Standards in Genomic Sciences

Volume 9, Issue 3

Short Genome Reports

Complete genome sequence of Granulicella tundricola type strain MP5ACTX9T, an Acidobacteria from tundra soil

Suman R. Rawat, Minna K. Männistö, Valentin Starovoytov, Lynne Goodwin, Matt Nolan, Loren Hauser, Miriam Land, Karen Walston Davenport, Tanja Woyke and Max M. Häggblom

Stand Genomic Sci 2014; 9(3):449-461

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Short Genome Reports

Complete genome sequence of Mesorhizobium ciceri bv. biserrulae type strain (WSM1271T)

Kemanthi Nandasena, Ron Yates, Ravi Tiwari, Graham OʼHara, John Howieson, Mohamed Ninawi, Olga Chertkov, Chris Detter, Roxanne Tapia, Shunseng Han, Tanja Woyke, Sam Pitluck, Matt Nolan, Miriam Land, Konstantinos Liolios, Amrita Pati, Alex Copeland, Nikos Kyrpides, Natalia Ivanova, Lynne Goodwin, Uma Meenakshi and Wayne Reeve

Stand Genomic Sci 2014; 9(3):462-472

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Short Genome Reports

Genome sequence of Ensifer arboris strain LMG 14919T; a microsymbiont of the legume Prosopis chilensis growing in Kosti, Sudan

Wayne Reeve, Rui Tian, Lambert Bräu, Lynne Goodwin, Christine Munk, Chris Detter, Roxanne Tapia, Cliff Han, Konstantinos Liolios, Marcel Huntemann, Amrita Pati, Tanja Woyke, Konstantinos Mavrommatis, Victor Markowitz, Natalia Ivanova, Nikos Kyrpides and Anne Willems

Stand Genomic Sci 2014; 9(3):473-483

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Short Genome Reports

Genome sequence of Burkholderia mimosarum strain LMG 23256T, a Mimosa pigra microsymbiont from Anso, Taiwan

Anne Willems, Rui Tian, Lambert Bräu, Lynne Goodwin, James Han, Konstantinos Liolios, Marcel Huntemann, Amrita Pati, Tanja Woyke, Konstantinos Mavrommatis, Victor Markowitz, Natalia Ivanova, Nikos Kyrpides and Wayne Reeve

Stand Genomic Sci 2014; 9(3):484-494

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Short Genome Reports

Genome sequence of the chromate-resistant bacterium Leucobacter salsicius type strain M1-8T

Ji-Hyun Yun, Yong-Joon Cho, Jongsik Chun, Dong-Wook Hyun and Jin-Woo Bae

Stand Genomic Sci 2014; 9(3):495-504

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Short Genome Reports

Genome sequence of the squalene-degrading bacterium Corynebacterium terpenotabidum type strain Y-11T (= DSM 44721T)

Christian Rückert, Andreas Albersmeier, Arwa Al-Dilaimi, Hanna Bednarz, Karsten Niehaus, Rafael Szczepanowski and Jörn Kalinowski

Stand Genomic Sci 2014; 9(3):505-513

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Short Genome Reports

Genome sequence of Ensifer medicae strain WSM1115; an acid-tolerant Medicago-nodulating microsymbiont from Samothraki, Greece

Wayne Reeve, Ross Ballard, John Howieson, Elizabeth Drew, Rui Tian, Lambert Bräu, Christine Munk, Karen Davenport, Patrick Chain, Lynne Goodwin, Ioanna Pagani, Marcel Huntemann, Konstantinos Mavrommatis, Amrita Pati, Victor Markowitz, Natalia Ivanova, Tanja Woyke and Nikos Kyrpides

Stand Genomic Sci 2014; 9(3):514-526

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Short Genome Reports

Genome sequence of Rhizobium leguminosarum bv trifolii strain WSM1689, the microsymbiont of the one flowered clover Trifolium uniflorum

Jason Terpolilli, Tian Rui, Ron Yates, John Howieson, Philip Poole, Christine Munk, Roxanne Tapia, Cliff Han, Victor Markowitz, Reddy Tatiparthi, Konstantinos Mavrommatis, Natalia Ivanova, Amrita Pati, Lynne Goodwin, Tanja Woyke, Nikos Kyrpides and Wayne Reeve

