, Nolan, Matt, Lucas, Susan, Hammon, Nancy, Deshpande, Shweta, Cheng, Jan-Fang, Han, Cliff, Tapia, Roxanne, Goodwin, Lynne A., Pitluck, Sam, Mavromatis, Konstantinos, Liolios, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Jeffries, Cynthia D., Brambilla, Evelyne-Marie, Rohde, Manfred, Sikorski, Johannes, Pukall, Ruediger, Goeker, Markus, Detter, John C. ... Lapidus, Alla (2012). Complete genome sequence of the orange-red pigmented, radioresistant Deinococcus proteolyticus type strain (MRPT). Standards in Genomic Sciences, 6 (2), 240-250. doi: 10.4056/sigs.2756060 |
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2012 Journal Article Permanent draft genome sequence of the gliding predator Saprospira grandis strain Sa g1 (=HR1)Mavromatis, Konstantinos, Chertkov, Olga, Lapidus, Alla, Nolan, Matt, Lucas, Susan, Tice, Hope, Del Rio, Tijana Glavina, Cheng, Jan-Fang, Han, Cliff, Tapia, Roxanne, Bruce, David, Goodwin, Lynne A., Pitluck, Sam, Huntemann, Marcel, Liolios, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Brambilla, Evelyne-Marie, Rohde, Manfred, Spring, Stefan, Goeker, Markus, Detter, John C., Bristow, James, Eisen, Jonathan A. ... Woyke, Tanja (2012). Permanent draft genome sequence of the gliding predator Saprospira grandis strain Sa g1 (=HR1). Standards in Genomic Sciences, 6 (2), 210-219. doi: 10.4056/sigs.2816096 |
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2012 Journal Article Complete genome sequence of the thermophilic sulfate-reducing ocean bacterium Thermodesulfatator indicus type strain (CIR29812(T))Anderson, Iain, Saunders, Elizabeth, Lapidus, Alla, Nolan, Matt, Lucas, Susan, Tice, Hope, Del Rio, Tijana Glavina, Cheng, Jan-Fang, Han, Cliff, Tapia, Roxanne, Goodwin, Lynne A., Pitluck, Sam, Liolios, Konstantinos, Mavromatis, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Jeffries, Cynthia D., Chang, Yun-juan, Brambilla, Evelyne-Marie, Rohde, Manfred, Spring, Stefan, Goeker, Markus, Detter, John C. ... Klenk, Hans-Peter (2012). Complete genome sequence of the thermophilic sulfate-reducing ocean bacterium Thermodesulfatator indicus type strain (CIR29812(T)). Standards in Genomic Sciences, 6 (2), 155-164. doi: 10.4056/sigs.2665915 |
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2012 Journal Article Genome sequence of the moderately thermophilic, amino-acid-degrading and sulfur-reducing bacterium Thermovirga lienii type strain (Cas60314(T))Goeker, Markus, Saunders, Elisabeth, Lapidus, Alla, Nolan, Matt, Lucas, Susan, Hammon, Nancy, Deshpande, Shweta, Cheng, Jan-Fang, Han, Cliff, Tapia, Roxanne, Goodwin, Lynne A., Pitluck, Sam, Liolios, Konstantinos, Mavromatis, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Chang, Yun-juan, Jeffries, Cynthia D., Brambilla, Evelyne-Marie, Rohde, Manfred, Spring, Stefan, Detter, John C., Woyke, Tanja, Bristow, James ... Klenk, Hans-Peter (2012). Genome sequence of the moderately thermophilic, amino-acid-degrading and sulfur-reducing bacterium Thermovirga lienii type strain (Cas60314(T)). Standards in Genomic Sciences, 6 (2), 230-239. doi: 10.4056/sigs.2726028 |
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2012 Journal Article Genome sequence of the orange-pigmented seawater bacterium Owenweeksia hongkongensis type strain (UST20020801(T))Riedel, Thomas, Held, Brittany, Nolan, Matt, Lucas, Susan, Lapidus, Alla, Tice, Hope, Del Rio, Tijana Glavina, Cheng, Jan-Fang, Han, Cliff, Tapia, Roxanne, Goodwin, Lynne A., Pitluck, Sam, Liolios, Konstantinos, Mavromatis, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Rohde, Manfred, Tindall, Brian J., Detter, John C., Goeker, Markus, Woyke, Tanja, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip ... Kyrpides, Nikos C. (2012). Genome sequence of the orange-pigmented seawater bacterium Owenweeksia hongkongensis type strain (UST20020801(T)). Standards in Genomic Sciences, 7 (1), 120-130. doi: 10.4056/sigs.3296896 |
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2012 Journal Article Complete genome sequence of the aquatic bacterium Runella slithyformis type strain (LSU 4(T))Copeland, Alex, Zhang, Xiaojing, Misra, Monica, Lapidus, Alla, Nolan, Matt, Lucas, Susan, Deshpande, Shweta, Cheng, Jan-Fang, Tapia, Roxanne, Goodwin, Lynne A., Pitluck, Sam, Liolios, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Pan, Chongle, Jeffries, Cynthia D., Detter, John C., Brambilla, Evelyne-Marie, Rohde, Manfred, Djao, Olivier D. Ngatchou, Goeker, Markus, Sikorski, Johannes, Tindall, Brian J. ... Mavromatis, Konstantinos (2012). Complete genome sequence of the aquatic bacterium Runella slithyformis type strain (LSU 4(T)). Standards in Genomic Sciences, 6 (2), 145-154. doi: 10.4056/sigs.2475579 |
