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  1. Klebsiella variicola strain DX120E (=CGMCC 1.14935) is an endophytic nitrogen-fixing bacterium isolated from sugarcane crops grown in Guangxi, China and promotes sugarcane growth. Here we summari...

    Authors: Li Lin, Chunyan Wei, Mingyue Chen, Hongcheng Wang, Yuanyuan Li, Yangrui Li, Litao Yang and Qianli An
    Citation: Standards in Genomic Sciences 2015 10:22
  2. Leucobacter chironomi strain MM2LBT (Halpern et al., Int J Syst Evol Microbiol 59:665-70 2009) is a Gram-positive, rod shaped, non-motile, aerobic, chemoorganotroph bacterium. L. chironom...

    Authors: Sivan Laviad, Alla Lapidus, Alex Copeland, TBK Reddy, Marcel Huntemann, Amrita Pati, Natalia N Ivanova, Victor M Markowitz, Rüdiger Pukall, Hans-Peter Klenk, Tanja Woyke, Nikos C Kyrpides and Malka Halpern
    Citation: Standards in Genomic Sciences 2015 10:21
  3. Contextual data collected concurrently with molecular samples are critical to the use of metagenomics in the fields of marine biodiversity, bioinformatics and biotechnology. We present here Marine Microbial Bi...

    Authors: Petra ten Hoopen, Stéphane Pesant, Renzo Kottmann, Anna Kopf, Mesude Bicak, Simon Claus, Klaas Deneudt, Catherine Borremans, Peter Thijsse, Stefanie Dekeyzer, Dick MA Schaap, Chris Bowler, Frank Oliver Glöckner and Guy Cochrane
    Citation: Standards in Genomic Sciences 2015 10:20
  4. Mesotoga strain PhosAc3 was the first mesophilic cultivated member of the order Thermotogales. This genus currently contain two described species, M. prima and M. infera. Strain PhosAc3, isolated from a Tunisian...

    Authors: Wajdi Ben Hania, Khaled Fadhlaoui, Céline Brochier-Armanet, Cécile Persillon, Anne Postec, Moktar Hamdi, Alain Dolla, Bernard Ollivier, Marie-Laure Fardeau, Jean Le Mer and Gaël Erauso
    Citation: Standards in Genomic Sciences 2015 10:12
  5. Cupriavidus sp. strain UYPR2.512 is an aerobic, motile, Gram-negative, non-spore-forming rod that was isolated from a root nodule of Parapiptadenia rigida grown in soils from a native forest of U...

    Authors: Sofie E De Meyer, Elena Fabiano, Rui Tian, Peter Van Berkum, Rekha Seshadri, TBK Reddy, Victor Markowitz, Natalia N Ivanova, Amrita Pati, Tanja Woyke, John Howieson, Nikos C Kyrpides and Wayne Reeve
    Citation: Standards in Genomic Sciences 2015 10:13
  6. With the rapid growth and development of sequencing technologies, genomes have become the new go-to for exploring solutions to some of the world’s biggest challenges such as searching for alternative energy so...

    Authors: Supratim Mukherjee, Marcel Huntemann, Natalia Ivanova, Nikos C Kyrpides and Amrita Pati
    Citation: Standards in Genomic Sciences 2015 10:18
  7. Bacteriovorax is the halophilic genus of the obligate bacterial predators, Bdellovibrio and like organisms. The predators are known for their unique biphasic life style in which they search for a...

    Authors: Huan Chen, Lauren M Brinkac, Pamela Mishra, Nan Li, Despoina S Lymperopoulou, Tamar L Dickerson, Nadine Gordon-Bradley, Henry N Williams and Jonathan H Badger
    Citation: Standards in Genomic Sciences 2015 10:11
  8. Roseovarius mucosus Biebl et al. 2005 is a bacteriochlorophyll a-producing representative of the marine Roseobacter group within the alphaproteobacterial family Rhodobacteraceae, which was isolat...

    Authors: Thomas Riedel, Stefan Spring, Anne Fiebig, Carmen Scheuner, Jörn Petersen, Markus Göker and Hans-Peter Klenk
    Citation: Standards in Genomic Sciences 2015 10:17
  9. Meganema perideroedes Gr1T is a filamentous bacterium isolated from an activated sludge wastewater treatment plant where it is implicated in poor sludge settleability (bulking). M. peride...

