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2009 Journal Article Complete genome sequence of Beutenbergia cavernae type strain (HKI 0122(T))Land, Miriam, Pukall, Ruediger, Abt, Birte, Goeker, Markus, Rohde, Manfred, Del Rio, Tijana Glavina, Tice, Hope, Copeland, Alex, Cheng, Jan-Fang, Lucas, Susan, Chen, Feng, Nolan, Matt, Bruce, David, Goodwin, Lynne, Pitluck, Sam, Ivanova, Natalia, Mavromatis, Konstantinos, Ovchinnikova, Galina, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Hauser, Loren, Chang, Yun-Juan, Jefferies, Cynthia C., Saunders, Elizabeth, Brettin, Thomas, Detter, John C., Han, Cliff, Chain, Patrick ... Lapidus, Alla (2009). Complete genome sequence of Beutenbergia cavernae type strain (HKI 0122(T)). Standards in Genomic Sciences, 1 (1), 21-28. doi: 10.4056/sigs.1162 |
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2009 Journal Article Complete genome sequence of Thermanaerovibrio acidaminovorans type strain (Su883(T))Chovatia, Mansi, Sikorski, Johannes, Schroeder, Maren, Lapidus, Alla, Nolan, Matt, Tice, Hope, Del Rio, Tijana Glavina, Copeland, Alex, Cheng, Jan-Fang, Lucas, Susan, Chen, Feng, Bruce, David, Goodwin, Lynne, Pitluck, Sam, Ivanova, Natalia, Mavromatis, Konstantinos, Ovchinnikova, Galina, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Chang, Yun-Juan, Jeffries, Cynthia D., Chain, Patrick, Saunders, Elizabeth, Detter, John C., Brettin, Thomas, Rohde, Manfred ... Eisen, Jonathan A. (2009). Complete genome sequence of Thermanaerovibrio acidaminovorans type strain (Su883(T)). Standards in Genomic Sciences, 1 (3), 254-261. doi: 10.4056/sigs.40645 |
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2009 Journal Article Complete genome sequence of Sanguibacter keddieii type strain (ST-74(T))Ivanova, Natalia, Sikorski, Johannes, Sims, David, Brettin, Thomas, Detter, John C., Han, Cliff, Lapidus, Alla, Copeland, Alex, Del Rio, Tijana Glavina, Nolan, Matt, Chen, Feng, Lucas, Susan, Tice, Hope, Cheng, Jan-Fang, Bruce, David, Goodwin, Lynne, Pitluck, Sam, Pati, Amrita, Mavromatis, Konstantinos, Chen, Amy, Palaniappan, Krishna, D'haeseleer, Patrik, Chain, Patrick, Bristow, Jim, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip, Goeker, Markus, Pukall, Ruediger ... Kyrpides, Nikos C. (2009). Complete genome sequence of Sanguibacter keddieii type strain (ST-74(T)). Standards in Genomic Sciences, 1 (2), 110-118. doi: 10.4056/sigs16197 |
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2009 Book Chapter Single cell whole genome amplifications of uncultivated organismsPodar, Mircea, Keller, Martin and Hugenholtz, Philip (2009). Single cell whole genome amplifications of uncultivated organisms. Uncultivated microorganisms. (pp. 83-100) edited by Slava S. Epstein. Heidelberg, Germany: Springer. doi: 10.1007/7171_2008_10 |
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2009 Journal Article Complete genome sequence of Kytococcus sedentarius type strain (541(T))Sims, David, Brettin, Thomas, Detter, John C., Han, Cliff, Lapidus, Alla, Copeland, Alex, Del Rio, Tijana Glavina, Nolan, Matt, Chen, Feng, Lucas, Susan, Tice, Hope, Cheng, Jan-Fang, Bruce, David, Goodwin, Lynne, Pitluck, Sam, Ovchinnikova, Galina, Pati, Amrita, Ivanova, Natalia, Mavromatis, Konstantinos, Chen, Amy, Palaniappan, Krishna, D'haeseleer, Patrik, Chain, Patrick, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip, Schneider, Susanne, Goker, Markus ... Klenk, Hans-Peter (2009). Complete genome sequence of Kytococcus sedentarius type strain (541(T)). Standards in Genomic Sciences, 1 (1), 12-20. doi: 10.4056/sigs.761 |
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2009 Conference Publication Characterization and development of a systems-level understanding of microbial metabolism in the foregut microbiome of the Tammar wallaby (Macropus eugenii).Pope, P., Denman, S., Tringe, S., Hinds, L., Hugenholtz, P., McSweeney, C. and Morrison, M. (2009). Characterization and development of a systems-level understanding of microbial metabolism in the foregut microbiome of the Tammar wallaby (Macropus eugenii).. 2009 Conference on Gastrointestinal Function, Chicago, USA, 20-22 April, 2009. New York, NY, United States: Springer. doi: 10.1007/s00248-009-9496-x |
