Open Access

Genome sequences published outside of Standards in Genomic Sciences, January-March 2012

  • Oranmiyan W. Nelson
  • and George M. Garrity

DOI: 10.4056/sigs.1756022

Received: 19 March 2012

Published: 19 March 2012


The purpose of this table is to provide the community with a citable record of publications of ongoing genome sequencing projects that have led to a publication in the scientific literature. While our goal is to make the list complete, there is no guarantee that we may have omitted one or more publications appearing in this time frame. Readers and authors who wish to have publications added to subsequent versions of this list are invited to provide the bibliographic data for such references to the SIGS editorial office.

Phylum Crenarchaeota

Pyrobaculum strain 1860, sequence accession CP003098 [1]

Phylum Deinococcus-Thermus

Thermus sp.” Strain CCB_US3_UF1, sequence accession CP003126 (chromosome), CP003127 (plasmid) [2]

Phylum Proteobacteria

Achromobacter arsenitoxydans” SY8, sequence accession AGUF00000000 [3]

Acidovorax sp. Strain NO1, sequence accession AGTS00000000 [4]

Acinetobacter baumannii AB4857, sequence accession AHAG00000000 [5]

Acinetobacter baumannii AB5075, sequence accession AHAH00000000 [5]

Acinetobacter baumannii AB5256, sequence accession AHAI00000000 [5]

Acinetobacter baumannii AB5711, sequence accession AHAJ00000000 [5]

Aeromonas salmonicida, sequence accession AGVO00000000 [6]

Aggregatibacter actinomycetemcomitans RHAA1, sequence accession AHGR00000000 [7]

Agrobacterium tumefaciens 5A, sequence accession AGVZ00000000 [8]

Azoarcus sp. Strain KH32C, sequence accession AP012304, AP012305 [9]

Burkholderia sp. Strain YI23, sequence accession CP003087 (Chromosome 1), CP003088 (Chromosome 2), CP003089 (Chromosome 3), CP003090 (plasmid BYI23_D), CP003091 (plasmid BYI23_E) CP003092 (plasmid BYI23_F) [10]

Brucella suis VBI22, sequence accession CP003128, CP003129 [11]

Comamonas testosteroni ATCC 11996, sequence accession AHIL00000000 [12]

Commensalibacter intestini” A911T, sequence accession AGFR00000000 [13]

Edwardsiella ictaluri, sequence accession CP001600.1 [14]

Enterobacter cloacae subsp. dissolvens SDM, sequence accession AGSY00000000 [15]

Gluconobacter morbifer” G707T, sequence accession AGQV00000000 [16]

Legionella dumoffii TEX-KL, sequence accession AGVT00000000 [17]

Legionella dumoffii NY-23, sequence accession AGVU00000000 [17]

Legionella pneumophila serogroup 12 Strain 570-CO-H, sequence accession CP003192 [18]

Marinobacterium stanieri S30, sequence accession AFPL00000000 [19]

Marinobacter manganoxydans” MnI7-9, sequence accession CP001978 to CP001980 [20]

Mesorhizobium alhagi CCNWXJ12-2T, sequence accession AHAM00000000 [21]

Mesorhizobium amorphae, sequence accession AGSN00000000 [22]

Methylomicrobium alcaliphilum 20Z, sequence accession FO082060 and FO082061 [23]

Mitsuaria sp. Strain H24L5A, sequence accession CAFG01000001 to CAFG01000607 [24]

Novosphingobium pentaromativorans US6-1, sequence accession AGFM00000000 [25]

Pantoea ananatis B1-9, sequence accession CAEI01000001 to CAEI01000169 [26]

Pantoea ananatis LMG 5342, sequence accession HE617160 (chromosome), HE617161 (pPANA10) [27]

Pantoea ananatis Strain PA13, sequence accession CP003085 and CP003086 [28]

Pseudomonas aeruginosa, sequence accession AFXI00000000 [29]