Stand Genomic Sci 2014; 9(3):527-539

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Short Genome Reports

Genome sequence of the Listia angolensis microsymbiont Microvirga lotononidis strain WSM3557T

Wayne Reeve, Julie Ardley, Rui Tian, Sofie De Meyer, Jason Terpolilli, Vanessa Melino, Ravi Tiwari, Ronald Yates, Graham OʼHara, John Howieson, Mohamed Ninawi, Xiaojing Zhang, David Bruce, Chris Detter, Roxanne Tapia, Cliff Han, Chia-Lin Wei, Marcel Huntemann, James Han, I-Min Chen, Konstantinos Mavromatis, Victor Markowitz, Ernest Szeto, Natalia Ivanova, Ioanna Pagani, Amrita Pati, Lynne Goodwin, Tanja Woyke and Nikos Kyrpides

Stand Genomic Sci 2014; 9(3):540-550

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Short Genome Reports

Genome sequence of the acid-tolerant Burkholderia sp. strain WSM2230 from Karijini National Park, Australia

Robert Walker, Elizabeth Watkin, Rui Tian, Lambert Bräu, Graham OʼHara, Lynne Goodwin, James Han, Elizabeth Lobos, Marcel Huntemann, Amrita Pati, Tanja Woyke, Konstantinos Mavromatis, Victor Markowitz, Natalia Ivanova, Nikos Kyrpides and Wayne Reeve

Stand Genomic Sci 2014; 9(3):551-561

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Short Genome Reports

Complete genome sequence of Anabaena variabilis ATCC 29413

Teresa Thiel, Brenda S. Pratte, Jinshun Zhong, Lynne Goodwin, Alex Copeland, Susan Lucas, Cliff Han, Sam Pitluck, Miriam L. Land, Nikos C Kyrpides and Tanja Woyke

Stand Genomic Sci 2014; 9(3):562-573

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Meeting Reports

Meeting Report: GBIF hackathon-workshop on Darwin Core and sample data (22-24 May 2013)

John Wieczorek, Olaf Bánki, Stan Blum, John Deck, Markus Döring, Gabriele Dröge, Dag Endresen, Philip Goldstein, Patrick Leary, Leonard Krishtalka, Éamonn Ó Tuama, Robert J. Robbins, Tim Robertson and Pelin Yilmaz

Stand Genomic Sci 2014; 9(3):585-598

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Community Dialog

Genomic Standards Consortium Projects

Dawn Field, Peter Sterk, Renzo Kottmann, J. Wim De Smet, Linda Amaral-Zettler, Guy Cochrane, James R. Cole, Neil Davies, Peter Dawyndt, George M. Garrity, Jack A. Gilbert, Frank Oliver Glöckner, Lynette Hirschman, Hans-Peter Klenk, Rob Knight, Nikos Kyrpides, Folker Meyer, Ilene Karsch-Mizrachi, Norman Morrison, Robert Robbins, Inigo San Gil, Susanna Sansone, Lynn Schriml, Tatiana Tatusova, Dave Ussery, Pelin Yilmaz, Owen White, John Wooley and Gregory Caporaso

Stand Genomic Sci 2014; 9(3):599-601

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Short Genome Reports

Genome sequence of the Medicago-nodulating Ensifer meliloti commercial inoculant strain RRI128

Wayne Reeve, Ross Ballard, Elizabeth Drew, Rui Tian, Lambert Bräu, Lynne Goodwin, Marcel Huntemann, James Han, Reddy Tatiparthi, Amy Chen, Konstantinos Mavrommatis, Victor Markowitz, Krishna Palaniappan, Natalia Ivanova, Amrita Pati, Tanja Woyke and Nikos Kyrpides

Stand Genomic Sci 2014; 9(3):602-613

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Short Genome Reports

Draft genome sequence of Gluconobacter thailandicus NBRC 3257

Minenosuke Matsutani, Haruo Suzuki, Toshiharu Yakushi and Kazunobu Matsushita

Stand Genomic Sci 2014; 9(3):614-623

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Short Genome Reports

High-quality draft genome sequence of nematocidal Bacillus thuringiensis Sbt003

Yingying Liu, Weixing Ye, Jinshui Zheng, Lei Fang, Donghai Peng, Lifang Ruan and Ming Sun