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2009 Journal Article Correlative tem and fish imaging of microbial communitiesKnierim, B., Webb, R., Wilmes, P., Hugenholtz, P., Liphardt, J., McDonald, K., Banfield, J. and Auer, M. (2009). Correlative tem and fish imaging of microbial communities. Microscopy and Microanalysis, 15 (Suppl. 2), 834-835. doi: 10.1017/S1431927609098250 |
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2009 Journal Article Complete genome sequence of Anaerococcus prevotii type strain (PC1(T))LaButti, Kurt, Pukall, Ruediger, Steenblock, Katja, Del Rio, Tijana Glavina, Tice, Hope, Copeland, Alex, Cheng, Jan-Fang, Lucas, Susan, Chen, Feng, Nolan, Matt, Bruce, David, Goodwin, Lynne, Pitluck, Sam, Ivanova, Natalia, Mavromatis, Konstantinos, Ovchinnikova, Galina, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Chang, Yun-Juan, Jeffries, Cynthia D., Chain, Patrick, Saunders, Elizabeth, Brettin, Thomas, Detter, John C., Han, Cliff, Goeker, Markus ... Lapidus, Alla (2009). Complete genome sequence of Anaerococcus prevotii type strain (PC1(T)). Standards in Genomic Sciences, 1 (2), 159-165. doi: 10.4056/sigs.2494 |
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2009 Journal Article Complete genome sequence of Dyadobacter fermentans type strain (NS114(T))Lang, Elke, Lapidus, Alla, Chertkov, Olga, Brettin, Thomas, Detter, John C., Han, Cliff, Copeland, Alex, Del Rio, Tijana Glavina, Nolan, Matt, Chen, Feng, Lucas, Susan, Tice, Hope, Cheng, Jan-Fang, Land, Miriam, Hauser, Loren, Chang, Yun-Juan, Jeffries, Cynthia D., Kopitz, Marcus, Bruce, David, Goodwin, Lynne, Pitluck, Sam, Ovchinnikova, Galina, Pati, Amrita, Ivanova, Natalia, Mavrommatis, Konstantinos, Chen, Amy, Palaniappan, Krishna, Chain, Patrick, Bristow, Jim ... Klenk, Hans-Peter (2009). Complete genome sequence of Dyadobacter fermentans type strain (NS114(T)). Standards in Genomic Sciences, 1 (2), 133-140. doi: 10.4056/sigs.19262 |
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2009 Journal Article Complete genome sequence of Desulfotomaculum acetoxidans type strain (5575(T))Spring, Stefan, Lapidus, Alla, Schroeder, Maren, Gleim, Dorothea, Sims, David, Meincke, Linda, Del Rio, Tijana Glavina, Tice, Hope, Copeland, Alex, Cheng, Jan-Fang, Lucas, Susan, Chen, Feng, Nolan, Matt, Bruce, David, Goodwin, Lynne, Pitluck, Sam, Ivanova, Natalia, Mavromatis, Konstantinos, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Chang, Yun-Juan, Jeffries, Cynthia D., Chain, Patrick, Saunders, Elizabeth, Brettin, Thomas ... Han, Cliff (2009). Complete genome sequence of Desulfotomaculum acetoxidans type strain (5575(T)). Standards in Genomic Sciences, 1 (3), 242-252. doi: 10.4056/sigs.39508 |
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2009 Journal Article Complete genome sequence of Stackebrandtia nassauensis type strain (LLR-40K-21(T))Munk, Chris, Lapidus, Alla, Copeland, Alex, Jando, Marlen, Mayilraj, Shanmugam, Del Rio, Tijana Glavina, Nolan, Matt, Chen, Feng, Lucas, Susan, Tice, Hope, Cheng, Jan-Fang, Han, Cliff, Detter, John C., Bruce, David, Goodwin, Lynne, Chain, Patrick, Pitluck, Sam, Goeker, Markus, Ovchinikova, Galina, Pati, Amrita, Ivanova, Natalia, Mavromatis, Konstantinos, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Chang, Yun-Juan, Jeffries, Cynthia D., Bristow, Jim ... Klenk, Hans-Peter (2009). Complete genome sequence of Stackebrandtia nassauensis type strain (LLR-40K-21(T)). Standards in Genomic Sciences, 1 (3), 292-299. doi: 10.4056/sigs.47643 |
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2008 Journal Article A bioinformatician's guide to metagenomicsKunin, V., Copeland, A., Lapidus, A., Mavromatis, K. and Hugenholtz, P. (2008). A bioinformatician's guide to metagenomics. Microbiology and Molecular Biology Reviews, 72 (4), 557-578. doi: 10.1128/MMBR.00009-08 |
