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    Results: 1 to 20 of 260

    1.

    Towards understanding the first genome sequence of a crenarchaeon by genome annotation using clusters of orthologous groups of proteins (COGs).

    Natale DA, Shankavaram UT, Galperin MY, Wolf YI, Aravind L, Koonin EV.

    Genome Biol. 2000;1(5):RESEARCH0009. Epub 2000 Nov 6.

    PMID:
    11178258
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    2.

    Clusters of orthologous genes for 41 archaeal genomes and implications for evolutionary genomics of archaea.

    Makarova KS, Sorokin AV, Novichkov PS, Wolf YI, Koonin EV.

    Biol Direct. 2007 Nov 27;2:33.

    PMID:
    18042280
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    4.

    Comparison of archaeal and bacterial genomes: computer analysis of protein sequences predicts novel functions and suggests a chimeric origin for the archaea.

    Koonin EV, Mushegian AR, Galperin MY, Walker DR.

    Mol Microbiol. 1997 Aug;25(4):619-37.

    PMID:
    9379893
    [PubMed - indexed for MEDLINE]
    5.

    The COG database: a tool for genome-scale analysis of protein functions and evolution.

    Tatusov RL, Galperin MY, Natale DA, Koonin EV.

    Nucleic Acids Res. 2000 Jan 1;28(1):33-6.

    PMID:
    10592175
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    6.

    Comparative genomics of the Archaea (Euryarchaeota): evolution of conserved protein families, the stable core, and the variable shell.

    Makarova KS, Aravind L, Galperin MY, Grishin NV, Tatusov RL, Wolf YI, Koonin EV.

    Genome Res. 1999 Jul;9(7):608-28.

    PMID:
    10413400
    [PubMed - indexed for MEDLINE]
    Free Article
    7.

    Hindsight in the relative abundance, metabolic potential and genome dynamics of uncultivated marine archaea from comparative metagenomic analyses of bathypelagic plankton of different oceanic regions.

    Martin-Cuadrado AB, Rodriguez-Valera F, Moreira D, Alba JC, Ivars-Martínez E, Henn MR, Talla E, López-García P.

    ISME J. 2008 Aug;2(8):865-86. Epub 2008 May 8.

    PMID:
    18463691
    [PubMed - indexed for MEDLINE]
    8.

    Archaeal phylogeny based on proteins of the transcription and translation machineries: tackling the Methanopyrus kandleri paradox.

    Brochier C, Forterre P, Gribaldo S.

    Genome Biol. 2004;5(3):R17. Epub 2004 Feb 26.

    PMID:
    15003120
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    9.

    An integrated analysis of the genome of the hyperthermophilic archaeon Pyrococcus abyssi.

    Cohen GN, Barbe V, Flament D, Galperin M, Heilig R, Lecompte O, Poch O, Prieur D, Quérellou J, Ripp R, Thierry JC, Van der Oost J, Weissenbach J, Zivanovic Y, Forterre P.

    Mol Microbiol. 2003 Mar;47(6):1495-512.

    PMID:
    12622808
    [PubMed - indexed for MEDLINE]
    10.

    Archaeal genomics.

    Gaasterland T.

    Curr Opin Microbiol. 1999 Oct;2(5):542-7. Review.

    PMID:
    10508726
    [PubMed - indexed for MEDLINE]
    12.

    Genome trees constructed using five different approaches suggest new major bacterial clades.

    Wolf YI, Rogozin IB, Grishin NV, Tatusov RL, Koonin EV.

    BMC Evol Biol. 2001 Oct 20;1:8.

    PMID:
    11734060
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    14.

    Distinct gene set in two different lineages of ammonia-oxidizing archaea supports the phylum Thaumarchaeota.

    Spang A, Hatzenpichler R, Brochier-Armanet C, Rattei T, Tischler P, Spieck E, Streit W, Stahl DA, Wagner M, Schleper C.

    Trends Microbiol. 2010 Aug;18(8):331-40. Epub 2010 Jul 2.

    PMID:
    20598889
    [PubMed - indexed for MEDLINE]
    15.

    Genome alignment, evolution of prokaryotic genome organization, and prediction of gene function using genomic context.

    Wolf YI, Rogozin IB, Kondrashov AS, Koonin EV.

    Genome Res. 2001 Mar;11(3):356-72.

    PMID:
    11230160
    [PubMed - indexed for MEDLINE]
    Free Article
    16.

    Complete genome sequence of an aerobic hyper-thermophilic crenarchaeon, Aeropyrum pernix K1.

    Kawarabayasi Y, Hino Y, Horikawa H, Yamazaki S, Haikawa Y, Jin-no K, Takahashi M, Sekine M, Baba S, Ankai A, Kosugi H, Hosoyama A, Fukui S, Nagai Y, Nishijima K, Nakazawa H, Takamiya M, Masuda S, Funahashi T, Tanaka T, Kudoh Y, Yamazaki J, Kushida N, Oguchi A, Kikuchi H, et al.

    DNA Res. 1999 Apr 30;6(2):83-101, 145-52.

    PMID:
    10382966
    [PubMed - indexed for MEDLINE]
    Free Article
    17.

    Filling a gap in the central metabolism of archaea: prediction of a novel aconitase by comparative-genomic analysis.

    Makarova KS, Koonin EV.

    FEMS Microbiol Lett. 2003 Oct 10;227(1):17-23.

    PMID:
    14568143
    [PubMed - indexed for MEDLINE]
    18.

    The COG database: an updated version includes eukaryotes.

    Tatusov RL, Fedorova ND, Jackson JD, Jacobs AR, Kiryutin B, Koonin EV, Krylov DM, Mazumder R, Mekhedov SL, Nikolskaya AN, Rao BS, Smirnov S, Sverdlov AV, Vasudevan S, Wolf YI, Yin JJ, Natale DA.

    BMC Bioinformatics. 2003 Sep 11;4:41. Epub 2003 Sep 11.

    PMID:
    12969510
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    19.

    Genome evolution at the genus level: comparison of three complete genomes of hyperthermophilic archaea.

    Lecompte O, Ripp R, Puzos-Barbe V, Duprat S, Heilig R, Dietrich J, Thierry JC, Poch O.

    Genome Res. 2001 Jun;11(6):981-93.

    PMID:
    11381026
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    20.

    Status of genome projects for nonpathogenic bacteria and archaea.

    Nelson KE, Paulsen IT, Heidelberg JF, Fraser CM.

    Nat Biotechnol. 2000 Oct;18(10):1049-54. Review.

    PMID:
    11017041
    [PubMed - indexed for MEDLINE]

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