Stand Genomic Sci 2014; 9(3):624-631

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Short Genome Reports

Draft genome sequence of marine alphaproteobacterial strain HIMB11, the first cultivated representative of a unique lineage within the Roseobacter clade possessing an unusually small genome

Bryndan P. Durham, Jana Grote, Kerry A. Whittaker, Sara J. Bender, Haiwei Luo, Sharon L. Grim, Julia M. Brown, John R. Casey, Antony Dron, Lennin Florez-Leiva, Andreas Krupke, Catherine M. Luria, Aric H. Mine, Olivia D. Nigro, Santhiska Pather, Agathe Talarmin, Emma K. Wear, Thomas S. Weber, Jesse M. Wilson, Matthew J. Church, Edward F. DeLong, David M. Karl, Grieg F. Steward, John M. Eppley, Nikos C. Kyrpides, Stephan Schuster and Michael S. Rappé

Stand Genomic Sci 2014; 9(3):632-645

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Short Genome Reports

Genome sequence of the anaerobic bacterium Bacillus sp. strain ZYK, a selenite and nitrate reducer from paddy soil

Peng Bao, Jian-Qiang Su, Zheng-Yi Hu, Max M. Häggblom and Yong-Guan Zhu

Stand Genomic Sci 2014; 9(3):646-654

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Short Genome Reports

Genome analyses of the carboxydotrophic sulfate-reducers Desulfotomaculum nigrificans and Desulfotomaculum carboxydivorans and reclassification of Desulfotomaculum caboxydivorans as a later synonym of Desulfotomaculum nigrificans

Michael Visser, Sofiya N. Parshina, Joana I. Alves, Diana Z. Sousa, Ins A. C. Pereira, Gerard Muyzer, Jan Kuever, Alexander V. Lebedinsky, Jasper J. Koehorst, Petra Worm, Caroline M. Plugge, Peter J. Schaap, Lynne A. Goodwin, Alla Lapidus, Nikos C. Kyrpides, Janine C. Detter, Tanja Woyke, Patrick Chain, Karen W. Davenport, Stefan Spring, Manfred Rohde, Hans Peter Klenk and Alfons J.M. Stams

Stand Genomic Sci 2014; 9(3):655-675

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Short Genome Reports

High quality draft genome sequence of Streptomyces sp. strain AW19M42 isolated from a sea squirt in Northern Norway

Gro Elin Kjæreng Bjerga, Erik Hjerde, Concetta De Santi, Adele Kim Williamson, Arne Oskar Smalås, Nils Peder Willassen and Bjørn Altermark

Stand Genomic Sci 2014; 9(3):676-686

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Short Genome Reports

Genome sequence and emended description of Leisingera nanhaiensis strain DSM 24252T isolated from marine sediment

Sven Breider, Hazuki Teshima, Jörn Petersen, Olga Chertkov, Hajnalka Dalingault, Amy Chen, Amrita Pati, Natalia Ivanova, Alla Lapidus, Lynne A. Goodwin, Patrick Chain, John C. Detter, Manfred Rohde, Brian J. Tindall, Nikos C. Kyrpides, Tanja Woyke, Meinhard Simon, Markus Göker, Hans-Peter Klenk and Thorsten Brinkhoff

Stand Genomic Sci 2014; 9(3):687-703

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Short Genome Reports

Non-contiguous finished genome sequence and description of Fenollaria massiliensis gen. nov., sp. nov., a new genus of anaerobic bacterium

Isabelle Pagnier, Olivier Croce, Catherine Robert, Didier Raoult and Bernard La Scola

Stand Genomic Sci 2014; 9(3):704-717

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Short Genome Reports

Complete genome sequence of a plant associated bacterium Bacillus amyloliquefaciens subsp. plantarum UCMB5033

Adnan Niazi, Shahid Manzoor, Sarosh Bejai, Johan Meijer and Erik Bongcam-Rudloff

Stand Genomic Sci 2014; 9(3):718-725

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Short Genome Reports

Complete genome of the switchgrass endophyte Enterobacter clocace P101

Jodi L. Humann, Mark Wildung, Derek Pouchnik, Austin A. Bates, Jennifer C. Drew, Ursula N. Zipperer, Eric W. Triplett, Dorrie Main and Brenda K. Schroeder

