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Volumn 1, Issue 5, 2000, Pages

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

Author keywords

Archaeal Genome; Archaeal Species; Genome Annotation; Methanococcus Jannaschii; Ureaplasma Urealyticum

Indexed keywords

ARCHAEAL DNA; ARCHAEAL PROTEIN;

EID: 0034572821     PISSN: 14747596     EISSN: 1474760X     Source Type: Journal    
DOI: 10.1186/gb-2000-1-5-research0009     Document Type: Article
Times cited : (86)

References (57)
  • 1
    • 0033569552 scopus 로고    scopus 로고
    • Biosequence exegesis
    • PID: 10521334, COI: 1:CAS:528:DyaK1MXmvVOhtro%3D
    • Boguski MS: Biosequence exegesis. Science. 1999, 286: 453-455. 10.1126/science.286.5439.453. DOI: 10.1126/science.286.5439.453
    • (1999) Science , vol.286 , pp. 453-455
    • Boguski, M.S.1
  • 2
    • 0032491377 scopus 로고    scopus 로고
    • Predicting function: from genes to genomes and back
    • PID: 9790834, COI: 1:CAS:528:DyaK1cXntlersLk%3D
    • Bork P, Dandekar T, Diaz-Lazcoz Y, Eisenhaber F, Huynen M, Yuan Y: Predicting function: from genes to genomes and back. J Mol Biol. 1998, 283: 707-725. 10.1006/jmbi.1998.2144. DOI: 10.1006/jmbi.1998.2144
    • (1998) J Mol Biol , vol.283 , pp. 707-725
    • Bork, P.1    Dandekar, T.2    Diaz-Lazcoz, Y.3    Eisenhaber, F.4    Huynen, M.5    Yuan, Y.6
  • 3
    • 0034084865 scopus 로고    scopus 로고
    • Who's your neighbor? New computational approaches for functional genomics
    • PID: 10835597, COI: 1:CAS:528:DC%2BD3cXkt12gtr8%3D
    • Galperin MY, Koonin EV: Who's your neighbor? New computational approaches for functional genomics. Nat Biotechnol. 2000, 18: 609-613. 10.1038/76443. DOI: 10.1038/76443
    • (2000) Nat Biotechnol , vol.18 , pp. 609-613
    • Galperin, M.Y.1    Koonin, E.V.2
  • 5
    • 0030052411 scopus 로고    scopus 로고
    • MAGPIE: automated genome interpretation
    • PID: 8851977, COI: 1:CAS:528:DyaK28XhtFagtbY%3D
    • Gaasterland T, Sensen CW: MAGPIE: automated genome interpretation. Trends Genet. 1996, 12: 76-78. 10.1016/0168-9525(96)81406-5. DOI: 10.1016/0168-9525(96)81406-5
    • (1996) Trends Genet , vol.12 , pp. 76-78
    • Gaasterland, T.1    Sensen, C.W.2
  • 6
    • 0030821171 scopus 로고    scopus 로고
    • Dealing with database explosion: a cautionary note
    • PID: 9206831, COI: 1:CAS:528:DyaK2sXjvV2murk%3D
    • Bhatia U, Robison K, Gilbert W: Dealing with database explosion: a cautionary note. Science. 1997, 276: 1724-1725. 10.1126/science.276.5319.1724. DOI: 10.1126/science.276.5319.1724
    • (1997) Science , vol.276 , pp. 1724-1725
    • Bhatia, U.1    Robison, K.2    Gilbert, W.3
  • 7
    • 0031897589 scopus 로고    scopus 로고
    • Predicting functions from protein sequences - where are the bottlenecks?
    • PID: 9537411, COI: 1:CAS:528:DyaK1cXit1egsr4%3D
    • Bork P, Koonin EV: Predicting functions from protein sequences - where are the bottlenecks?. Nat Genet. 1998, 18: 313-318. DOI: 10.1038/ng0498-313
    • (1998) Nat Genet , vol.18 , pp. 313-318
    • Bork, P.1    Koonin, E.V.2
  • 8
    • 0032229196 scopus 로고    scopus 로고
    • Sources of systematic error in functional annotation of genomes: domain rearrangement, non-orthologous gene displacement and operon disruption
    • PID: 11471243, COI: 1:STN:280:DC%2BD3MvisVeqsw%3D%3D
    • Galperin MY, Koonin EV: Sources of systematic error in functional annotation of genomes: domain rearrangement, non-orthologous gene displacement and operon disruption. In Silico Biol. 1998, 1: 55-67.
