List of sequenced archaeal genomes

This list of sequenced archaeal genomes contains all the archaea known to have publicly available complete genome sequences that have been assembled, annotated and deposited in public databases. Methanococcus jannaschii was the first archaeon whose genome was sequenced, in 1996.[1]

Currently in this list there are 39 genomes belonging to Crenarchaeota species, 105 belonging to the Euryarchaeota, 1 genome belonging to Korarchaeota and to the Nanoarchaeota, 3 belonging to the Thaumarchaeota and 1 genome belonging to an unclassified Archaea, totalling 150 Archaeal genomes.

Crenarchaeota

Acidilobales
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Acidilobus saccharovorans 345-15 1,496,000 1,547 [2] CP001742 2010

Desulforococcales
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Aeropyrum pernix K1 1,669,695 2,694 [3] NC_000854 (NCBI Reference Sequence) 1999
Desulfurococcus kamchatkensis 1221n 1,365,000 1,521 [4] CP001140 2009
Hyperthermus butylicus DSM 5456 1,667,000 1,669 [5] CP000493 2007
Ignicoccus hospitalis KIN4/I, DSM 18386 1,297,000 1,496 [6] CP000816 2008
Ignisphaera aggregans AQ1.S1, DSM 17230 1,875,000 2,042 [7] CP002098 2010
Pyrolobus fumarii 1A, DSM 11204 1,843,000 2,038 [8] CP002838 2011
Staphylothermus hellenicus P8, DSM 12710 1,580,000 1,716 [9] CP002051 2011
Staphylothermus marinus F1, DSM 3639 1,570,000 1,659 [10] CP000575 2011
Thermosphaera aggregans M11TL, DSM 11486 1,316,000 1,457 [11] CP001939 2010

Sulfolobales
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Acidianus hospitalis W1 2,137,000 2,424 [12] CP002535 2011
Metallosphaera cuprina Ar-4 1,840,000 2,077 [13] CP002656 2011
Metallosphaera sedula DSM 5348 2,191,000 2,347 [14] CP000682 2008
Sulfolobus acidocaldarius DSM 639 2,225,959 2,223 [15] CP000077 2005
Sulfolobus islandicus HVE10/4 2,655,000 [16] CP002426 2011
Sulfolobus islandicus L.D.8.5 2,722,000 2,996 [17] Chromosome CP001731

Plasmid pLD8501 CP001732

 2009
Sulfolobus islandicus L.S.2.15 2,736,000 3,068 [17] CP001399 2009
Sulfolobus islandicus M.14.25 2,608,000 2,900 [17] CP001400 2009
Sulfolobus islandicus M.16.27 2,692,000 2,956 [17] CP001401 2009
Sulfolobus islandicus M.16.4 2,586,000 2,869 [17] CP001402 2009
Sulfolobus islandicus REY15A 2,522,000 [16] CP002425 2011
Sulfolobus islandicus Y.G.57.14 2,702,000 3,079 [17] CP001403 2009
Sulfolobus islandicus Y.N.15.51 2,812,000 3,318 [17] Chromosome CP001404

Plasmid pYN01 CP001405

 2009
Sulfolobus islandicus LAL14/1 2,465,177 2,601 [18] CP003928 2013
Sulfolobus solfataricus P2 2,992,245 2,995 [19] AE006641 2001
Sulfolobus solfataricus 98/2 2,668,000 2,728 DOE Joint Genome Institute CP001800 2009
Sulfolobus tokodaii 7 2,694,765 2,826 [20] BA000023 2001

Thermoproteales
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Caldivirga maquilingensis IC-167 2,077,000 2,011 DOE Joint Genome Institute CP000852 2007
Pyrobaculum aerophilum IM2 2,222,430 2,605 [21] AE009441 2002
Pyrobaculum arsenaticum PZ6, DSM 13514 2,121,000 2,410 DOE Joint Genome Institute CP000660 2007
Pyrobaculum calidifontis JCM 11548 2,009,000 2,213 DOE Joint Genome Institute CP000561 2007
Pyrobaculum islandicum DSM 4184 1,826,000 2,063 DOE Joint Genome Institute CP000504 2006
Pyrobaculum sp. 1860 Unpublished[22] CP003098 2011
Thermofilum pendens Hrk 5 1,781,000 1,930 [23] Chromosome CP000505