Stand Genomic Sci 2014; 9(3):726-734

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Short Genome Reports

Draft genome sequences and description of Lactobacillus rhamnosus strains L31, L34, and L35

Prapaporn Boonma, Jennifer K. Spinler, Xiang Qin, Chutima Jittaprasatsin, Donna M. Muzny, Harsha Doddapaneni, Richard Gibbs, Joe Petrosino, Somying Tumwasorn and James Versalovic

Stand Genomic Sci 2014; 9(3):744-754

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Short Genome Reports

High quality draft genome sequence of Staphylococcus cohnii subsp. cohnii strain hu-01

XinJun Hu, Ang Li, LongXian Lv, Chunhui Yuan, Lihua Guo, Xiawei Jiang, Haiyin Jiang, GuiRong Qian, BeiWen Zheng, Jing Guo and LanJuan Li

Stand Genomic Sci 2014; 9(3):755-762

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Short Genome Reports

Complete Genome sequence of Burkholderia phymatum STM815T, a broad host range and efficient nitrogen-fixing symbiont of Mimosa species

Lionel Moulin, Agnieszka Klonowska, Bournaud Caroline, Kristina Booth, Jan A.C. Vriezen, Rémy Melkonian, Euan K. James, J. Peter W. Young, Gilles Bena, Loren Hauser, Miriam Land, Nikos Kyrpides, David Bruce, Patrick Chain, Alex Copeland, Sam Pitluck, Tanja Woyke, Michelle Lizotte-Waniewski, Jim Bristow and Margaret Riley

Stand Genomic Sci 2014; 9(3):763-774

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Short Genome Reports

Draft genome sequence of Bacillus amyloliquefaciens HB-26

Xiao-Yan Liu, Yong Min, Kai-Mei Wang, Zhong-Yi Wan, Zhi-Gang Zhang, Chun-Xia Cao, Rong-Hua Zhou, Ai-Bing Jiang, Cui-Jun Liu, Guang-Yang Zhang, Xian-Liang Cheng, Wei Zhang and Zi-Wen Yang

Stand Genomic Sci 2014; 9(3):775-782

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Short Genome Reports

High quality draft genome sequence of Olivibacter sitiensis type strain (AW-6T), a diphenol degrader with genes involved in the catechol pathway

Spyridon Ntougias, Alla Lapidus, James Han, Konstantinos Mavromatis, Amrita Pati, Amy Chen, Hans-Peter Klenk, Tanja Woyke, Constantinos Fasseas, Nikos C. Kyrpides and Georgios I. Zervakis

Stand Genomic Sci 2014; 9(3):783-793

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Short Genome Reports

Non-contiguous finished genome sequence and description of Bacteroides neonati sp. nov., a new species of anaerobic bacterium

Nadim Cassir, Olivier Croce, Isabelle Pagnier, Samia Benamar, Carine Couderc, Catherine Robert, Didier Raoult and Bernard La Scola

Stand Genomic Sci 2014; 9(3):794-806

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Short Genome Reports

Non-contiguous finished genome sequence and description of Gorillibacterium massiliense gen. nov, sp. nov., a new member of the family Paenibacillaceae

Mamadou Bhoye Keita, Roshan Padhmanabhan, Aurélia Caputo, Catherine Robert, Eric Delaporte, Didier Raoult, Pierre-Edouard Fournier and Fadi Bittar

Stand Genomic Sci 2014; 9(3):807-820

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Short Genome Reports

Genome analysis of Desulfotomaculum gibsoniae strain GrollT a highly versatile Gram-positive sulfate-reducing bacterium

Jan Kuever, Michael Visser, Claudia Loeffler, Matthias Boll, Petra Worm, Diana Z. Sousa, Caroline M. Plugge, Peter J. Schaap, Gerard Muyzer, Ines A.C. Pereira, Sofiya N. Parshina, Lynne A. Goodwin, Nikos C. Kyrpides, Janine Detter, Tanja Woyke, Patrick Chain, Karen W. Davenport, Manfred Rohde, Stefan Spring, Hans-Peter Klenk and Alfons J.M. Stams