    • (1998) In Silico Biol , vol.1 , pp. 55-67
    • Galperin, M.Y.1    Koonin, E.V.2
  • 9
    • 0033982936 scopus 로고    scopus 로고
    • KEGG: Kyoto encyclopedia of genes and genomes
    • PID: 10592173, COI: 1:CAS:528:DC%2BD3cXhvVGqu74%3D
    • Kanehisa M, Goto S: KEGG: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 2000, 28: 27-30. 10.1093/nar/28.1.27. DOI: 10.1093/nar/28.1.27
    • (2000) Nucleic Acids Res , vol.28 , pp. 27-30
    • Kanehisa, M.1    Goto, S.2
  • 10
    • 0033977576 scopus 로고    scopus 로고
    • WIT: integrated system for high-throughput genome sequence analysis and metabolic reconstruction
    • PID: 10592199, COI: 1:CAS:528:DC%2BD3cXhvVKjs7g%3D
    • Overbeek R, Larsen N, Pusch GD, D'Souza M, Selkov E, Kyrpides N, Fonstein M, Maltsev N, Selkov E: WIT: integrated system for high-throughput genome sequence analysis and metabolic reconstruction. Nucleic Acids Res. 2000, 28: 123-125. 10.1093/nar/28.1.123. DOI: 10.1093/nar/28.1.123
    • (2000) Nucleic Acids Res , vol.28 , pp. 123-125
    • Overbeek, R.1    Larsen, N.2    Pusch, G.D.3    D'Souza, M.4    Selkov, E.5    Kyrpides, N.6    Fonstein, M.7    Maltsev, N.8    Selkov, E.9
  • 11
    • 0033957469 scopus 로고    scopus 로고
    • SMART: a web-based tool for the study of genetically mobile domains
    • PID: 10592234, COI: 1:CAS:528:DC%2BD3cXhvVKjt78%3D
    • Schultz J, Copley RR, Doerks T, Ponting CP, Bork P: SMART: a web-based tool for the study of genetically mobile domains. Nucleic Acids Res. 2000, 28: 231-234. 10.1093/nar/28.1.231. DOI: 10.1093/nar/28.1.231
    • (2000) Nucleic Acids Res , vol.28 , pp. 231-234
    • Schultz, J.1    Copley, R.R.2    Doerks, T.3    Ponting, C.P.4    Bork, P.5
  • 12
    • 0030660581 scopus 로고    scopus 로고
    • A genomic perspective on protein families
    • PID: 9381173, COI: 1:CAS:528:DyaK2sXmvVOrsL0%3D
    • Tatusov RL, Koonin EV, Lipman DJ: A genomic perspective on protein families. Science. 1997, 278: 631-637. 10.1126/science.278.5338.631. DOI: 10.1126/science.278.5338.631
    • (1997) Science , vol.278 , pp. 631-637
    • Tatusov, R.L.1    Koonin, E.V.2    Lipman, D.J.3
  • 13
    • 0014800108 scopus 로고
    • Distinguishing homologous from analogous proteins
    • PID: 5449325, COI: 1:CAS:528:DyaE3MXkvFyisw%3D%3D
    • Fitch WM: Distinguishing homologous from analogous proteins. Syst Zool. 1970, 19: 99-106. DOI: 10.2307/2412448
    • (1970) Syst Zool , vol.19 , pp. 99-106
    • Fitch, W.M.1
  • 14
    • 0029654009 scopus 로고
    • Uses for evolutionary trees
    • PID: 8748022, COI: 1:STN:280:DyaK28zltlejsA%3D%3D
    • Fitch WM: Uses for evolutionary trees. Philos Trans R Soc Lond B Biol Sci. 1995, 349: 93-102. DOI: 10.1098/rstb.1995.0095
    • (1995) Philos Trans R Soc Lond B Biol Sci , vol.349 , pp. 93-102
    • Fitch, W.M.1
  • 15
    • 0033956060 scopus 로고    scopus 로고
    • The COG database: a tool for genome-scale analysis of protein functions and evolution
    • PID: 10592175, COI: 1:CAS:528:DC%2BD3cXhvVGqu7w%3D
    • Tatusov RL, Galperin MY, Natale DA, Koonin EV: The COG database: a tool for genome-scale analysis of protein functions and evolution. Nucleic Acids Res. 2000, 28: 33-36. 10.1093/nar/28.1.33. DOI: 10.1093/nar/28.1.33
    • (2000) Nucleic Acids Res , vol.28 , pp. 33-36
    • Tatusov, R.L.1    Galperin, M.Y.2    Natale, D.A.3    Koonin, E.V.4
  • 16
    • 85182718141 scopus 로고    scopus 로고
    • National Centre for Sequencing, France. [http://www.genoscope.cns.fr]
    • France.