Pseudomonas aeruginosa, sequence accession AFXJ00000000 [29]

Pseudomonas aeruginosa, sequence accession AFXK00000000 [29]

Pseudomonas chlororaphis GP72, sequence accession AHAY01000000 [30]

Pseudomonas fluorescens F113, sequence accession CP003150 [31]

Pseudomonas fluorescens Wayne 1R, sequence accession CADX01000001 to CADX01000090 [32]

Pseudomonas fluorescens Wood1R, sequence accession CAFF01000001 to CAFF01001437 [32]

Pseudomonas psychrotolerans L19, sequence accession AHBD00000000 [33]

Pseudoalteromonas rubra ATCC 29570T, sequence accession AHCD00000000 [34]

Pseudomonas stutzeri SDM-LAC, sequence accession AGSX00000000 [35]

Pseudoxanthomonas spadix BD-a59, sequence accession CP003093 [36]

Rickettsia slovaca, sequence accession CP002428 [37]

Salmonella enterica serovar Pullorum RKS5078, sequence accession CP003047 [38]

Sinorhizobium meliloti CCNWSX0020, sequence accession AGVV00000000 [39]

Sphingobium sp. Strain SYK-6, sequence accession AP012222 and AP012223 [40]

Sphingomonas sp. Strain PAMC 26605, sequence accession AHIS00000000 [41]

Stenotrophomonas maltophilia RR-10, sequence accession AGRB00000000 [42]

Strain HIMB30, sequence accession AGIG00000000 [43]

Taylorella equigenitalis, sequence accession CP003059 [44]

Vibrio campbellii DS40M4, sequence accession AGIE00000000 [45]

Vibrio fischeri SR5, sequence accession AHIH00000000 [46]

Yersinia enterocolitica, sequence accession AGQO00000000 [47]

Phylum Tenericutes

Candidatus Mycoplasma haemominutum, sequence accession HE613254 [48]

Mycoplasma haemocanis strain Illinois, sequence accession CP003199 [49]

Mycoplasma iowae, sequence accession AGFP00000000 [50]

Mycoplasma pneumoniae Type 2a Strain 309, sequence accession AP012303 [51]

Phylum Firmicutes

Bacillus cereus F837/76, sequence accession CP003187 (chromosome) CP003188 (pF837_55kb), CP003189 (pF837_10kb) [52]

Brevibacillus laterosporus Strain GI-9, sequence accession CAGD01000001 to CAGD01000061 [53]

Clostridium sporogenes PA 3679, sequence accession AGAH00000000 [54]

Enterococcus mundtii CRL1656, sequence accession AFWZ00000000.1 [55]

Geobacillus thermoleovorans CCB_US3_UF5, sequence accession CP003125 [56]

Lactobacillus curvatus Strain CRL705, sequence accession AGBU01000000 [57]

Lactobacillus rhamnosus ATCC 8530, sequence accession CP003094 [58]

Lactobacillus rhamnosus R0011, sequence accession AGKC00000000 [59]

Lactococcus garvieae TB25, sequence accession AGQX01000000 [60]

Lactococcus garvieae LG9, sequence accession AGQY01000000 [60]

Lactococcus lactis subsp. cremoris A76, sequence accession CP003132 (chromosome), CP003136 (pQA505), CP003135 (PQA518), CP003134 (pQA549), CP003133 (pQA554) [61]

Leuconostoc citreum LBAE C10, sequence accession CAGE00000000 [62]

Leuconostoc citreum LBAE C11, sequence accession CAGF00000000 [62]

Leuconostoc citreum LBAE E16, sequence accession CAGG00000000 [62]

Leuconostoc mesenteroides subsp. mesenteroides Strain J18, sequence accession CP003101 [63]

Paenibacillus peoriae Strain KCTC 3763T, sequence accession AGFX00000000 [64]

Pediococcus acidilactici MA18/5M, sequence accession AGKB00000000 [65]

