Standards in Genomic Sciences

Volume 4, Issue 3

Short Genome Reports

Complete genome sequence of Rhodospirillum rubrum type strain (S1T)

A. Christine Munk, Alex Copeland, Susan Lucas, Alla Lapidus, Tijana Glavina Del Rio, Kerrie Barry, John C. Detter, Nancy Hammon, Sanjay Israni, Sam Pitluck, Thomas Brettin, David Bruce, Cliff Han, Roxanne Tapia, Paul Gilna, Jeremy Schmutz, Frank Larimer, Miriam Land, Nikos C. Kyrpides, Konstantinos Mavromatis, Paul Richardson, Manfred Rohde, Markus Göker, Hans-Peter Klenk, Yaoping Zhang, Gary P. Roberts, Susan Reslewic and David C. Schwartz

Stand Genomic Sci 2011; 4(3):293-302

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Short Genome Reports

Complete genome sequence of the thermophilic sulfur-reducer Hippea maritima type strain (MH2T)

Marcel Huntemann, Megan Lu, Matt Nolan, Alla Lapidus, Susan Lucas, Nancy Hammon, Shweta Deshpande, Jan-Fang Cheng, Roxanne Tapia, Cliff Han, Lynne Goodwin, Sam Pitluck, Konstantinos Liolios, Ioanna Pagani, Natalia Ivanova, Galina Ovchinikova, Amrita Pati, Amy Chen, Krishna Palaniappan, Miriam Land, Loren Hauser, Cynthia D. Jeffries, John C. Detter, Evelyne-Marie Brambilla, Manfred Rohde, Stefan Spring, Markus Göker, Tanja Woyke, James Bristow, Jonathan A. Eisen, Victor Markowitz, Philip Hugenholtz, Nikos C. Kyrpides, Hans-Peter Klenk and Konstantinos Mavromatis

Stand Genomic Sci 2011; 4(3):303-311

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Short Genome Reports

Complete genome sequence of the extremely halophilic Halanaerobium praevalens type strain (GSLT)

Natalia Ivanova, Johannes Sikorski, Olga Chertkov, Matt Nolan, Susan Lucas, Nancy Hammon, Shweta Deshpande, Jan-Fang Cheng, Roxanne Tapia, Cliff Han, Lynne Goodwin, Sam Pitluck, Marcel Huntemann, Konstantinos Liolios, Ioanna Pagani, Konstantinos Mavromatis, Galina Ovchinikova, Amrita Pati, Amy Chen, Krishna Palaniappan, Miriam Land, Loren Hauser, Evelyne-Marie Brambilla, K. Palani Kannan, Manfred Rohde, Brian J. Tindall, Markus Göker, John C. Detter, Tanja Woyke, James Bristow, Jonathan A. Eisen, Victor Markowitz, Philip Hugenholtz, Nikos C. Kyrpides, Hans-Peter Klenk and Alla Lapidus

Stand Genomic Sci 2011; 4(3):312-321

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Short Genome Reports

Complete genome sequence of Nitratifractor salsuginis type strain (E9I37-1T)

Iain Anderson, Johannes Sikorski, Ahmet Zeytun, Matt Nolan, Alla Lapidus, Susan Lucas, Nancy Hammon, Shweta Deshpande, Jan-Fang Cheng, Roxanne Tapia, Cliff Han, Lynne Goodwin, Sam Pitluck, Konstantinos Liolios, Ioanna Pagani, Natalia Ivanova, Marcel Huntemann, Konstantinos Mavromatis, Galina Ovchinikova, Amrita Pati, Amy Chen, Krishna Palaniappan, Miriam Land, Loren Hauser, Evelyne-Marie Brambilla, Olivier D. Ngatchou-Djao, Manfred Rohde, Brian J. Tindall, Markus Göker, John C. Detter, Tanja Woyke, James Bristow, Jonathan A. Eisen, Victor Markowitz, Philip Hugenholtz, Hans-Peter Klenk and Nikos C. Kyrpides