Stand Genomic Sci 2014; 9(3):821-839

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Short Genome Reports

Genome sequence of the Wenxinia marina type strain (DSM 24838T), a representative of the Roseobacter group isolated from oilfield sediments

Thomas Riedel, Anne Fiebig, James Han, Marcel Huntemann, Stefan Spring, Jörn Petersen, Natalia N. Ivanova, Victor Markowitz, Tanja Woyke, Markus Göker, Nikos C. Kyrpides and Hans-Peter Klenk

Stand Genomic Sci 2014; 9(3):855-865

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Short Genome Reports

Genome sequence and description of Nesterenkonia massiliensis sp. nov. strain NP1T

Sophie Edouard, Senthil Sankar, Nicole Prisca Makaya Dangui, Jean-Christophe Lagier, Caroline Michelle, Didier Raoult and Pierre-Edouard Fournier

Stand Genomic Sci 2014; 9(3):866-882

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Short Genome Reports

Draft genome sequence of Dyadobacter tibetensis type strain (Y620-1) isolated from glacial ice

Yongqin Liu, Anyi Hu, Liang Shen, Tandong Yao, Nianzhi Jiao, Ninglian Wang and Baiqing Xu

Stand Genomic Sci 2014; 9(3):883-892

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Short Genome Reports

Short Genome Reports

Complete genome sequence of the Phaeobacter gallaeciensis type strain CIP 105210T (= DSM 26640T = BS107T)

Oliver Frank, Silke Pradella, Manfred Rohde, Carmen Scheuner, Hans-Peter Klenk, Markus Göker and Jörn Petersen

Stand Genomic Sci 2014; 9(3):914-932

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Short Genome Reports

Short Genome Reports

Complete genome sequence of invertebrate iridovirus IIV22A, a variant of IIV22, isolated originally from a blackfly larva

Benoît Piégu, Sébastien Guizard, Tan Yeping, Corinne Cruaud, Arnault Couloux, Dennis K. Bideshi, Brian A. Federici and Yves Bigot

Stand Genomic Sci 2014; 9(3):940-947

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Short Genome Reports

Non-contiguous finished genome sequence of Corynebacterium timonense type strain 5401744T

Véronique Roux, Catherine Robert and Didier Raoult

Stand Genomic Sci 2014; 9(3):948-955

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Short Genome Reports

Non-contiguous finished genome sequence and description of Halopiger goleamassiliensis sp. nov.

Hassani Imene Ikram, Robert Catherine, Michelle Caroline, Raoult Didier, Hacène Hocine and Desnues Christelle

Stand Genomic Sci 2014; 9(3):956-969

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Short Genome Reports

Non contiguous-finished genome sequence and description of Enorma timonensis sp. nov.

Dhamodaran Ramasamy, Gregory Dubourg, Catherine Robert, Aurelia Caputo, Laurent Papazian, Didier Raoult and Pierre-Edouard Fournier

Stand Genomic Sci 2014; 9(3):970-986

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Short Genome Reports

Non-contiguous finished genome sequence and description of Corynebacterium jeddahense sp. nov.

Sophie Edouard, Fehmida Bibi, Ramasamy Dhamodharan, Jean-Christophe Lagier, Esam Ibraheen Azhar, Catherine Robert, Aurelia Caputo, Muhammad Yasir, Asif Ahmad Jiman-Fatani, Maha Alawi, Pierre-Edouard Fournier and Didier Raoult

Stand Genomic Sci 2014; 9(3):987-1002

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Short Genome Reports

Non contiguous-finished genome sequence and description of Clostridium jeddahense sp. nov.