Plasmid pTPEN01 CP000506

 2008
Thermoproteus neutrophilus V24Sta 1,769,000 2,053 DOE Joint Genome Institute CP001014 2008
Thermoproteus tenax Kra1 1,841,000 2,100 [24] FN869859 2011
Thermoproteus uzoniensis 768-20 1,936,000 2,229 [25] CP002590 2011
Vulcanisaeta distributa DSM 14429 2,374,000 2,592 [26] CP002100 2010
Vulcanisaeta moutnovskia 768-28 2,298,000 2,393 [27] CP002529 2011

Euryarchaeota

Archaeoglobi
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Archaeoglobus fulgidus DSM4304 2,178,400 2,407 [28] AE000782 1997
Archaeoglobus veneficus SNP6, DSM 11195 1,901,000 2,194 DOE Joint Genome Institute CP002588 2011
Archaeoglobus profundus Av18, DSM 5631 1,563,000 1,911 [29] Chromosome CP001857

Plasmid pArcpr01 CP001858

 2010
Ferroglobus placidus AEDII12DO, DSM 10642 2,196,000 2,622 [30] CP001899 2011

Halobacteria
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Halalkalicoccus jeotgali B3, DSM 18796 3,690,000 3925 [31] Chromosome I CP002062

Plasmid 1 CP002063
Plasmid 2 CP002064
Plasmid 3 CP002065
Plasmid 4 CP002066
Plasmid 5 CP002067
Plasmid 6 CP002068

 2010
Haloarcula hispanica CGMCC 1.2049 3,484,000 3,561 [32] Chromosome I CP002921

Chromosome II CP002922
Plasmid pHH400 CP002923

 2011
Haloarcula marismortui ATCC 43049 3,131,724 3,131 [33] Chromosome I AY596297

Chromosome II AY596298
Plasmid pNG100 AY596290
Plasmid pNG200 AY596291
Plasmid pNG300 AY596292
Plasmid pNG400 AY596293
Plasmid pNG500 AY596294
Plasmid pNG600 AY596295
Plasmid pNG700 AY596296

 2004
Halobacterium salinarum R1, DSM 671 2,000,000 2,801 [34] Chromosome NC_010364

Plasmid PHS1 NC_010366
Plasmid PHS2 NC_010369
Plasmid PHS3 NC_010368
Plasmid PHS4 NC_010367

 2008
Halobacterium species NRC-1 2,014,239 2,058 [35] Chromosome NC_002607

Plasmid pNRC100 NC_002607
Plasmid pNRC200 NC_002608

 2000
Halobiforma lacisalsi AJ5, JCM 12983 4,320,000 4,682 [36] AGFZ00000000 2011
Haloferax volcanii DS2 [37] Chromosome CP001956

Plasmid pHV1 CP001957
Plasmid pHV2 CP001954
Plasmid pHV3 CP001953
Plasmid pHV4 CP001955

 2010
Halogeometricum borinquense PR3, DSM 11551 3,920,000 4,059 [38] Chromosome CP001690

Plasmid pHBOR01 CP001691
Plasmid pHBOR02 CP001692
Plasmid pHBOR03 CP001693
Plasmid pHBOR04 CP001694
Plasmid pHBOR05 CP001695

 2009
Halomicrobium mukohataei arg-2, DSM 12286 3,332,000 3,475 [39] Chromosome CP001688

Plasmid pHmuk01 CP001689

 2009
Halopiger xanaduensis SH-6 3,668,000 3,685 DOE Joint Genome Institute Chromosome CP002839

Plasmid pHALXA01 CP002840
Plasmid pHALXA02 CP002841
Plasmid pHALXA03 CP002842

 2011 (Chromosome)
Haloquadratum walsbyi C23, DSM 16854 3,148,000 [40] Chromosome FR746099