Stand Genomic Sci 2011; 4(3):322-330

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Short Genome Reports

Complete genome sequence of Mahella australiensis type strain (50-1 BONT)

Johannes Sikorski, Hazuki Teshima, Matt Nolan, Susan Lucas, Nancy Hammon, Shweta Deshpande, Jan-Fang Cheng, Sam Pitluck, Konstantinos Liolios, Ioanna Pagani, Natalia Ivanova, Marcel Huntemann, Konstantinos Mavromatis, Galina Ovchinikova, Amrita Pati, Roxanne Tapia, Cliff Han, Lynne Goodwin, Amy Chen, Krishna Palaniappan, Miriam Land, Loren Hauser, Olivier D. Ngatchou-Djao, Manfred Rohde, Rüdiger Pukall, Stefan Spring, Birte Abt, Markus Göker, John C. Detter, Tanja Woyke, James Bristow, Victor Markowitz, Philip Hugenholtz, Jonathan A. Eisen, Nikos C. Kyrpides, Hans-Peter Klenk and Alla Lapidus

Stand Genomic Sci 2011; 4(3):331-341

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Short Genome Reports

Complete genome sequence of Tsukamurella paurometabola type strain (no. 33T)

A. Christine Munk, Alla Lapidus, Susan Lucas, Matt Nolan, Hope Tice, Jan-Fang Cheng, Tijana Glavina Del Rio, Lynne Goodwin, Sam Pitluck, Konstantinos Liolios, Marcel Huntemann, Natalia Ivanova, Konstantinos Mavromatis, Natalia Mikhailova, Amrita Pati, Amy Chen, Krishna Palaniappan, Roxanne Tapia, Cliff Han, Miriam Land, Loren Hauser, Yun-Juan Chang, Cynthia D. Jeffries, Thomas Brettin, Montri Yasawong, Evelyne-Marie Brambilla, Manfred Rohde, Johannes Sikorski, Markus Göker, John C. Detter, Tanja Woyke, James Bristow, Jonathan A. Eisen, Victor Markowitz, Philip Hugenholtz, Nikos C. Kyrpides and Hans-Peter Klenk

Stand Genomic Sci 2011; 4(3):342-351

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Short Genome Reports

Complete genome sequence of Haliscomenobacter hydrossis type strain (OT)

Hajnalka Daligault, Alla Lapidus, Ahmet Zeytun, Matt Nolan, Susan Lucas, Tijana Glavina Del Rio, Hope Tice, Jan-Fang Cheng, Roxanne Tapia, Cliff Han, Lynne Goodwin, Sam Pitluck, Konstantinos Liolios, Ioanna Pagani, Natalia Ivanova, Marcel Huntemann, Konstantinos Mavromatis, Natalia Mikhailova, Amrita Pati, Amy Chen, Krishna Palaniappan, Miriam Land, Loren Hauser, Evelyne-Marie Brambilla, Manfred Rohde, Susanne Verbarg, Markus Göker, James Bristow, Jonathan A. Eisen, Victor Markowitz, Philip Hugenholtz, Nikos C. Kyrpides, Hans-Peter Klenk and Tanja Woyke

Stand Genomic Sci 2011; 4(3):352-360

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Short Genome Reports

Complete genome sequence of Treponema succinifaciens type strain (6091T)

Cliff Han, Sabine Gronow, Hazuki Teshima, Alla Lapidus, Matt Nolan, Susan Lucas, Nancy Hammon, Shweta Deshpande, Jan-Fang Cheng, Ahmed Zeytun, Roxanne Tapia, Lynne Goodwin, Sam Pitluck, Konstantinos Liolios, Ioanna Pagani, Natalia Ivanova, Konstantinos Mavromatis, Natalia Mikhailova, Marcel Huntemann, Amrita Pati, Amy Chen, Krishna Palaniappan, Miriam Land, Loren Hauser, Evelyne-Marie Brambilla, Manfred Rohde, Markus Göker, Tanja Woyke, James Bristow, Jonathan A. Eisen, Victor Markowitz, Philip Hugenholtz, Nikos C. Kyrpides, Hans-Peter Klenk and John C. Detter