  • 19
    • 0032766490 scopus 로고    scopus 로고
    • Comparative genomics of the Archaea (Euryarchaeota): evolution of conserved protein families, the stable core, and the variable shell
    • PID: 10413400, COI: 1:CAS:528:DyaK1MXkvV2itbg%3D
    • Makarova KS, Aravind L, Galperin MY, Grishin NV, Tatusov RL, Wolf YI, Koonin EV: Comparative genomics of the Archaea (Euryarchaeota): evolution of conserved protein families, the stable core, and the variable shell. Genome Res. 1999, 9: 608-628.
    • (1999) Genome Res , vol.9 , pp. 608-628
    • Makarova, K.S.1    Aravind, L.2    Galperin, M.Y.3    Grishin, N.V.4    Tatusov, R.L.5    Wolf, Y.I.6    Koonin, E.V.7
  • 20
    • 0033587149 scopus 로고    scopus 로고
    • Thermostable uracil-DNA glycosylase from Thermotoga maritimaa member of a novel class of DNA repair enzymes
    • PID: 10339434, COI: 1:CAS:528:DyaK1MXjsVymt74%3D
    • Sandigursky M, Franklin WA: Thermostable uracil-DNA glycosylase from Thermotoga maritima a member of a novel class of DNA repair enzymes. Curr Biol. 1999, 9: 531-534. 10.1016/S0960-9822(99)80237-1. DOI: 10.1016/S0960-9822(99)80237-1
    • (1999) Curr Biol , vol.9 , pp. 531-534
    • Sandigursky, M.1    Franklin, W.A.2
  • 21
    • 0034705405 scopus 로고    scopus 로고
    • Uracil-DNA glycosylase in the extreme thermophile Archaeoglobus fulgidus
    • PID: 10777501, COI: 1:CAS:528:DC%2BD3cXksVGku74%3D
    • Sandigursky M, Franklin WA: Uracil-DNA glycosylase in the extreme thermophile Archaeoglobus fulgidus. J Biol Chem. 2000, 275: 19146-19149. 10.1074/jbc.M001995200. DOI: 10.1074/jbc.M001995200
    • (2000) J Biol Chem , vol.275 , pp. 19146-19149
    • Sandigursky, M.1    Franklin, W.A.2
  • 22
    • 0033529945 scopus 로고    scopus 로고
    • A read-ahead function in archaeal DNA polymerases detects promutagenic template-strand uracil
    • PID: 10430892, COI: 1:CAS:528:DyaK1MXltVeqt7o%3D
    • Greagg MA, Fogg MJ, Panayotou G, Evans SJ, Connolly BA, Pearl LH: A read-ahead function in archaeal DNA polymerases detects promutagenic template-strand uracil. Proc Natl Acad Sci USA. 1999, 96: 9045-9050. 10.1073/pnas.96.16.9045. DOI: 10.1073/pnas.96.16.9045
    • (1999) Proc Natl Acad Sci USA , vol.96 , pp. 9045-9050
    • Greagg, M.A.1    Fogg, M.J.2    Panayotou, G.3    Evans, S.J.4    Connolly, B.A.5    Pearl, L.H.6
  • 23
    • 0034724342 scopus 로고    scopus 로고
    • An archaeal genomic signature
    • PID: 10716711, COI: 1:CAS:528:DC%2BD3cXitlWqsb8%3D
    • Graham DE, Overbeek R, Olsen GJ, Woese CR: An archaeal genomic signature. Proc Natl Acad Sci USA. 2000, 97: 3304-3308. 10.1073/pnas.050564797. DOI: 10.1073/pnas.97.7.3304
    • (2000) Proc Natl Acad Sci USA , vol.97 , pp. 3304-3308