Plasmid PL6A FR746101
Plasmid PL6B FR746102
Plasmid PL100 FR746100

 2011
Haloquadratum walsbyi HBSQ001, DSM 16790 3,132,000 2,914 [41] Chromosome AM180088

Plasmid PL47 AM180089

 2006
Halorhabdus tiamatea SARL4B 3,840,000 4,034 [42] AFNT00000000 2011
Halorhabdus utahensis AX-2, DSM 12940 3116 Kb 3076 [43] CP001687 2009
Halorubrum lacusprofundi ATCC 49239 4,300,000 3,725 DOE Joint Genome Institute Chromosome 1 CP001365

Chromosome 2 CP001366
Plasmid pHLAC01 CP001367

 2009 (Chromosomes 1 and 2)
Haloterrigena turkmenica VKM B-1734, DSM 5511 5,440,000 5,351 [44] Chromosome CP001860

Plasmid pHTUR01 CP001861
Plasmid pHTUR02 CP001862
Plasmid pHTUR03 CP001863
Plasmid pHTUR04 CP001864
Plasmid pHTUR05 CP001865
Plasmid pHTUR06 CP001866

 2010
Natrialba asiatica ATCC 700177 [45] Survey 2004
Natrialba magadii ATCC 43099 3,751,000 4,364 DOE Joint Genome Institute CP001932 2010
Natronomonas pharaonis DSM2160 2,595,221 2,675 [46] Chromosome CR936257

Plasmid PL131 CR936258
Plasmid PL23 CR936259

 2005

Methanobacteria
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Methanobacterium sp. AL-21 2,583,000 DOE Joint Genome Institute,
Univ of Illinois at Urbana-Champaign		 CP002551 2011
Methanobacterium sp. SWAN-1 2,546,000 2,500 DOE Joint Genome Institute,
Univ Illinois at Urbana-Champaign		 CP002772 2011
Methanobacterium thermoautotrophicum delta-H 1,751,377 1,869 [47] AE000666 1997
Methanobrevibacter ruminantium M1 2,937,000 2,283 [48] CP001719 2010
Methanobrevibacter smithii DSM 2375 1,704,000 1,748 Washington University ABYW00000000 2008
Methanobrevibacter smithii F1, DSM 2374 1,707,000 1,749 Washington University ABYV00000000 2010
Methanobrevibacter smithii PS, ATCC 35061 1,853,000 1,841 [49] CP000678 2007
Methanobrevibacter smithii TS94A 1,889,000 1,808 [50] AELU00000000 2011
Methanobrevibacter smithii TS94B 1,886,000 1,856 [50] AELV00000000 2011
Methanobrevibacter smithii TS94C 1,910,000 1,812 [50] AELW00000000 2011
Methanobrevibacter smithii TS95A 1,992,000 1,961 [50] AELX00000000 2011
Methanobrevibacter smithii TS95B 1,972,000 1,895 [50] AELY00000000 2011
Methanobrevibacter smithii TS95C 1,978,000 1,874 [50] AELZ00000000 2011
Methanobrevibacter smithii TS95D 2,011,000 1,860 [50] AEMA00000000 2011
Methanobrevibacter smithii TS96A 1,975,000 1,852 [50] AEMB00000000 2011
Methanobrevibacter smithii TS96B 1,869,000 1,742 [50] AEMC00000000 2011
Methanobrevibacter smithii TS96C 1,818,000 1,764 [50] AEMD00000000 2011
Methanobrevibacter smithii TS145A 1,782,000 1,786 [50] AEKU00000000 2011
Methanobrevibacter smithii TS145B 1,797,000 1,880 [50] AELL00000000 2011
Methanobrevibacter smithii TS146A 1,792,000 1,823 [50] AELM00000000 2011
Methanobrevibacter smithii TS146B 1,794,000 1,814 [50] AELN00000000 2011
Methanobrevibacter smithii TS146C 1,947,000 2,355 [50] AELO00000000 2011
Methanobrevibacter smithii TS146D 1,713,000 1,693 [50] AELP00000000 2011
Methanobrevibacter smithii TS146E 1,952,000 1,887 [50] AELQ00000000 2011
Methanobrevibacter smithii TS147A 2,008,000 1,969 [50] AELR00000000 2011
Methanobrevibacter smithii TS147B 1,965,000 1,911 [50] AELS00000000 2011
Methanobrevibacter smithii TS147C 1,973,000 2,014 [50] AELT00000000 2011
Methanosphaera stadtmanae DSM 3091 1,767,403 1,534 [51] CP000102 2005
Methanothermobacter marburgensis Marburg DSM 2133 1,634,000 1,806 [52] CP001710 2010
Methanothermus fervidus V24S, DSM 2088 1,243,000 1,361 [53] CP002278 2010