Pediococcus claussenii ATCC BAA-344T, sequence accession CP003137 (chromosome), CP003138 (pPECL-1), CP003139 (pPECL-2), CP003140 (pPECL-3), CP003141 (pPECL-4), CP003142 (pPECL-5), CP003143 (pPECL-6), CP003144 (pPECL-7), CP003145 (pPECL-8) [66]

Staphylococcus aureus M013, sequence accession CP003166 [67]

Staphylococcus aureus subsp. aureus TW20, sequence accession FN433596 [68]

Weissella confusa LBAE C39-2, sequence accession CAGH00000000 [69]

Phylum Actinobacteria

Corynebacterium casei, sequence accession CAFW01000001 to CAFW01000106 [70]

Corynebacterium glutamicum, sequence accession AGQQ00000000 [71]

Leucobacter chromiiresistens, sequence accession AGCW00000000 [72]

Mycobacterium abscessus, sequence accession AGQU00000000 [73]

Propionibacterium acnes ST9, sequence accession CP003195 [74]

Propionibacterium acnes ST22, sequence accession CP003196 [74]

Propionibacterium acnes ST27, sequence accession CP003197 [74]

Saccharomonospora azurea SZMC 14600, sequence accession AHBX00000000 [75]

Streptomyces sp. Strain TOR3209, sequence accession AGNH00000000 [76]

Streptomyces sp. Strain W007, sequence accession AGSW00000000 [77]

Phylum Spirochaetes

Borrelia valaisiana VS116, sequence accession ABCY02000001 (chromosome), CP001439 (plasmid Ip17), CP001437 (Ip25), CP001440 (plasmid Ip 28-3), CP001442 (plasmid Ip28-8), CP001436 (Ip 36), CP001433 (plasmid Ip 54), CP001438 (plasmid cp9), CP001432 (plasmid cp26), CP001441 (plasmid cp32-5), CP001434 (plasmid cp32-7), CP001435 (plasmid cp32-10) [78]

Borrelia bissettii” DN127, sequence accession CP002746 (chromosome), CP002756 (plasmid Ip12), CP002757 (plasmid Ip25), CP002758 (plasmid 28-3), CP002759 (plasmid Ip 28-4), CP002760 (Ip28-7), CP002761 (plasmid Ip54), CP002762 (plasmid Ip56), CP002755 (plasmid cp9), CP002747 (plasmid cp26), CP002749 (plasmid cp32-3), CP002750 (plasmid cp32-4), CP002751 (plasmid 32-5), CP002752 (plasmid cp32-6), CP002753 (plasmid cp32-7), CP0027554 (plasmid cp32-9), CP002748 (plasmid cp32-11) [78]

Borrelia spielmanii A14S, sequence accession ABKB02000001 (chromosome), CP001468 (plasmid Ip17), CP001471 (Ip28-3), CP001470 (plasmid Ip28-4), CP001465 (plasmid Ip28-2), CP001466 (plasmid Ip36), CP001464 (plasmid Ip38), CP001469 (plasmid Ip54), ABKB02000016, ABKB02000020 (plasmid cp9), CP001467 (plasmid cp26), ABKB02000026 (plasmid cp32-3), ABKB02000031 (plasmid 32-5), ABKB02000021 (plasmid cp32-12), ABKB02000014 (unidentified) [78]

Non-Bacterial genomes

Aspergillus flavus, sequence accession GSE32177 [79]

Bacteriophage SPN3UB, sequence accession JQ288021 [80]

Bamboo mitochondria, sequence accession JQ235166 to JQ235179 [81]

Boea hygrometrica chloroplast, sequence accession JN107811 [82]

Boea hygrometrica mitochondrial, sequence accession JN107812 [82]

Canine Picornavirus, sequence accession JN831356 [83]

Chandipura virus (CHPV) CIN0327, sequence accession GU212856.1 [84]

Chandipura virus (CHPV) CIN0451, sequence accession GU212857.1 [84]