    Authors: Simon J McIlroy, Alla Lapidus, Trine R Thomsen, James Han, Matthew Haynes, Elizabeth Lobos, Marcel Huntemann, Amrita Pati, Natalia N Ivanova, Victor Markowitz, Susanne Verbarg, Tanja Woyke, Hans-Peter Klenk, Nikos Kyrpides and Per H Nielsen
    Citation: Standards in Genomic Sciences 2015 10:23
  10. Enterobacter mori strain 5–4 is a Gram-negative, motile, rod shaped, and facultatively anaerobic bacterium, which was isolated from a mixture of formation water (also known as oil-reservior water...

    Authors: Fan Zhang, Sanbao Su, Gaoming Yu, Beiwen Zheng, Fuchang Shu, Zhengliang Wang, Tingsheng Xiang, Hao Dong, Zhongzhi Zhang, DuJie Hou and Yuehui She
    Citation: Standards in Genomic Sciences 2015 10:9
  11. This genome report describes the draft genome and the physiological characteristics of Desulfitobacterium hafniense PCE-S, a Gram-positive bacterium known to dechlorinate tetrachloroethene (PCE) to dichloroethene...

    Authors: Tobias Goris, Bastian Hornung, Thomas Kruse, Anika Reinhold, Martin Westermann, Peter J Schaap, Hauke Smidt and Gabriele Diekert
    Citation: Standards in Genomic Sciences 2015 10:15
  12. The lactic acid bacterium Lactobacillus kunkeei has been described as an inhabitant of fructose-rich niches. Here we report on the genome sequence of L. kunkeei EFB6, which has been isolated from a honeybee larva...

    Authors: Marvin Djukic, Anja Poehlein, Juliane Strauß, Fabian Jannik Tann, Andreas Leimbach, Michael Hoppert and Rolf Daniel
    Citation: Standards in Genomic Sciences 2015 10:16
  13. Root nodule bacteria are free-living soil bacteria, belonging to diverse genera within the Alphaproteobacteria and Betaproteobacteria, that have the capacity to form nitrogen-fixing symbioses with legumes. The sy...

    Authors: Wayne Reeve, Julie Ardley, Rui Tian, Leila Eshragi, Je Won Yoon, Pinyaruk Ngamwisetkun, Rekha Seshadri, Natalia N Ivanova and Nikos C Kyrpides
    Citation: Standards in Genomic Sciences 2015 10:14
  14. Pontibacter roseus is a member of genus Pontibacter family Cytophagaceae, class Cytophagia. While the type species of the genus Pontibacter actiniarum was isolated in 2005 from a marine environme...

    Authors: Supratim Mukherjee, Alla Lapidus, Nicole Shapiro, Jan-Fang Cheng, James Han, TBK Reddy, Marcel Huntemann, Natalia Ivanova, Natalia Mikhailova, Amy Chen, Krishna Palaniappan, Stefan Spring, Markus Göker, Victor Markowitz, Tanja Woyke, Brian J Tindall…
    Citation: Standards in Genomic Sciences 2015 10:8
  15. During a study of the anaerobic microbial community of a lithifying hypersaline microbial mat of Lake 21 on the Kiritimati atoll (Kiribati Republic, Central Pacific) strain L21-RPul-D2T was isolated. The closest ...

    Authors: Wajdi Ben Hania, Manon Joseph, Peter Schumann, Boyke Bunk, Anne Fiebig, Cathrin Spröer, Hans-Peter Klenk, Marie-Laure Fardeau and Stefan Spring
    Citation: Standards in Genomic Sciences 2015 10:7
  16. Pseudomonas fluorescens strain PICF7 is a native endophyte of olive roots. Previous studies have shown this motile, Gram-negative, non-sporulating bacterium is an effective biocontrol agent again...

    Authors: Pedro Manuel Martínez-García, David Ruano-Rosa, Elisabetta Schilirò, Pilar Prieto, Cayo Ramos, Pablo Rodríguez-Palenzuela and Jesús Mercado-Blanco
    Citation: Standards in Genomic Sciences 2015 10:10
  17. The Roseophages, a group of marine viruses that uniquely infect the Roseobacter clade of bacteria, play a significant role in marine ecosystems. Here we present a complete genomic sequence of an N4 phage ‘vB_DshP...