    • Graham, D.E.1    Overbeek, R.2    Olsen, G.J.3    Woese, C.R.4
  • 24
    • 0033231209 scopus 로고    scopus 로고
    • Whole genome-based phylogenetic analysis of free-living microorganisms
    • PID: 10518613, COI: 1:CAS:528:DyaK1MXnt1Gkur8%3D
    • Fitz-Gibbon ST, House CH: Whole genome-based phylogenetic analysis of free-living microorganisms. Nucleic Acids Res. 1999, 27: 4218-4222. 10.1093/nar/27.21.4218. DOI: 10.1093/nar/27.21.4218
    • (1999) Nucleic Acids Res , vol.27 , pp. 4218-4222
    • Fitz-Gibbon, S.T.1    House, C.H.2
  • 25
    • 0032900532 scopus 로고    scopus 로고
    • Genome phylogeny based on gene content
    • PID: 9916801, COI: 1:CAS:528:DyaK1MXltlWjtQ%3D%3D
    • Snel B, Bork P, Huynen MA: Genome phylogeny based on gene content. Nat Genet. 1999, 21: 108-110. 10.1038/5052. DOI: 10.1038/5052
    • (1999) Nat Genet , vol.21 , pp. 108-110
    • Snel, B.1    Bork, P.2    Huynen, M.A.3
  • 26
    • 0033278954 scopus 로고    scopus 로고
    • Pervasiveness of gene conservation and persistence of duplicates in cellular genomes
    • PID: 10552040, COI: 1:CAS:528:DyaK1MXnsVajsbk%3D
    • Tekaia F, Dujon B: Pervasiveness of gene conservation and persistence of duplicates in cellular genomes. J Mol Evol. 1999, 49: 591-600. DOI: 10.1007/PL00006580
    • (1999) J Mol Evol , vol.49 , pp. 591-600
    • Tekaia, F.1    Dujon, B.2
  • 27
    • 0031828814 scopus 로고    scopus 로고
    • Optimally recovering rate variation information from genomes and sequences: pattern filtering
    • PID: 9729887, COI: 1:CAS:528:DyaK1cXls1KisLo%3D
    • Lake JA: Optimally recovering rate variation information from genomes and sequences: pattern filtering. Mol Biol Evol. 1998, 15: 1224-1231. DOI: 10.1093/oxfordjournals.molbev.a026030
    • (1998) Mol Biol Evol , vol.15 , pp. 1224-1231
    • Lake, J.A.1
  • 28
    • 0026684272 scopus 로고
    • Evidence that eukaryotes and eocyte prokaryotes are immediate relatives
    • PID: 1621096, COI: 1:CAS:528:DyaK38XlsVGksrc%3D
    • Rivera MC, Lake JA: Evidence that eukaryotes and eocyte prokaryotes are immediate relatives. Science. 1992, 257: 74-76. DOI: 10.1126/science.1621096
    • (1992) Science , vol.257 , pp. 74-76
    • Rivera, M.C.1    Lake, J.A.2
  • 29
    • 0031769997 scopus 로고    scopus 로고
    • Evolutionary anomalies among the aminoacyl-tRNA synthetases
    • PID: 9914200, COI: 1:CAS:528:DyaK1MXhs1yjug%3D%3D
    • Doolittle RF, Handy J: Evolutionary anomalies among the aminoacyl-tRNA synthetases. Curr Opin Genet Dev. 1998, 8: 630-636. 10.1016/S0959-437X(98)80030-0. DOI: 10.1016/S0959-437X(98)80030-0
    • (1998) Curr Opin Genet Dev , vol.8 , pp. 630-636
    • Doolittle, R.F.1    Handy, J.2