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2012 Journal Article Genome sequence of the homoacetogenic bacterium holophaga foetida type strain (TMBS4(T))Anderson, Iain, Held, Brittany, Lapidus, Alla, Nolan, Matt, Lucas, Susan, Tice, Hope, Del Rio, Tijana Glavina, Cheng, Jan-Fang, Han, Cliff, Tapia, Roxanne, Goodwin, Lynne A., Pitluck, Sam, Liolios, Konstantinos, Mavromatis, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Brambilla, Evelyne-Marie, Rohde, Manfred, Spring, Stefan, Goeker, Markus, Detter, John C., Woyke, Tanja, Bristow, James, Eisen, Jonathan A. ... Kyrpides, Nikos C. (2012). Genome sequence of the homoacetogenic bacterium holophaga foetida type strain (TMBS4(T)). Standards in Genomic Sciences, 6 (2), 174-184. doi: 10.4056/sigs.2746047 |
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2011 Journal Article Genome sequence of the filamentous, gliding Thiothrix nivea neotype strain (JP2(T))Lapidus, Alla, Nolan, Matt, Lucas, Susan, Del Rio, Tijana Glavina, Tice, Hope, Cheng, Jan-Fang, Tapia, Roxanne, Han, Cliff, Goodwin, Lynne, Pitluck, Sam, Liolios, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Huntemann, Marcel, Mavromatis, Konstantinos, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Brambilla, Evelyne-Marie, Rohde, Manfred, Abt, Birte, Verbarg, Susanne, Goeker, Markus, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip ... Woyke, Tanja (2011). Genome sequence of the filamentous, gliding Thiothrix nivea neotype strain (JP2(T)). Standards in Genomic Sciences, 5 (3), 398-406. doi: 10.4056/sigs.2344929 |
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2011 Journal Article Complete genome sequence of Syntrophobotulus glycolicus type strain (FlGlyR T)Han, Cliff, Mwirichia, Romano, Chertkov, Olga, Held, Brittany, Lapidus, Alla, Nolan, Matt, Lucas, Susan, Hammon, Nancy, Deshpande, Shweta, Cheng, Jan-Fang, Tapia, Roxanne, Goodwin, Lynne, Pitluck, Sam, Huntemann, Marcel, Liolios, Konstantinos, Ivanova, Natalia, Pagani, Ioanna, Mavromatis, Konstantinos, Ovchinikova, Galina, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Brambilla, Evelyne-Marie, Rohde, Manfred, Spring, Stefan, Sikorski, Johannes, Göker, Markus ... Detter, John C. (2011). Complete genome sequence of Syntrophobotulus glycolicus type strain (FlGlyR T). Standards in Genomic Sciences, 4 (3), 371-380. doi: 10.4056/sigs.2004648 |
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2011 Journal Article Bioenergy feedstock-specific enrichment of microbial populations during high-solids thermophilic deconstructionReddy, Amitha P., Allgaier, Martin, Singer, Steven W., Hazen, Terry C., Simmons, Blake A., Hugenholtz, Philip and VanderGheynst, Jean S. (2011). Bioenergy feedstock-specific enrichment of microbial populations during high-solids thermophilic deconstruction. Biotechnology and Bioengineering, 108 (9), 2088-2098. doi: 10.1002/bit.23176 |
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2011 Journal Article Glycoside hydrolase activities of thermophilic bacterial consortia adapted to switchgrassGladden, John M., Allgaier, Martin, Miller, Christopher S., Hazen, Terry C., VanderGheynst, Jean S., Hugenholtz, Philip, Simmons, Blake A. and Singer, Steven W. (2011). Glycoside hydrolase activities of thermophilic bacterial consortia adapted to switchgrass. Applied and Environmental Microbiology, 77 (16), 5804-5812. doi: 10.1128/AEM.00032-11 |
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2011 Journal Article Isolation of Succinivibrionaceae implicated in low methane emissions from Tammar wallabiesPope, P. B., Smith, W., Denman, S. E., Tringe, S. G., Barry, K., Hugenholtz, P., McSweeney, C. S., McHardy, A. C. and Morrison, M. (2011). Isolation of Succinivibrionaceae implicated in low methane emissions from Tammar wallabies. Science, 333 (6042), 646-648. doi: 10.1126/science.1205760 |
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2011 Journal Article Phage encoded H-NS: A potential Achilles heel in the bacterial defence systemSkennerton, Connor T., Angly, Florent E., Breitbart, Mya, Bragg, Lauren, He, Shaomei, McMahon, Katherine D., Hugenholtz, Philip and Tyson, Gene W. (2011). Phage encoded H-NS: A potential Achilles heel in the bacterial defence system. Plos One, 6 (5) e20095, e20095-1-e20095-7. doi: 10.1371/journal.pone.0020095 |
