메뉴 건너뛰기




Volumn 12, Issue 1, 2011, Pages

Strong functional patterns in the evolution of eukaryotic genomes revealed by the reconstruction of ancestral protein domain repertoires

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; CNIDARIA; CONTROLLED STUDY; DEUTEROSTOMIA; ECDYSOZOA; EUKARYOTE EVOLUTION; FUNCTIONAL GENOMICS; GENE CLUSTER; GENE CONSTRUCT; GENE EXPRESSION PROFILING; GENE LOSS; GENETIC GAIN; GENETIC ORGANIZATION; GENETIC REGULATION; GENETIC VARIABILITY; GENOME; INTESTINE FLORA; LOPHOTROCHOZOA; METABOLISM; NEMATOSTELLA VECTENSIS; NONHUMAN; PHYLOGENETIC TREE; PROTEIN DOMAIN; PROTOSTOMIA; BIOLOGICAL MODEL; CLASSIFICATION; EUKARYOTE; GENETICS; HUMAN; INTESTINE; METAGENOME; MICROBIOLOGY; MOLECULAR EVOLUTION; PROTEIN TERTIARY STRUCTURE;

EID: 78651412161     PISSN: 14747596     EISSN: 1474760X     Source Type: Journal    
DOI: 10.1186/gb-2011-12-1-r4     Document Type: Article
Times cited : (74)