  • 30
    • 0030868589 scopus 로고    scopus 로고
    • Comparison of archaeal and bacterial genomes: computer analysis of protein sequences predicts novel functions and suggests a chimeric origin for the archaea
    • PID: 9379893, COI: 1:CAS:528:DyaK2sXmtFegsbk%3D
    • Koonin EV, Mushegian AR, Galperin MY, Walker DR: Comparison of archaeal and bacterial genomes: computer analysis of protein sequences predicts novel functions and suggests a chimeric origin for the archaea. Mol Microbiol. 1997, 25: 619-637. 10.1046/j.1365-2958.1997.4821861.x. DOI: 10.1046/j.1365-2958.1997.4821861.x
    • (1997) Mol Microbiol , vol.25 , pp. 619-637
    • Koonin, E.V.1    Mushegian, A.R.2    Galperin, M.Y.3    Walker, D.R.4
  • 31
    • 0033941641 scopus 로고    scopus 로고
    • Protein fold recognition using sequence profiles and its application in structural genomics
    • PID: 10829230, COI: 1:CAS:528:DC%2BD3cXltFSqs7w%3D
    • Koonin EV, Wolf YI, Aravind L: Protein fold recognition using sequence profiles and its application in structural genomics. Adv Protein Chem. 2000, 54: 245-275. 10.1016/S0065-3233(00)54008-X. DOI: 10.1016/S0065-3233(00)54008-X
    • (2000) Adv Protein Chem , vol.54 , pp. 245-275
    • Koonin, E.V.1    Wolf, Y.I.2    Aravind, L.3
  • 32
    • 0033485460 scopus 로고    scopus 로고
    • DNA-binding proteins and evolution of transcription regulation in the archaea
    • PID: 10556324, COI: 1:CAS:528:DyaK1MXnvVanu7k%3D
    • Aravind L, Koonin EV: DNA-binding proteins and evolution of transcription regulation in the archaea. Nucleic Acids Res. 1999, 27: 4658-4670. 10.1093/nar/27.23.4658. DOI: 10.1093/nar/27.23.4658
    • (1999) Nucleic Acids Res , vol.27 , pp. 4658-4670
    • Aravind, L.1    Koonin, E.V.2
  • 33
    • 0028106317 scopus 로고
    • Cloning, sequencing, and expression of a fibronectin/fibrinogen-binding protein from group A streptococci
    • PID: 8063411, COI: 1:CAS:528:DyaK2MXltl2itA%3D%3D
    • Courtney HS, Li Y, Dale JB, Hasty DL: Cloning, sequencing, and expression of a fibronectin/fibrinogen-binding protein from group A streptococci. Infect Immun. 1994, 62: 3937-3946.
    • (1994) Infect Immun , vol.62 , pp. 3937-3946
    • Courtney, H.S.1    Li, Y.2    Dale, J.B.3    Hasty, D.L.4
  • 34
    • 0031722706 scopus 로고    scopus 로고
    • Novel families of putative protein kinases in bacteria and archaea: evolution of the "eukaryotic" protein kinase superfamily
    • PID: 9799791, COI: 1:CAS:528:DyaK1cXnsVKjsLk%3D
    • Leonard CJ, Aravind L, Koonin EV: Novel families of putative protein kinases in bacteria and archaea: evolution of the "eukaryotic" protein kinase superfamily. Genome Res. 1998, 8: 1038-1047.