    Authors: Jianda Ji, Rui Zhang and Nianzhi Jiao
    Citation: Standards in Genomic Sciences 2015 9:31
  18. Bacillus azotoformans MEV2011, isolated from soil, is a microaerotolerant obligate denitrifier, which can also produce N2 by co-denitrification. Oxygen is consumed but not growth-supportive. The ...

    Authors: Maja Nielsen, Lars Schreiber, Kai Finster and Andreas Schramm
    Citation: Standards in Genomic Sciences 2015 9:23
  19. The Roseophages, a group of marine viruses that uniquely infect the Roseobacter clade of bacteria, play a significant role in marine ecosystems. Here we present a complete genomic sequence of an N4 phage ‘vB_DshP...

    Authors: Jianda Ji, Rui Zhang and Nianzhi Jiao
    Citation: Standards in Genomic Sciences 2015 10:6

    The Erratum to this article has been published in Standards in Genomic Sciences 2015 10:69

  20. Corynebacterium callunae DSM 20147T is a member of the genus Corynebacterium which contains Gram-positive and non-spore forming bacteria with a high G + C content. C. callunae was isolated during...

    Authors: Marcus Persicke, Andreas Albersmeier, Hanna Bednarz, Karsten Niehaus, Jörn Kalinowski and Christian Rückert
    Citation: Standards in Genomic Sciences 2015 10:5
  21. Bacillus azotoformans MEV2011, isolated from soil, is a microaerotolerant obligate denitrifier, which can also produce N2 by co-denitrification. Oxygen is consumed but not growth-supportive. The ...

    Authors: Maja Nielsen, Lars Schreiber, Kai Finster and Andreas Schramm
    Citation: Standards in Genomic Sciences 2015 10:4

    The Erratum to this article has been published in Standards in Genomic Sciences 2015 10:72

  22. Flavobacterium psychrophilum is the causative agent of bacterial cold water disease and rainbow trout fry mortality syndrome in salmonid fishes and is associated with significant losses in the aq...

    Authors: Anson KK Wu, Andrew M Kropinski, John S Lumsden, Brian Dixon and Janet I MacInnes
    Citation: Standards in Genomic Sciences 2015 10:3
  23. Lysinibacillus sphaericus CBAM5, was isolated from subsurface soil of oil well explorations in the Easter Planes of Colombia. This strain has potential in bioremediation of heavy-metal polluted e...

    Authors: Tito David Peña-Montenegro, Lucía Lozano and Jenny Dussán
    Citation: Standards in Genomic Sciences 2015 10:2
  24. Species of the genus Halomonas are halophilic and their flexible adaption to changes of salinity and temperature brings considerable potential biotechnology applications, such as degradation of organic pollutants...

    Authors: Xiao-Yang Gao, Xiao-Yang Zhi, Hong-Wei Li, Yu Zhou, Alla Lapidus, James Han, Matthew Haynes, Elizabeth Lobos, Marcel Huntemann, Amrita Pati, Natalia N Ivanova, Konstantinos Mavromatis, Brian J Tindall, Victor Markowitz, Tanja Woyke, Hans-Peter Klenk…
    Citation: Standards in Genomic Sciences 2015 10:1
  25. Flavobacterium seoulense strain EM1321T is the type strain of Flavobacterium seoulense sp. nov., a proposed novel species within the genus Flavobacterium. This strain is a Gram-reaction-negative, aerobic, rod-sh...

    Authors: Su-Kyoung Shin, Heemoon Goo, Yong-Joon Cho, Soonsung Kwon, Dongeun Yong and Hana Yi
    Citation: Standards in Genomic Sciences 2014 9:34
  26. Halomonas zincidurans strain B6T was isolated from a deep-sea heavy metal rich sediment from the South Atlantic Mid-Ocean Ridge. The strain showed significant resistance to heavy metals, especially to zinc. Here...

    Authors: Ying-Yi Huo, Zheng-Yang Li, Hong Cheng, Chun-Sheng Wang and Xue-Wei Xu
    Citation: Standards in Genomic Sciences 2014 9:30
  27. This report summarizes the activities and outcomes of the second workshop of the US Culture Collection Network, formally an activity of the US National Science Foundation sponsored Research Coordination Networ...