Chandipura virus (CHPV) CIN0751, sequence accession GU212858.1 [84]

Chandipura virus (CHPV) CIN0755, sequence accession GU190711.1 [84]

Chinese Porcine Parvovirus Strain PPV2010, sequence accession JN872448 [85]

Common midwife toad megavirus, sequence accession JQ231222 [86]

Dengue Virus Serotype 4, sequence accession JN983813 [87]

Duck Tembusu Virus, sequence accession JF270480 [88]

Duck Tembusu Virus, sequence accession JQ314464 [88]

Duck Tembusu Virus, sequence accession JQ314465 [88]

Emiliania huxleyi Virus 202, sequence accession HQ634145 [89]

Emiliania huxleyi Virus EhV-88, sequence accession JF974310 [89]

Emiliania huxleyi EhV-201, sequence accession JF974311 [89]

Emiliania huxleyi EhV-207, sequence accession JF974317 [89]

Emiliania huxleyi EhV-208, sequence accession JF974318 [89]

Glarea lozoyensis, sequence accession GUE00000000 [90]

Nannochloropis gaditana, sequence accession AGNI00000000 [91]

Oryza sativa cv., sequence accession DRA000499 [92]

Partetravirus, sequence accession JN990269 [93]

Porcine Bocavirus PBoV5, sequence accession JN831651 [94]

Porcine epidemic diarrhea virus, sequence accession JQ282909 [95]

Pseudomonas aeruginosa lytic bacteriophage PA1Ø, sequence accession HM624080 [96]

Pseudomonas fluorescens phage OBP, sequence accesssion JN627160 [97]

RNA Virus from Avocado, sequence accession JN880414 [98]

Salmonella enterica Serovar Typhimurium Bacteriophage SPN1S, sequence accession JN391180 [99]

Schistosoma haematobium, sequence accession PRJNA78265 [100]

Schistosoma mansoni, sequence accession ERP00038 [101]

Stenopirates sp., sequence accession JN100019 [102]

T7-Like Virus, sequence accession JN651747 [103]

Vibrio harveyi siphophage VHS1, sequence accession JF713456 [104]

Tyrolean ice man, sequence accession ERP001144 [105]