Methanococci
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Methanocaldococcus fervens AG86 1,485,000 1,663 DOE Joint Genome Institute Chromosome CP001696

Plasmid pMEFER01 CP001697

 2009 (Chromosome)
Methanocaldococcus infernus ME 1,328,000 1,513 DOE Joint Genome Institute CP002009 2010
Methanocaldococcus jannaschii DSM 2661 1,664,970 1,715 [54] Chromosome: L77117

Large plasmid: L77118
Small plasmid: L77119

 1996
Methanocaldococcus vulcanius M7, DSM 12094 1,746,000 1,808 DOE Joint Genome Institute Chromosome CP001787

Plasmid pMETVU01 CP001788
Plasmid pMETVU02 CP001789

 2009
Methanocaldococcus sp. FS406-22 1,760,000 1,893 DOE Joint Genome Institute Chromosome CP001901

Plasmid pFS01 CP001902

 2010 (Chromosome)
Methanococcus aeolicus Nankai-3 1,569,000 1,554 DOE Joint Genome Institute CP000743 2007
Methanococcus maripaludis C5 1,780,000 1,896 DOE Joint Genome Institute CP000609 2007
Methanococcus maripaludis C6 1,744,000 1,874 DOE Joint Genome Institute CP000867 2007
Methanococcus maripaludis C7 1,772,000 1,858 DOE Joint Genome Institute CP000745 2007
Methanococcus maripaludis S2 1,661,137 1,722 [55] NC_005791 (NCBI Reference Sequence) 2004
Methanococcus maripaludis X1 1,746,000 1,892 [56] CP002913 2011
Methanococcus vannielii SB 1,720,000 1,755 DOE Joint Genome Institute CP000742 2007
Methanococcus voltae A3 1,936,000 1,768 DOE Joint Genome Institute CP002057 2010
Methanothermococcus okinawensis IH1 1,662,000 1,662 DOE Joint Genome Institute Chromosome CP002792

Plasmid pMETOK01 CP002793

 2011 (Chromosome)
Methanotorris igneus Kol5, DSM 5666 1,854,000 1,843 DOE Joint Genome Institute CP002737 2011

Methanomicrobia
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Candidatus Methanoregula boonei 6A8 2,542,000 2,518 DOE Joint Genome Institute[57] CP000780 2007
Methanocella sp. Rice Cluster I (RC-I) MRE50 3,179,916 3103 Genome sequence,[58] then taxonomic placement[59] AM114193 2005
Methanocella paludicola SANAE 2,957,635 3004 [60] AP011532 2011
Methanocella conradii HZ254 1,316,380 2512 [61] CP003243 2012
Methanococcoides burtonii DSM6242 2,575,032 2,273 [62] CP000300 2009
Methanocorpusculum labreanum Z 1,804,000 1,830 [63] CP000559 2009
Methanoculleus marisnigri JR1, DSM 1498 2,478,000 2,560 [64] CP000562 2009
Methanohalobium evestigatum Z-7303 2,406,232 2,254 DOE Joint Genome Institute[65] Chromosome: CP002069