    Authors: Kevin McCluskey, Scott Bates, Kyria Boundy-Mills, Arianna Broggiato, Anthony Cova, Philippe Desmeth, Chobi DebRoy, Deborah Fravel, George Garrity, María del Mar Jiménez Gasco, Lucy Joseph, Daniel Lindner, Michael W Lomas, Joe Morton, David Nobles, John Turner…
    Citation: Standards in Genomic Sciences 2014 9:27
  28. We present the whole genome sequence and annotation of the Coxiella burnetii strain Namibia. This strain was isolated from an aborting goat in 1991 in Windhoek, Namibia. The plasmid type QpRS was confirmed in our...

    Authors: Mathias C Walter, Caroline Öhrman, Kerstin Myrtennäs, Andreas Sjödin, Mona Byström, Pär Larsson, Anna Macellaro, Mats Forsman and Dimitrios Frangoulidis
    Citation: Standards in Genomic Sciences 2014 9:22
  29. More than 80% of the microbial genomes in GenBank are of ‘draft’ quality (12,553 draft vs. 2,679 finished, as of October, 2013). We have examined all the microbial DNA sequences available for complete, draft, ...

    Authors: Miriam L Land, Doug Hyatt, Se-Ran Jun, Guruprasad H Kora, Loren J Hauser, Oksana Lukjancenko and David W Ussery
    Citation: Standards in Genomic Sciences 2014 9:20
  30. In an effort to discover anaerobic bacteria capable of lignin degradation, we isolated Klebsiella sp. strain BRL6-2 on minimal media with alkali lignin as the sole carbon source. This organism was isolated anaero...

    Authors: Hannah L Woo, Nicholas R Ballor, Terry C Hazen, Julian L Fortney, Blake Simmons, Karen Walston Davenport, Lynne Goodwin, Natalia Ivanova, Nikos C Kyrpides, Konstantinos Mavromatis, Tanja Woyke, Janet Jansson, Jeff Kimbrel and Kristen M DeAngelis
    Citation: Standards in Genomic Sciences 2014 9:19
  31. As the impact and prevalence of large-scale metagenomic surveys grow, so does the acute need for more complete and standards compliant metadata. Metadata (data describing data) provides an essential complement...

    Authors: Jared Bischof, Travis Harrison, Tobias Paczian, Elizabeth Glass, Andreas Wilke and Folker Meyer
    Citation: Standards in Genomic Sciences 2014 9:18
  32. We describe the outcomes of three recent workshops aimed at advancing development of the Biological Collections Ontology (BCO), the Population and Community Ontology (PCO), and tools to annotate data using tho...

    Authors: Ramona L Walls, Robert Guralnick, John Deck, Adam Buntzman, Pier Luigi Buttigieg, Neil Davies, Michael W Denslow, Rachel E Gallery, J Jacob Parnell, David Osumi-Sutherland, Robert J Robbins, Philippe Rocca-Serra, John Wieczorek and Jie Zheng
    Citation: Standards in Genomic Sciences 2014 9:17
  33. Ornithobacterium rhinotracheale strain ORT-UMN 88 is a Gram-negative, pleomorphic, rod-shaped bacterium and an etiologic agent of pneumonia and airsacculitis in poultry. It is a member of the family Flavobacteri...

    Authors: Emilie S Zehr, Darrell O Bayles, William D Boatwright, Louisa B Tabatabai and Karen B Register
    Citation: Standards in Genomic Sciences 2014 9:16
  34. Methanobacterium formicicum BRM9 was isolated from the rumen of a New Zealand Friesan cow grazing a ryegrass/clover pasture, and its genome has been sequenced to provide information on the phylogenetic diversity...

    Authors: William J Kelly, Sinead C Leahy, Dong Li, Rechelle Perry, Suzanne C Lambie, Graeme T Attwood and Eric Altermann
    Citation: Standards in Genomic Sciences 2014 9:15
  35. The Gram-negative, pleomorphic, rod-shaped bacterium Ornithobacterium rhinotracheale is a cause of pneumonia and airsacculitis in poultry. It is a member of the family Flavobacteriaceae of the phylum “Bacteroidet...