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2008 Journal Article A novel ecological role of the Firmicutes identified in thermophilic microbial fuel cellsWrighton, Kelly C., Agbo, Peter, Warnecke, Falk, Weber, Karrie A., Brodie, Eoin L., DeSantis, Todd Z., Hugenholtz, Philip, Andersen, Gary L. and Coates, John D. (2008). A novel ecological role of the Firmicutes identified in thermophilic microbial fuel cells. The ISME Journal, 2 (11), 1146-1156. doi: 10.1038/ismej.2008.48 |
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2008 Journal Article Environmental distribution and population biology of Candidatus Accumulibacter, a primary agent of biological phosphorus removalPeterson, S. Brook, Warnecke, Falk, Madejska, Julita, McMahon, Katherine D. and Hugenholtz, Philip (2008). Environmental distribution and population biology of Candidatus Accumulibacter, a primary agent of biological phosphorus removal. Environmental Microbiology, 10 (10), 2692-2703. doi: 10.1111/j.1462-2920.2008.01690.x |
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2008 Journal Article A renaissance for the pioneering 16S rRNA geneTringe, SG and Hugenholtz, P (2008). A renaissance for the pioneering 16S rRNA gene. Current Opinions in Microbiology, 11 (5), 442-446. doi: 10.1016/j.mib.2008.09.011 |
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2008 Journal Article Microbiology: MetagenomicsHugenhotz, Philip and Tyson, Gene W. (2008). Microbiology: Metagenomics. Nature, 455 (7212), 481-483. doi: 10.1038/455481a |
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2008 Journal Article Evolution of Hyaluronic Acid Synthesis (has) Operon in Streptococcus zooepidemicus and other Pathogenic StreptococciLars M. Blank, Philip Hugenholtz and Nielsen, Lars K. (2008). Evolution of Hyaluronic Acid Synthesis (has) Operon in Streptococcus zooepidemicus and other Pathogenic Streptococci. Journal of Molecular Evolution, 67 (1), 13-22. doi: 10.1007/s00239-008-9117-1 |
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2008 Journal Article Millimeter-scale genetic gradients and community-level molecular convergence in a hypersaline microbial matKunin, Victor, Raes, Jeroen, Harris, J. Kirk, Spear, John R., Walker, Jeffrey J., Ivanova, Natalia, Von Mering, Christian, Bebout, Brad M., Pace, Norman R., Bork, Peer and Hugenholtz, Philip (2008). Millimeter-scale genetic gradients and community-level molecular convergence in a hypersaline microbial mat. Molecular Systems Biology, 4 (1) 198, 198. doi: 10.1038/msb.2008.35 |
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2008 Journal Article A korarchaeal genome reveals insights into the evolution of the ArchaeaElkins, James G., Podar, Mircea, Graham, David E., Makarova, Kira S., Wolf, Yuri, Randau, Lennart, Hedlund, Brian P., Brochier-Armanet, Celine, Kunin, Victor, Anderson, Iain, Lapidus, Alla, Goltsman, Eugene, Barry, Kerrie, Koonin, Eugene V., Hugenholtz, Philip, Kyrpides, Nikos, Wanner, Gerhard, Richardson, Paul, Keller, Martin and Stetter, Karl O. (2008). A korarchaeal genome reveals insights into the evolution of the Archaea. Proceedings of the National Academy of Sciences of the United States of America, 105 (23), 8102-8107. doi: 10.1073/pnas.0801980105 |
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2008 Journal Article The minimum information about a genome sequence (MIGS) specificationField, Dawn, Garrity, George, Gray, Tanya, Morrison, Norman, Selengut, Jeremy, Sterk, Peter, Tatusova, Tatiana, Thomson, Nicholas, Allen, Michael J., Angiuoli, Samuel V., Ashburner, Michael, Axelrod, Nelson, Baldauf, Sandra, Ballard, Stuart, Boore, Jeffrey, Cochrane, Guy, Cole, James, Dawyndt, Peter, De Vos, Paul, dePamphilis, Claude, Edwards, Robert, Faruque, Nadeem, Feldman, Robert, Gilbert, Jack, Gilna, Paul, Glockner, Frank Oliver, Goldstein, Philip, Guralnick, Robert, Haft, Dan ... Wipat, Anil (2008). The minimum information about a genome sequence (MIGS) specification. Nature Biotechnology, 26 (5), 541-547. doi: 10.1038/nbt1360 |