Jean-Christophe Lagier, Fehmida Bibi, Dhamodharan Ramasamy, Esam I. Azhar, Catherine Robert, Muhammad Yasir, Asif A. Jiman-Fatani, Khalid Z. Alshali, Pierre-Edouard Fournier and Didier Raoult

Stand Genomic Sci 2014; 9(3):1003-1019

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Short Genome Reports

High quality draft genome sequence of the slightly halophilic bacterium Halomonas zhanjiangensis type strain JSM 078169T (DSM 21076T) from a sea urchin in southern China

Yu Zhou, Rui Li, Xiao-Yang Gao, Alla Lapidus, James Han, Matthew Haynes, Elizabeth Lobos, Marcel Huntemann, Amrita Pati, Natalia N. Ivanova, Manfred Rohde, Konstantinos Mavromatis, Brian J. Tindall, Victor Markowitz, Tanja Woyke, Hans-Peter Klenk, Nikos C. Kyrpides and Wen-Jun Li

Stand Genomic Sci 2014; 9(3):1020-1030

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Short Genome Reports

Non-contiguous finished genome sequence and description of Paenibacillus gorillae sp. nov.

Mamadou Bhoye Keita, Roshan Padhmananabhan, Aurélia Caputo, Catherine Robert, Eric Delaporte, Didier Raoult, Pierre-Edouard Fournier and Fadi Bittar

Stand Genomic Sci 2014; 9(3):1031-1045

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Short Genome Reports

Non-contiguous finished genome sequence and description of Bacillus massilioalgeriensis sp. nov.

Esma Bendjama, Lotfi Loucif, Seydina M. Diene, Caroline Michelle, Djamila Gacemi-Kirane and Jean-Marc Rolain

Stand Genomic Sci 2014; 9(3):1046-1061

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Short Genome Reports

Complete genome sequence of the Radiation-Resistant bacterium Rubrobacter radiotolerans RSPS-4

C. Egas, C. Barroso, H.J.C. Froufe, J. Pacheco, L. Albuquerque and M.S. da Costa

Stand Genomic Sci 2014; 9(3):1062-1075

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Short Genome Reports

Genome sequence of the mud-dwelling archaeon Methanoplanus limicola type strain (DSM 2279T), reclassification of Methanoplanus petrolearius as Methanolacinia petrolearia and emended descriptions of the genera Methanoplanus and Methanolacinia

Markus Göker, Megan Lu, Anne Fiebig, Matt Nolan, Alla Lapidus, Hope Tice, Tijana Glavina Del Rio, Jan-Fang Cheng, Cliff Han, Roxanne Tapia, Lynne A. Goodwin, Sam Pitluck, Konstantinos Liolios, Konstantinos Mavromatis, Ioanna Pagani, Natalia Ivanova, Natalia Mikhailova, Amrita Pati, Amy Chen, Krishna Palaniappan, Miriam Land, Shanmugam Mayilraj, Manfred Rohde, John C. Detter, Boyke Bunk, Stefan Spring, Reinhard Wirth, Tanja Woyke, James Bristow, Jonathan A. Eisen, Victor Markowitz, Philip Hugenholtz, Nikos C. Kyrpides and Hans-Peter Klenk

Stand Genomic Sci 2014; 9(3):1076-1088

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Short Genome Reports

The complete genome sequence of Clostridium indolis DSM 755T

Amy S. Biddle, Susan Leschine, Marcel Huntemann, James Han, Amy Chen, Nikos Kyrpides, Victor Markowitz, Krishna Palaniappan, Natalia Ivanova, Natalia Mikhailova, Galina Ovchinnikova, Andrew Schaumberg, Amrita Pati, Dimitrios Stamatis, Tatiparthi Reddy, Elizabeth Lobos, Lynne Goodwin, Henrik P. Nordberg, Michael N. Cantor, Susan X. Hua, Tanja Woyke and Jeffrey L. Blanchard

Stand Genomic Sci 2014; 9(3):1089-1104

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Short Genome Reports

Genome sequence of the Thermotoga thermarum type strain (LA3T) from an African solfataric spring

Markus Göker, Stefan Spring, Carmen Scheuner, Iain Anderson, Ahmet Zeytun, Matt Nolan, Susan Lucas, Hope Tice, Tijana Glavina Del Rio, Jan-Fang Cheng, Cliff Han, Roxanne Tapia, Lynne A. Goodwin, Sam Pitluck, Konstantinos Liolios, Konstantinos Mavromatis, Ioanna Pagani, Natalia Ivanova, Natalia Mikhailova, Amrita Pati, Amy Chen, Krishna Palaniappan, Miriam Land, Loren Hauser, Yun-juan Chang, Cynthia D. Jeffries, Manfred Rohde, 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 2014; 9(3):1105-1117

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Short Genome Reports

Non-contiguous finished genome sequence of Staphylococcus capitis CR01 (pulsetype NRCS-A)

H. Lemriss,  , S. Lemriss, M. Butin, A. Ibrahimi, S. El Kabbaj, J.P. Rasigade and F. Laurent

Stand Genomic Sci 2014; 9(3):1118-1127

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Short Genome Reports

Genome sequence and description of Corynebacterium ihumii sp. nov.