    Authors: Emilie S Zehr, Darrell O Bayles, William D Boatwright, Louisa B Tabatabai and Karen B Register
    Citation: Standards in Genomic Sciences 2014 9:14
  36. This report details the outcome of the 1st Skin Microbiota Workshop, Boulder, CO, held on October 15th-16th 2012. The workshop was arranged to bring Department of Defense personnel together with experts in mic...

    Authors: Jack A Gilbert, Madeleine Ball, Paul Blainey, Martin J Blaser, Brendan JM Bohannan, Ashley Bateman, John Bunge, Maria Gloria Dominguez-Bello, Slava Epstein, Noah Fierer, Dirk Gevers, Tracy Grikscheit, Leila J Hamdan, James Harvey, Curtis Huttenhower, Benjamin Kirkup…
    Citation: Standards in Genomic Sciences 2014 9:13
  37. The UK Science and Innovation Network UK-USA workshop ‘Beating the Superbugs: Hospital Microbiome Studies for tackling Antimicrobial Resistance’ was held on October 14th 2013 at the UK Department of Health, Lo...

    Authors: Jack Westwood, Matthew Burnett, David Spratt, Michael Ball, Daniel J Wilson, Sally Wellsteed, David Cleary, Andy Green, Emma Hutley, Anna Cichowska, Susan Hopkins, Mark Wilcox, Anthony Kessel, Ghada Zoubiane, Lara Bethke, Derrick W Crook…
    Citation: Standards in Genomic Sciences 2014 9:12
  38. When the genome of Ruegeria pomeroyi DSS-3 was published in 2004, it represented the first sequence from a heterotrophic marine bacterium. Over the last ten years, the strain has become a valuable model for under...

    Authors: Adam R Rivers, Christa B Smith and Mary Ann Moran
    Citation: Standards in Genomic Sciences 2014 9:11

    The Erratum to this article has been published in Standards in Genomic Sciences 2015 10:112

  39. Planctomyces brasiliensis Schlesner 1990 belongs to the order Planctomycetales, which differs from other bacterial taxa by several distinctive features such as internal cell compartmentalization, multiplication ...

    Authors: Carmen Scheuner, Brian J Tindall, Megan Lu, Matt Nolan, Alla Lapidus, Jan-Fang Cheng, Lynne Goodwin, Sam Pitluck, Marcel Huntemann, Konstantinos Liolios, Ioanna Pagani, Konstantinos Mavromatis, Natalia Ivanova, Amrita Pati, Amy Chen, Krishna Palaniappan…
    Citation: Standards in Genomic Sciences 2014 9:10
  40. The family Rickettsiaceae currently includes two genera: Orientia that contains one species, Orientia tsutsugamushi, and Rickettsia that contains 28 species.

    Authors: Oleg Mediannikov, Thi-Thien Nguyen, Lesley Bell-Sakyi, Roshan Padmanabhan, Pierre-Edouard Fournier and Didier Raoult
    Citation: Standards in Genomic Sciences 2014 9:9
  41. Clostridium saudii strain JCCT sp. nov. is the type strain of C. saudii sp. nov., a new species within the genus Clostridia. This strain, whose genome is described here, was isolated from a fecal sample collecte...

    Authors: Emmanouil Angelakis, Fehmida Bibi, Dhamodharan Ramasamy, Esam I Azhar, Asif A Jiman-Fatani, Sally M Aboushoushah, Jean-Christophe Lagier, Catherine Robert, Aurelia Caputo, Muhammad Yasir, Pierre-Edouard Fournier and Didier Raoult
    Citation: Standards in Genomic Sciences 2014 9:8
  42. Mesorhizobium loti strain NZP2037 was isolated in 1961 in Palmerston North, New Zealand from a Lotus divaricatus root nodule. Compared to most other M. loti strains, it has a broad host range and is one of very ...