Plasmid pMETEV01: CP002070

 2010 (Chromosome)
Methanohalophilus mahii SLP, DSM 5219 2,012,000 2,095 [66] CP001994 2010
Methanoplanus petrolearius SEBR 4847, DSM 11571 2,843,000 2,881 [67] CP002117 2011
Methanosalsum zhilinae WeN5, DSM 4017 2,138,000 2,086 CP002101 2010
Methanosaeta concilii GP-6 3,008,000 [68] CP002565 2010
Methanosaeta harundinacea 6Ac 2,559,000 [22] CP003117 2011
Methanosaeta thermophila PT 1,879,000 1,785 DOE Joint Genome Institute CP000477 2006
Methanosarcina acetivorans C2A 5,751,492 4,540 [69] AE010299 2002
Methanosarcina barkeri Fusaro, DSM 804 4,837,408 3,607 [70] Chromosome CP000099

Plasmid 1 CP000098

 2006 (Chromosome)
Methanosarcina mazei Go1 4,096,345 3,371 [71] AE008384 2002
Methanosphaerula palustris E1-9c, DSM 19958 2,922,000 2,859 DOE Joint Genome Institute CP001338 2008
Methanospirillum hungatei JF-1 3,544,738 3,139 DOE Joint Genome Institute CP000254 2006

Methanopyri
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Methanopyrus kandleri AV19 1,694,969 1,691 [72] AE009439 2002

Thermococci
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Pyrococcus abyssi GE5 1,765,118 1,784 [73] NC_000868 (NCBI Reference Sequence) 2000
Pyrococcus furiosus DSM 3638 1,908,256 2,065 [74] AE009950 1999
Pyrococcus horikoshii OT3 1,738,505 2,061 [75] NC_000961 (NCBI Reference Sequence) 1998
Pyrococcus sp. NA2 1,861,000 1,984 [22] CP002670 2011
Pyrococcus yayanosii CH1 1,716,000 1,952 [76] CP002779 2011
Thermococcus barophilus MP, DSM 11836 2,010,000 2,196 [77] CP002372 2011
Thermococcus gammatolerans EJ3 2,045,000 2,206 [78] CP001398 2009
Thermococcus kodakaraensis KOD1 2,088,737 2,306 [79] AP006878 2005
Thermococcus onnurineus NA1 1,847,000 2,027 [80] NC_011529 (NCBI Reference Sequence) 2008
Thermococcus sibiricus MM 739 1,845,000 2,085 [81] CP001463 2009
Thermococcus sp. 4557 2,011,000 2,181 [82] CP002920 2011
Thermococcus sp. AM4 2,086,000 2,279 [83] CP002952 2011

Thermoplasmata
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Ferroplasma acidarmanus Fer1 1,865,000 1,742 [84] AABC00000000 2007
Picrophilus torridus DSM 9790 1,545,895 1,535 [85] AE017261 2004
Thermoplasma acidophilum DSM 1728 1,564,906 1,478 [86] NC_002578 (NCBI Reference Sequence) 2000
Thermoplasma volcanium GSS1 1,584,804 1,526 [87] NC_002689 (NCBI Reference Sequence) 2000

Unclassified Euryarchaeota
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Aciduliprofundum boonei T469 1,486,000 1,587 DOE Joint Genome Institute CP001941 2010

Korarchaeota
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Candidatus Korarchaeum cryptofilum OPF8 1,590,000 1,661 [88] CP000968 2008

Nanoarchaeota
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Nanoarchaeum equitans Kin4-M 490,885 536 [89] AE017199 2003

Thaumarchaeota

Cenarchaeales
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Cenarchaeum symbiosum A 2,045,000 2,066 [90] DP000238 2006

Nitrosopumilales
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
Candidatus Nitrosoarchaeum limnia SFB1 1,769,000 2,171 [91] AEGP00000000 2011
Nitrosopumilus maritimus SCM1 1,645,000 1,842 [92] CP000866 2010

Unclassified Archaea
Species Strain Base Pairs Genes Reference GenBank identifier Publication year
halophilic archaeon sp. DL31 Unpublished[22] CP002988 2011

See also

References
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