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  21. Zhou M, Chen W, Chen H and Wei G. Draft Genome Sequence of Mesorhizobium alhagi CCNWXJ12-2T, a Novel Salt-Resistant Species Isolated from the Desert of Northwestern China. J Bacteriol. 2012; 194:1261-1262 View ArticlePubMed
  22. Hao X, Lin Y, Johnstone L, Baltrus DA, Miller SJ, Wei G and Rensing C. Draft genome sequence of plant growth-promoting rhizobium Mesorhizobium amorphae, isolated from Zinc-Lead mine tailings. J Bacteriol. 2012; 194:736-737 View ArticlePubMed
  23. Vuilleumier S, Khmelenina VN, Bringel F, Reshetnikov AS, Lajus A, Mangenot S, Rouy Z, Op den Camp HJM, Jetten MSM and Dispirito AA. Genome sequence of the haloalkaliphilic methanotrophic bacterium Methylomicrobium alcaliphilum 20Z. J Bacteriol. 2012; 194:551-552 View ArticlePubMed
  24. Rong X, Gurel FB, Meulia T and McSpadden Gardener BB. Draft genome sequences of the biocontrol bacterium Mitsuaria sp. strain H24L5A. J Bacteriol. 2012; 194:734-735 View ArticlePubMed
  25. Luo YR, Kang SG, Kim SJ, Kim MR, Li N, Lee JH and Kwon KK. Genome sequence of benzo(a)pyrene-degrading bacterium Novosphingobium pentaromativorans US6-1. J Bacteriol. 2012; 194:907 View ArticlePubMed
  26. Kim HJ, Lee JH, Kang BR, Rong X, McSpadden Gardener BB, Ji HJ, Park CS and Kim YC. Draft genome sequence of Pantoea ananatis B1-9, a nonpathogenic plant growth-promoting bacterium. J Bacteriol. 2012; 194:729 View ArticlePubMed
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  28. Choi O, Lim JY, Seo YS, Hwang I and Kim J. Complete genome sequence of the rice pathogen Pantoea ananatis strain PA13. J Bacteriol. 2012; 194:531 View ArticlePubMed
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  30. Shen X, Chen M, Hu H, Wang W, Peng H, Xu P and Zhang X. Genome Sequence of Pseudomonas chlororaphis GP72, a Root-Colonizing Biocontrol Strain. J Bacteriol. 2012; 194:1269-1270 View ArticlePubMed
  31. Redondo-Nieto M, Barret M, Morrisey JP, Germaine K, Martínez-Granero F, Barahona E, Navazo A, Sánchez-Contreras M, Moynihan JA and Giddens SR. Genome Sequence of the Biocontrol Strain Pseudomonas fluorescens F113. J Bacteriol. 2012; 194:1273-1274 View ArticlePubMed
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  33. Espírito Santo C, Lin Y, Hao X, Wei G, Rensing C and Grass G. Draft Genome Sequence of Pseudomonas psychrotolerans L19, Isolated from Copper Alloy Coins. J Bacteriol. 2012; 194:1623-1624 View ArticlePubMed
  34. Xie BB, Shu YL, Qin QL, Rong JC, Zhang XY, Chen XL, Zhou BC and Zhang YZ. Genome Sequence of the Cycloprodigiosin-Producing Bacterial Strain Pseudoalteromonas rubra ATCC 29570T. J Bacteriol. 2012; 194:1637-1638 View ArticlePubMed
  35. Jiang T, Gao C, Su F, Zhang W, Hu C, Dou P, Zheng Z, Tao F, Ma C and Xu P. Genome sequence of Pseudomonas stutzeri SDM-LAC, a typical strain for studying the molecular mechanism of lactate utilization. J Bacteriol. 2012; 194:894-895 View ArticlePubMed
  36. Lee SH, Jin HM, Lee HJ, Kim JM and Jeon CO. Complete genome sequence of the BTEX-degrading bacterium Pseudoxanthomonas spadix BD-a59. J Bacteriol. 2012; 194:544 View ArticlePubMed
  37. Fournier PE, El Karkouri K, Robert C, Médigue C and Raoult D. Complete Genome Sequence of Rickettsia slovaca, the Agent of Tick-Borne Lymphadenitis. J Bacteriol. 2012; 194:1612 View ArticlePubMed
  38. Feng Y, Xu HF, Li QH, Zhang SY, Wang CX, Zhu DL, Cao FL, Li YG, Johnston RN and Zhou J. Complete genome sequence of Salmonella enterica serovar Pullorum RKS5078. J Bacteriol. 2012; 194:744 View ArticlePubMed