    • (1998) Genome Res , vol.8 , pp. 1038-1047
    • Leonard, C.J.1    Aravind, L.2    Koonin, E.V.3
  • 35
    • 0030249023 scopus 로고    scopus 로고
    • Non-orthologous gene displacement
    • PID: 8855656, COI: 1:CAS:528:DyaK28Xls1yht7c%3D
    • Koonin EV, Mushegian AR, Bork P: Non-orthologous gene displacement. Trends Genet. 1996, 12: 334-336. 10.1016/0168-9525(96)20010-1. DOI: 10.1016/0168-9525(96)20010-1
    • (1996) Trends Genet , vol.12 , pp. 334-336
    • Koonin, E.V.1    Mushegian, A.R.2    Bork, P.3
  • 36
    • 0032564361 scopus 로고    scopus 로고
    • A heterodimeric DNA polymerase: evidence that members of euryarchaeota possess a distinct DNA polymerase
    • PID: 9826686, COI: 1:CAS:528:DyaK1cXns1Gmu7g%3D
    • Cann IKO, Komori K, Toh H, Kanai S, Ishino Y: A heterodimeric DNA polymerase: evidence that members of euryarchaeota possess a distinct DNA polymerase. Proc Natl Acad Sci USA. 1998, 95: 14250-14255. 10.1073/pnas.95.24.14250. DOI: 10.1073/pnas.95.24.14250
    • (1998) Proc Natl Acad Sci USA , vol.95 , pp. 14250-14255
    • Cann, I.K.O.1    Komori, K.2    Toh, H.3    Kanai, S.4    Ishino, Y.5
  • 37
    • 0032529457 scopus 로고    scopus 로고
    • Phosphoesterase domains associated with DNA polymerases of diverse origins
    • PID: 9685491, COI: 1:CAS:528:DyaK1cXls1SmtLk%3D
    • Aravind L, Koonin EV: Phosphoesterase domains associated with DNA polymerases of diverse origins. Nucleic Acids Res. 1998, 26: 3746-3752. 10.1093/nar/26.16.3746. DOI: 10.1093/nar/26.16.3746
    • (1998) Nucleic Acids Res , vol.26 , pp. 3746-3752
    • Aravind, L.1    Koonin, E.V.2
  • 38
    • 0032875628 scopus 로고    scopus 로고
    • Two family B DNA polymerases from Aeropyrum pernix, an aerobic hyper-thermophilic crenarchaeote
    • PID: 10498710, COI: 1:CAS:528:DyaK1MXmsVOrt7g%3D
    • Cann IK, Ishino S, Nomura N, Sako Y, Ishino Y: Two family B DNA polymerases from Aeropyrum pernix, an aerobic hyper-thermophilic crenarchaeote. J Bacteriol. 1999, 181: 5984-5992.
    • (1999) J Bacteriol , vol.181 , pp. 5984-5992
    • Cann, I.K.1    Ishino, S.2    Nomura, N.3    Sako, Y.4    Ishino, Y.5
  • 39
    • 0033105094 scopus 로고    scopus 로고
    • Conserved domains in DNA repair proteins and evolution of repair systems
    • PID: 9973609, COI: 1:CAS:528:DyaK1MXhslWjtrg%3D
    • Aravind L, Walker DR, Koonin EV: Conserved domains in DNA repair proteins and evolution of repair systems. Nucleic Acids Res. 1999, 27: 1223-1242. 10.1093/nar/27.5.1223. DOI: 10.1093/nar/27.5.1223
    • (1999) Nucleic Acids Res , vol.27 , pp. 1223-1242
    • Aravind, L.1    Walker, D.R.2    Koonin, E.V.3
  • 40
    • 0342514827 scopus 로고    scopus 로고
    • Cysteine biosynthesis pathway in the archaeon Methanosarcina barkeriencoded by acquired bacterial genes?