Roshan Padmanabhan, Grégory Dubourg, Jean-Christophe Lagier, Carine Couderc, Caroline Michelle, Didier Raoult and Pierre-Edouard Fournier

Stand Genomic Sci 2014; 9(3):1128-1143

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Short Genome Reports

Non-contiguous finished genome sequence and description of Collinsella massiliensis sp. nov.

Roshan Padmanabhan, Gregory Dubourg, Jean-Christophe Lagier, Thi-Thien Nguyen, Carine Couderc, Morgane Rossi-Tamisier, Aurelia Caputo, Didier Raoult and Pierre-Edouard Fournier

Stand Genomic Sci 2014; 9(3):1144-1158

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Short Genome Reports

Genome sequence of Microvirga lupini strain LUT6T, a novel Lupinus alphaproteobacterial microsymbiont from Texas

Wayne Reeve, Matthew Parker, Rui Tian, Lynne Goodwin, Hazuki Teshima, Roxanne Tapia, Cliff Han, James Han, Konstantinos Liolios, Marcel Huntemann, Amrita Pati, Tanja Woyke, Konstantinos Mavromatis, Victor Markowitz, Natalia Ivanova and Nikos Kyrpides

Stand Genomic Sci 2014; 9(3):1159-1167

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Short Genome Reports

Genome sequence of the acid-tolerant Burkholderia sp. strain WSM2232 from Karijini National Park, Australia

Robert Walker, Elizabeth Watkin, Rui Tian, Lambert Bräu, Graham OʼHara, Lynne Goodwin, James Han, Tatiparthi Reddy, Marcel Huntemann, Amrita Pati, Tanja Woyke, Konstantinos Mavromatis, Victor Markowitz, Natalia Ivanova, Nikos Kyrpides and Wayne Reeve

Stand Genomic Sci 2014; 9(3):1168-1180

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Short Genome Reports

Genome sequence and description of Bacteroides timonensis sp. nov.

Dhamodharan Ramasamy, Jean-Christophe Lagier, Morgane Rossi-Tamisier, Anne Pfleiderer, Caroline Michelle, Carine Couderc, Didier Raoult and Pierre-Edouard Fournier

Stand Genomic Sci 2014; 9(3):1181-1197

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Short Genome Reports

Non-contiguous finished genome sequence and description of Anaerococcus provenciensis sp. nov.

Isabelle Pagnier, Olivier Croce, Catherine Robert, Didier Raoult and Bernard La Scola

Stand Genomic Sci 2014; 9(3):1198-1210

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Short Genome Reports

Genomic analysis of Skermanella stibiiresistens type strain SB22T

Wentao Zhu, Jing Huang, Mingshun Li, Xiangyang Li and Gejiao Wang

Stand Genomic Sci 2014; 9(3):1211-1220

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Short Genome Reports

Non-contiguous finished genome sequence and description of Alistipes ihumii sp. nov.

Anne Pfleiderer, Ajay Kumar Mishra, Jean-Christophe Lagier, Catherine Robert, Aurelia Caputo, Didier Raoult and Pierre-Edouard Fournier

Stand Genomic Sci 2014; 9(3):1221-1235

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Meeting Reports

Report of the 14th Genomic Standards Consortium Meeting, Oxford, UK, September 17-21, 2012.