Stand Genomic Sci 2011; 4(3):361-370

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Short Genome Reports

Complete genome sequence of Syntrophobotulus glycolicus type strain (FlGlyRT)

Cliff Han, Romano Mwirichia, Olga Chertkov, Brittany Held, Alla Lapidus, Matt Nolan, Susan Lucas, Nancy Hammon, Shweta Deshpande, Jan-Fang Cheng, Roxanne Tapia, Lynne Goodwin, Sam Pitluck, Marcel Huntemann, Konstantinos Liolios, Natalia Ivanova, Ioanna Pagani, Konstantinos Mavromatis, Galina Ovchinikova, Amrita Pati, Amy Chen, Krishna Palaniappan, Miriam Land, Loren Hauser, Evelyne-Marie Brambilla, Manfred Rohde, Stefan Spring, Johannes Sikorski, Markus Göker, Tanja Woyke, James Bristow, Jonathan A. Eisen, Victor Markowitz, Philip Hugenholtz, Nikos C. Kyrpides, Hans-Peter Klenk and John C. Detter

Stand Genomic Sci 2011; 4(3):371-380

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Short Genome Reports

Complete genome sequence of the hyperthermophilic chemolithoautotroph Pyrolobus fumarii type strain (1AT)

Iain Anderson, Markus Göker, Matt Nolan, Susan Lucas, Nancy Hammon, Shweta Deshpande, Jan-Fang Cheng, Roxanne Tapia, Cliff Han, Lynne Goodwin, Sam Pitluck, Marcel Huntemann, Konstantinos Liolios, Natalia Ivanova, Ioanna Pagani, Konstantinos Mavromatis, Galina Ovchinikova, Amrita Pati, Amy Chen, Krishna Palaniappan, Miriam Land, Loren Hauser, Evelyne-Marie Brambilla, Harald Huber, Montri Yasawong, Manfred Rohde, Stefan Spring, Birte Abt, Johannes Sikorski, Reinhard Wirth, John C. Detter, Tanja Woyke, James Bristow, Jonathan A. Eisen, Victor Markowitz, Philip Hugenholtz, Nikos C. Kyrpides, Hans-Peter Klenk and Alla Lapidus

Stand Genomic Sci 2011; 4(3):381-392

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Short Genome Reports

Complete genome sequence of the acetate-degrading sulfate reducer Desulfobacca acetoxidans type strain (ASRB2T)

Markus Göker, Hazuki Teshima, Alla Lapidus, Matt Nolan, Susan Lucas, Nancy Hammon, Shweta Deshpande, Jan-Fang Cheng, Roxanne Tapia, Cliff Han, Lynne Goodwin, Sam Pitluck, Marcel Huntemann, Konstantinos Liolios, Natalia Ivanova, Ioanna Pagani, Konstantinos Mavromatis, Galina Ovchinikova, Amrita Pati, Amy Chen, Krishna Palaniappan, Miriam Land, Loren Hauser, Evelyne-Marie Brambilla, Manfred Rohde, Stefan Spring, John C. Detter, Tanja Woyke, James Bristow, Jonathan A. Eisen, Victor Markowitz, Philip Hugenholtz, Nikos C. Kyrpides and Hans-Peter Klenk

Stand Genomic Sci 2011; 4(3):393-401

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Announcements

Genome sequences published outside of Standards in Genomic Sciences, January - June 2011

Oranmiyan W. Nelson and George M. Garrity

Stand Genomic Sci 2011; 4(3):402-417

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Standard Operating Procedures

The Viral MetaGenome Annotation Pipeline(VMGAP):an automated tool for the functional annotation of viral Metagenomic shotgun sequencing data

Hernan A. Lorenzi, Jeff Hoover, Jason Inman, Todd Safford, Sean Murphy, Leonid Kagan and Shannon J. Williamson

Stand Genomic Sci 2011; 4(3):418-429

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