    • PID: 10613873, COI: 1:CAS:528:DyaK1MXotFyjtLs%3D
    • Kitabatake M, So MW, Tumbula DL, Soll D: Cysteine biosynthesis pathway in the archaeon Methanosarcina barkeri encoded by acquired bacterial genes?. J Bacteriol. 2000, 182: 143-145. DOI: 10.1128/JB.182.1.143-145.2000
    • (2000) J Bacteriol , vol.182 , pp. 143-145
    • Kitabatake, M.1    So, M.W.2    Tumbula, D.L.3    Soll, D.4
  • 42
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
    • PID: 9254694, COI: 1:CAS:528:DyaK2sXlvFyhu7w%3D
    • Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 1997, 25: 3389-3402. 10.1093/nar/25.17.3389. DOI: 10.1093/nar/25.17.3389
    • (1997) Nucleic Acids Res , vol.25 , pp. 3389-3402
    • Altschul, S.F.1    Madden, T.L.2    Schaffer, A.A.3    Zhang, J.4    Zhang, Z.5    Miller, W.6    Lipman, D.J.7
  • 43
    • 0029901640 scopus 로고    scopus 로고
    • Analysis of compositionally biased regions in sequence databases
    • PID: 8743706, COI: 1:CAS:528:DyaK28Xltl2ntbw%3D
    • Wootton JC, Federhen S: Analysis of compositionally biased regions in sequence databases. Methods Enzymol. 1996, 266: 554-571. 10.1016/S0076-6879(96)66035-2. DOI: 10.1016/S0076-6879(96)66035-2
    • (1996) Methods Enzymol , vol.266 , pp. 554-571
    • Wootton, J.C.1    Federhen, S.2
  • 46
    • 0014211361 scopus 로고
    • Construction of phylogenetic trees
    • PID: 5334057, COI: 1:CAS:528:DyaF2sXnt1Gnsw%3D%3D
    • Fitch WM, Margoliash E: Construction of phylogenetic trees. Science. 1967, 155: 279-284. DOI: 10.1126/science.155.3760.279
    • (1967) Science , vol.155 , pp. 279-284
    • Fitch, W.M.1    Margoliash, E.2
  • 47
    • 0023375195 scopus 로고
    • The neighbor-joining method: a new method for reconstructing phylogenetic trees
    • PID: 3447015, COI: 1:STN:280:DyaL1c7ovFSjsA%3D%3D
    • Saitou N, Nei M: The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol. 1987, 4: 406-425.
    • (1987) Mol Biol Evol , vol.4 , pp. 406-425
    • Saitou, N.1    Nei, M.2
  • 48
    • 0029901637 scopus 로고    scopus 로고
    • Inferring phylogenies from protein sequences by parsimony, distance, and likelihood methods
    • PID: 8743697, COI: 1:CAS:528:DyaK28Xltl2nt7g%3D
    • Felsenstein J: Inferring phylogenies from protein sequences by parsimony, distance, and likelihood methods. Methods Enzymol. 1996, 266: 418-427. 10.1016/S0076-6879(96)66026-1. DOI: 10.1016/S0076-6879(96)66026-1
    • (1996) Methods Enzymol , vol.266 , pp. 418-427
    • Felsenstein, J.1
  • 49
    • 0032830481 scopus 로고    scopus 로고
    • Evolution of aminoacyl-tRNA synthetases - analysis of unique domain architectures and phylogenetic trees reveals a complex history of horizontal gene transfer events
    • PID: 10447505, COI: 1:CAS:528:DyaK1MXls1yhurw%3D
    • Wolf YI, Aravind L, Grishin NV, Koonin EV: Evolution of aminoacyl-tRNA synthetases - analysis of unique domain architectures and phylogenetic trees reveals a complex history of horizontal gene transfer events. Genome Res. 1999, 9: 689-710.
    • (1999) Genome Res , vol.9 , pp. 689-710
    • Wolf, Y.I.1    Aravind, L.2    Grishin, N.V.3    Koonin, E.V.4
  • 50
    • 0033046425 scopus 로고    scopus 로고
    • Novel predicted RNA-binding domains associated with the translation machinery
    • PID: 10093218, COI: 1:CAS:528:DyaK1MXhs1ymtbw%3D
    • Aravind L, Koonin EV: Novel predicted RNA-binding domains associated with the translation machinery. J Mol Evol. 1999, 48: 291-302. DOI: 10.1007/PL00006472
    • (1999) J Mol Evol , vol.48 , pp. 291-302
    • Aravind, L.1    Koonin, E.V.2
  • 51
    • 0033119535 scopus 로고    scopus 로고
    • DNA polymerase beta-like nucleotidyl-transferase superfamily: identification of three new families, classification and evolutionary history