Neil Davies, Dawn Field, Linda Amaral-Zettler, Katharine Barker, Mesude Bicak, Sarah Bourlat, Jonathan Coddington, John Deck, Alexei Drummond, Jack A. Gilbert, Frank Oliver Glöckner, Renzo Kottmann, Chris Meyer, Norman Morrison, Matthias Obst, Robert Robbins, Lynn Schriml, Peter Sterk and Steven Stones-Havas

Stand Genomic Sci 2014; 9(3):1236-1250

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Community Dialog

Meeting report: Ocean omics science, technology and cyberinfrastructure: current challenges and future requirements (August 20-23, 2013)

Jack A. Gilbert, Gregory J. Dick, Bethany Jenkins, John Heidelberg, Eric Allen, Katherine R. M. Mackey and Edward F. DeLong

Stand Genomic Sci 2014; 9(3):1252-1258

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Short Genome Reports

Metagenomic analysis of microbial consortium from natural crude oil that seeps into the marine ecosystem offshore Southern California

Erik R. Hawley, Hailan Piao, Nicole M. Scott, Stephanie Malfatti, Ioanna Pagani, Marcel Huntemann, Amy Chen, Tijana Glavina del Rio, Brian Foster, Alex Copeland, Janet Jansson, Amrita Pati, Susannah Tringe, Jack A. Gilbert, Thomas D. Lorenson and Matthias Hess

Stand Genomic Sci 2014; 9(3):1259-1274

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Editorial/Commentary

Toward richer metadata for microbial sequences: replacing strain-level NCBI taxonomy taxids with BioProject, BioSample and Assembly records

Scott Federhen, Karen Clark, Tanya Barrett, Helen Parkinson, James Ostell, Yuichi Kodama, Jun Mashima, Yasukazu Nakamura, Guy Cochrane and Ilene Karsch-Mizrachi

Stand Genomic Sci 2014; 9(3):1275-1277

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Community Dialog

Genomic Encyclopedia of Type Strains, Phase I: The one thousand microbial genomes (KMG-I) project

Nikos C. Kyrpides, Tanja Woyke, Jonathan A. Eisen, George Garrity, Timothy G. Lilburn, Brian J. Beck, William B. Whitman, Phil Hugenholtz and Hans-Peter Klenk

Stand Genomic Sci 2014; 9(3):1278-1284

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Meeting Reports

Meeting report from the fourth meeting of the Computational Modeling in Biology Network (COMBINE)

Dagmar Waltemath, Frank T. Bergmann, Claudine Chaouiya, Tobias Czauderna, Padraig Gleeson, Carole Goble, Martin Golebiewski, Michael Hucka, Nick Juty, Olga Krebs, Nicolas Le Novère, Huaiyu Mi, Ion I. Moraru, Chris J. Myers, David Nickerson, Brett G. Olivier, Nicolas Rodriguez, Falk Schreiber, Lucian Smith, Fengkai Zhang and Eric Bonnet

Stand Genomic Sci 2014; 9(3):1285-1301

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Short Genome Reports

Complete genome sequence of Kosakonia sacchari type strain SP1T

Mingyue Chen, Bo Zhu, Li Lin, Litao Yang, Yangrui Li and Qianli An

Stand Genomic Sci 2014; 9(3):1311-1318

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Short Genome Reports

Non-contiguous finished genome sequence and description of Kurthia senegalensis sp. nov.

Véronique Roux, Jean-Christophe Lagier, Aurore Gorlas, Catherine Robert and Didier Raoult

Stand Genomic Sci 2014; 9(3):1319-1330

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Short Genome Reports

Genome sequence of the exopolysaccharide-producing Salipiger mucosus type strain (DSM 16094T), a moderately halophilic member of the Roseobacter clade

Thomas Riedel, Stefan Spring, Anne Fiebig, Jörn Petersen, Nikos C. Kyrpides, Markus Göker and Hans-Peter Klenk

Stand Genomic Sci 2014; 9(3):1331-1343

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Short Genome Reports

Non-contiguous finished genome sequence of Prevotella timonensis type strain 4401737T

Véronique Roux, Catherine Robert and Didier Raoult

Stand Genomic Sci 2014; 9(3):1344-1351

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Short Genome Reports

Non-contiguous finished genome sequence and description of Paucisalibacillus algeriensis sp. nov.

Esma Bendjama, Lotfi Loucif, Seydina M. Diene, Caroline Michelle, Djamila Gacemi-Kirane and Jean-Marc Rolain

Stand Genomic Sci 2014; 9(3):1352-1365

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