  39. Li Z, Ma Z, Hao X and Wei G. Draft Genome Sequence of Sinorhizobium meliloti CCNWSX0020, a Nitrogen-Fixing Symbiont with Copper Tolerance Capability Isolated from Lead-Zinc Mine Tailings. J Bacteriol. 2012; 194:1267-1268 View ArticlePubMed
  40. Masai E, Kamimura N, Kasai D, Oguchi A, Ankai A, Fukui S, Takahashi M, Yashiro I, Sasaki H and Harada T. Complete genome sequence of Sphingobium sp. strain SYK-6, a degrader of lignin-derived biaryls and monoaryls. J Bacteriol. 2012; 194:534-535 View ArticlePubMed
  41. Shin SC, Ahn DH, Lee JK, Kim SJ, Hong SG, Kim EH and Park H. Genome Sequence of Sphingomonas sp. Strain PAMC 26605, Isolated from Arctic Lichen (Ochrolechia sp.). J Bacteriol. 2012; 194:1607 View ArticlePubMed
  42. Zhu B, Liu H, Tian WX, Fan XY, Li B, Zhou XP, Jin GL and Xie GL. Genome Sequence of Stenotrophomonas maltophilia RR-10, Isolated as an Endophyte from Rice Root. J Bacteriol. 2012; 194:1280-1281 View ArticlePubMed
  43. Huggett MJ and Rappé MS. Genome sequence of strain HIMB30, a novel member of the marine Gammaproteobacteria. J Bacteriol. 2012; 194:732-733 View ArticlePubMed
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  45. Dias GM, Thompson CC, Fishman B, Naka H, Haygood MG, Crosa JH and Thompson FL. Genome sequence of the marine bacterium Vibrio campbellii DS40M4, isolated from open ocean water. J Bacteriol. 2012; 194:904 View ArticlePubMed
  46. Gyllborg MC, Sahl JW, Cronin DC, Rasko DA and Mandel MJ. Draft Genome Sequence of Vibrio fischeri SR5, a Strain Isolated from the Light Organ of the Mediterranean Squid Sepiola robusta. J Bacteriol. 2012; 194:1639 View ArticlePubMed
  47. Klinzing DC, Matias RR, Skowronski E, Alvarez M, Liles V, Dimamay MP and Natividad FF. Shotgun genome sequence of a Yersinia enterocolitica isolate from the Philippines. J Bacteriol. 2012; 194:542-543 View ArticlePubMed
  48. Barker EN, Darby AC, Helps CR, Peters IR, Hughes MA, Radford AD, Novacco M, Boretti FS, Hofmann-Lehmann R and Tasker S. Genome sequence for “Candidatus Mycoplasma haemominutum,” a low-pathogenicity Hemoplasma species. J Bacteriol. 2012; 194:905-906 View ArticlePubMed
  49. do Nascimento NC, Guimaraes AMS, Santos AP, SanMiguel PJ and Messick JB. Complete Genome Sequence of Mycoplasma haemocanis Strain Illinois. J Bacteriol. 2012; 194:1605-1606 View ArticlePubMed
  50. Wei S, Guo Z, Li T, Zhang T, Li X, Zhou Z, Li Z, Liu M, Luo R and Bi D. Genome sequence of Mycoplasma iowae strain 695, an unusual pathogen causing deaths in Turkeys. J Bacteriol. 2012; 194:547-548 View ArticlePubMed
  51. Kenri T, Horino A, Matsui M, Sasaki Y, Suzuki S, Narita M, Ohya H, Okazaki N and Shibayama K. Complete Genome Sequence of Mycoplasma pneumoniae Type 2a Strain 309, Isolated in Japan. J Bacteriol. 2012; 194:1253-1254 View ArticlePubMed
  52. Auger S, Galleron N, Ségurens B, Dossat C, Bolotin A, Wincker P and Sorokin A. Complete Genome Sequence of the Highly Hemolytic Strain Bacillus cereus F837/76. J Bacteriol. 2012; 194:1630 View ArticlePubMed
  53. Sharma V, Singh PK, Midha S, Ranjan M, Korpole S and Patil PB. Genome Sequence of Brevibacillus laterosporus Strain GI-9. J Bacteriol. 2012; 194:1279 View ArticlePubMed
  54. Bradbury M, Greenfield P, Midgley D, Li D, Tran-Dinh N, Vriesekoop F and Brown JL. Draft Genome Sequence of Clostridium sporogenes PA 3679, the Common Nontoxigenic Surrogate for Proteolytic Clostridium botulinum. J Bacteriol. 2012; 194:1631-1632 View ArticlePubMed
  55. Magni C, Espeche C, Repizo GD, Saavedra L, Suárez CA, Blancato VS, Espariz M, Esteban L, Raya RR and Font de Valdez G. Draft genome sequence of Enterococcus mundtii CRL1656. J Bacteriol. 2012; 194:550 View ArticlePubMed
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