    • PID: 10075991, COI: 1:CAS:528:DyaK1MXisVCjtrw%3D
    • Aravind L, Koonin EV: DNA polymerase beta-like nucleotidyl-transferase superfamily: identification of three new families, classification and evolutionary history. Nucleic Acids Res. 1999, 27: 1609-1618. 10.1093/nar/27.7.1609. DOI: 10.1093/nar/27.7.1609
    • (1999) Nucleic Acids Res , vol.27 , pp. 1609-1618
    • Aravind, L.1    Koonin, E.V.2
  • 52
    • 0002409969 scopus 로고    scopus 로고
    • An evolutionary classification of the metallo-beta lactamase fold proteins
    • Aravind L: An evolutionary classification of the metallo-beta lactamase fold proteins. In Silico Biol. 1998, 1: 8-
    • (1998) In Silico Biol , vol.1 , pp. 8
    • Aravind, L.1
  • 53
    • 0031000649 scopus 로고    scopus 로고
    • An evolutionary treasure: unification of a broad set of amidohydrolases related to urease
    • PID: 9144792, COI: 1:CAS:528:DyaK2sXjtVKltrs%3D
    • Holm L, Sander C: An evolutionary treasure: unification of a broad set of amidohydrolases related to urease. Proteins. 1997, 28: 72-82. 10.1002/(SICI)1097-0134(199705)28:1<72::AID-PROT7>3.3.CO;2-T. DOI: 10.1002/(SICI)1097-0134(199705)28:1<72::AID-PROT7>3.0.CO;2-L
    • (1997) Proteins , vol.28 , pp. 72-82
    • Holm, L.1    Sander, C.2
  • 54
    • 0029945504 scopus 로고    scopus 로고
    • Pseudouridine synthases: four families of enzymes containing a putative uridine-binding motif also conserved in dUTPases and dCTP deaminases
    • PID: 8710514, COI: 1:CAS:528:DyaK28XktVagtbc%3D
    • Koonin EV: Pseudouridine synthases: four families of enzymes containing a putative uridine-binding motif also conserved in dUTPases and dCTP deaminases. Nucleic Acids Res. 1996, 24: 2411-2415. 10.1093/nar/24.12.2411. DOI: 10.1093/nar/24.12.2411
    • (1996) Nucleic Acids Res , vol.24 , pp. 2411-2415
    • Koonin, E.V.1
  • 55
    • 2642690670 scopus 로고    scopus 로고
    • In vitro DNA binding of the archaeal protein Sso7d induces negative supercoiling at temperatures typical for thermophilic growth
    • PID: 9580681, COI: 1:CAS:528:DyaK1cXjvFWmtrY%3D
    • Lopez-Garcia P, Knapp S, Ladenstein R, Forterre P: In vitro DNA binding of the archaeal protein Sso7d induces negative supercoiling at temperatures typical for thermophilic growth. Nucleic Acids Res. 1998, 26: 2322-2328. 10.1093/nar/26.10.2322. DOI: 10.1093/nar/26.10.2322
    • (1998) Nucleic Acids Res , vol.26 , pp. 2322-2328
    • Lopez-Garcia, P.1    Knapp, S.2    Ladenstein, R.3    Forterre, P.4
  • 56
    • 0034192445 scopus 로고    scopus 로고
    • Self-assembling GTPases caught in the middle
    • PID: 10801435, COI: 1:CAS:528:DC%2BD3cXjt1Cjtb0%3D
    • Margolin W: Self-assembling GTPases caught in the middle. Curr Biol. 2000, 10: R328-R330. 10.1016/S0960-9822(00)00458-9. DOI: 10.1016/S0960-9822(00)00458-9
    • (2000) Curr Biol , vol.10 , pp. R328-R330
    • Margolin, W.1
  • 57
    • 0032561496 scopus 로고    scopus 로고
    • Genome sequence of an obligate intracellular pathogen of humans: Chlamydia trachomatis
    • PID: 9784136, COI: 1:CAS:528:DyaK1cXmvFyjtr4%3D
    • Stephens RS, Kalman S, Lammel C, Fan J, Marathe R, Aravind L, Mitchell W, Olinger L, Tatusov RL, Zhao Q, et al: Genome sequence of an obligate intracellular pathogen of humans: Chlamydia trachomatis. Science. 1998, 282: 754-759. 10.1126/science.282.5389.754. DOI: 10.1126/science.282.5389.754
    • (1998) Science , vol.282 , pp. 754-759
    • Stephens, R.S.1    Kalman, S.2    Lammel, C.3    Fan, J.4    Marathe, R.5    Aravind, L.6    Mitchell, W.7    Olinger, L.8    Tatusov, R.L.9    Zhao, Q.10


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