    Authors: Simon Kelly, John Sullivan, Clive Ronson, Rui Tian, Lambert Bräu, Karen Davenport, Hajnalka Daligault, Tracy Erkkila, Lynne Goodwin, Wei Gu, Christine Munk, Hazuki Teshima, Yan Xu, Patrick Chain, Tanja Woyke, Konstantinos Liolios…
    Citation: Standards in Genomic Sciences 2014 9:7
  43. Mesorhizobium loti strain R7A was isolated in 1993 in Lammermoor, Otago, New Zealand from a Lotus corniculatus root nodule and is a reisolate of the inoculant strain ICMP3153 (NZP2238) used at the site. R7A is a...

    Authors: Simon Kelly, John Sullivan, Clive Ronson, Rui Tian, Lambert Bräu, Christine Munk, Lynne Goodwin, Cliff Han, Tanja Woyke, Tatiparthi Reddy, Marcel Huntemann, Amrita Pati, Konstantinos Mavromatis, Victor Markowitz, Natalia Ivanova, Nikos Kyrpides…
    Citation: Standards in Genomic Sciences 2014 9:6
  44. Strains of a pink-pigmented Methylobacterium sp. are effective nitrogen- (N2) fixing microsymbionts of species of the African crotalarioid genus Listia. Strain WSM2598 is an aerobic, motile, Gram-negative, non-sp...

    Authors: Julie Ardley, Rui Tian, John Howieson, Ron Yates, Lambert Bräu, James Han, Elizabeth Lobos, Marcel Huntemann, Amy Chen, Konstantinos Mavromatis, Victor Markowitz, Natalia Ivanova, Amrita Pati, Lynne Goodwin, Tanja Woyke, Nikos Kyrpides…
    Citation: Standards in Genomic Sciences 2014 9:5
  45. Ensifer medicae Di28 is an aerobic, motile, Gram-negative, non-spore-forming rod that can exist as a soil saprophyte or as a legume microsymbiont of Medicago spp. Di28 was isolated in 1998 from a nodule recovere...

    Authors: Giovanni Garau, Jason Terpolilli, Yvette Hill, Rui Tian, John Howieson, Lambert Bräu, Lynne Goodwin, James Han, TBK Reddy, Marcel Huntemann, Amrita Pati, Tanja Woyke, Konstantinos Mavromatis, Victor Markowitz, Natalia Ivanova, Nikos Kyrpides…
    Citation: Standards in Genomic Sciences 2014 9:4
  46. Mesorhizobium loti strain R88B was isolated in 1993 in the Rocklands range in Otago, New Zealand from a Lotus corniculatus root nodule. R88B is an aerobic, Gram-negative, non-spore-forming rod. This report revea...

    Authors: Wayne Reeve, John Sullivan, Clive Ronson, Rui Tian, Lambert Bräu, Karen Davenport, Lynne Goodwin, Patrick Chain, Tanja Woyke, Elizabeth Lobos, Marcel Huntemann, Amrita Pati, Konstantinos Mavromatis, Victor Markowitz, Natalia Ivanova and Nikos Kyrpides
    Citation: Standards in Genomic Sciences 2014 9:3
  47. Although Escherichia coli is the most widely studied bacterial model organism and often considered to be the model bacterium per se, its type strain was until now forgotten from microbial genomics. As a part of t...

    Authors: Jan P Meier-Kolthoff, Richard L Hahnke, Jörn Petersen, Carmen Scheuner, Victoria Michael, Anne Fiebig, Christine Rohde, Manfred Rohde, Berthold Fartmann, Lynne A Goodwin, Olga Chertkov, TBK Reddy, Amrita Pati, Natalia N Ivanova, Victor Markowitz, Nikos C Kyrpides…
    Citation: Standards in Genomic Sciences 2014 9:2
  48. Corynebacterium timonense strain 5401744T is a member of the genus Corynebacterium which contains Gram-positive bacteria with a high G+C content. It was isolated from the blood of a patient with endocarditis. In ...

    Authors: Véronique Roux, Catherine Robert and Didier Raoult
    Citation: Standards in Genomic Sciences 2014 9:9030948
  49. Fenollaria massiliensis strain 9401234T, is the type strain of Fenollaria massiliensis gen. nov., sp. nov., a new species within a new genus Fenollaria. This strain, whose genome is described here, was isolated f...

    Authors: Isabelle Pagnier, Olivier Croce, Catherine Robert, Didier Raoult and Bernard La Scola
    Citation: Standards in Genomic Sciences 2014 9:9030704