References (71)
  • 1
    • 56849114016 scopus 로고    scopus 로고
    • An overview of the phylogeny and diversity of eukaryotes.
    • Baldauf S. An overview of the phylogeny and diversity of eukaryotes. J Systemat Evol 2008, 46:263-273., http://www.plantsystematics.com/qikan/manage/wenzhang/jse08060.pdf
    • (2008) J Systemat Evol , vol.46 , pp. 263-273
    • Baldauf, S.1
  • 2
    • 30444450767 scopus 로고    scopus 로고
    • My favorite animal, Trichoplax adhaerens.
    • 10.1002/bies.20320, 16299758
    • Schierwater B. My favorite animal, Trichoplax adhaerens. BioEssays 2005, 27:1294-1302. 10.1002/bies.20320, 16299758.
    • (2005) BioEssays , vol.27 , pp. 1294-1302
    • Schierwater, B.1
  • 3
    • 0035931911 scopus 로고    scopus 로고
    • Chance and necessity: the evolution of morphological complexity and diversity.
    • 10.1038/35059227, 11234024
    • Carroll S. Chance and necessity: the evolution of morphological complexity and diversity. Nature 2001, 409:1102-1109. 10.1038/35059227, 11234024.
    • (2001) Nature , vol.409 , pp. 1102-1109
    • Carroll, S.1
  • 4
    • 0028163267 scopus 로고
    • Morphological complexity increase in metazoans.
    • Valentine J, Collins A, Meyer P. Morphological complexity increase in metazoans. Paleobiology 1994, 20:131-142., http://www.jstor.org/pss/2401015
    • (1994) Paleobiology , vol.20 , pp. 131-142
    • Valentine, J.1    Collins, A.2    Meyer, P.3
  • 6
    • 0032509302 scopus 로고    scopus 로고
    • Genome sequence of the nematode C. elegans: a platform for investigating biology.
    • 10.1126/science.282.5396.2012, 9851916, The CeSC
    • The CeSC Genome sequence of the nematode C. elegans: a platform for investigating biology. Science 1998, 282:2012-2018. 10.1126/science.282.5396.2012, 9851916, The CeSC.
    • (1998) Science , vol.282 , pp. 2012-2018
  • 8
    • 51049089778 scopus 로고    scopus 로고
    • Non-coding RNA transcription: turning on neighbours.
    • 10.1038/ncb0908-1023, 18758492
    • Carninci P. Non-coding RNA transcription: turning on neighbours. Nat Cell Biol 2008, 10:1023-1024. 10.1038/ncb0908-1023, 18758492.
    • (2008) Nat Cell Biol , vol.10 , pp. 1023-1024
    • Carninci, P.1
  • 9
    • 42949146575 scopus 로고    scopus 로고
    • MicroRNAs and the advent of vertebrate morphological complexity.
    • 10.1073/pnas.0712259105, 2268565, 18287013
    • Heimberg A, Sempere L, Moy V, Donoghue P, Peterson K. MicroRNAs and the advent of vertebrate morphological complexity. Proc Natl Acad Sci USA 2008, 105:2946-2950. 10.1073/pnas.0712259105, 2268565, 18287013.
    • (2008) Proc Natl Acad Sci USA , vol.105 , pp. 2946-2950
    • Heimberg, A.1    Sempere, L.2    Moy, V.3    Donoghue, P.4    Peterson, K.5
  • 10
    • 0035895513 scopus 로고    scopus 로고
    • Gene number. What if there are only 30,000 human genes?.
    • 10.1126/science.1058969, 11233450
    • Claverie JM. Gene number. What if there are only 30,000 human genes?. Science 2001, 291:1255-1257. 10.1126/science.1058969, 11233450.
    • (2001) Science , vol.291 , pp. 1255-1257
    • Claverie, J.M.1
  • 11
    • 0035997904 scopus 로고    scopus 로고
    • Transposable elements and the evolution of eukaryotic complexity.
    • Bowen N, Jordan K. Transposable elements and the evolution of eukaryotic complexity. Curr Issues Mol Biol 2002, 4:65-76.
    • (2002) Curr Issues Mol Biol , vol.4 , pp. 65-76
    • Bowen, N.1    Jordan, K.2
  • 12
    • 0037819447 scopus 로고    scopus 로고
    • Transcription regulation and animal diversity.
    • 10.1038/nature01763, 12853946
    • Levine M, Tjian R. Transcription regulation and animal diversity. Nature 2003, 424:147-151. 10.1038/nature01763, 12853946.
    • (2003) Nature , vol.424 , pp. 147-151
    • Levine, M.1    Tjian, R.2
  • 13
    • 0037079014 scopus 로고    scopus 로고
    • The structure of the protein universe and genome evolution.
    • 10.1038/nature01256, 12432406
    • Koonin E, Wolf Y, Karev G. The structure of the protein universe and genome evolution. Nature 2002, 420:218-223. 10.1038/nature01256, 12432406.
    • (2002) Nature , vol.420 , pp. 218-223
    • Koonin, E.1    Wolf, Y.2    Karev, G.3
  • 14
    • 26244442102 scopus 로고    scopus 로고
    • Modules, multidomain proteins and organismic complexity.
    • 10.1111/j.1742-4658.2005.04917.x, 16176277
    • Tordai H, Nagy A, Farkas K, Bányai L, Patthy L. Modules, multidomain proteins and organismic complexity. FEBS J 2005, 272:5064-5078. 10.1111/j.1742-4658.2005.04917.x, 16176277.
    • (2005) FEBS J , vol.272 , pp. 5064-5078
    • Tordai, H.1    Nagy, A.2    Farkas, K.3    Bányai, L.4    Patthy, L.5
  • 15
    • 33646909100 scopus 로고    scopus 로고
    • Protein family expansions and biological complexity.
    • 10.1371/journal.pcbi.0020048, 1464810, 16733546
    • Vogel C, Chothia C. Protein family expansions and biological complexity. PLoS Comput Biol 2006, 2:e48. 10.1371/journal.pcbi.0020048, 1464810, 16733546.
    • (2006) PLoS Comput Biol , vol.2
    • Vogel, C.1    Chothia, C.2
  • 16
    • 23844497214 scopus 로고    scopus 로고
    • Ancestral paralogs and pseudoparalogs and their role in the emergence of the eukaryotic cell.
    • 10.1093/nar/gki775, 1187821, 16106042
    • Makarova K, Wolf Y, Mekhedov S, Mirkin B, Koonin E. Ancestral paralogs and pseudoparalogs and their role in the emergence of the eukaryotic cell. Nucleic Acids Res 2005, 33:4626-4638. 10.1093/nar/gki775, 1187821, 16106042.
    • (2005) Nucleic Acids Res , vol.33 , pp. 4626-4638
    • Makarova, K.1    Wolf, Y.2    Mekhedov, S.3    Mirkin, B.4    Koonin, E.5
  • 17
    • 33846632221 scopus 로고    scopus 로고
    • Evaluating hypotheses for the origin of eukaryotes.
    • 10.1002/bies.20516, 17187354
    • Poole A, Penny D. Evaluating hypotheses for the origin of eukaryotes. Bioessays 2007, 29:74-84. 10.1002/bies.20516, 17187354.
    • (2007) Bioessays , vol.29 , pp. 74-84
    • Poole, A.1    Penny, D.2
  • 18
    • 61349170303 scopus 로고    scopus 로고
    • First and last ancestors: reconstructing evolution of the endomembrane system with ESCRTs, vesicle coat proteins, and nuclear pore complexes.
    • 10.1016/j.ceb.2008.12.004, 19201590
    • Field M, Dacks J. First and last ancestors: reconstructing evolution of the endomembrane system with ESCRTs, vesicle coat proteins, and nuclear pore complexes. Curr Opin Cell Biol 2009, 21:4-13. 10.1016/j.ceb.2008.12.004, 19201590.
    • (2009) Curr Opin Cell Biol , vol.21 , pp. 4-13
    • Field, M.1    Dacks, J.2
  • 19
    • 64549154869 scopus 로고    scopus 로고
    • A complex cell division machinery was present in the last common ancestor of eukaryotes.
    • 10.1371/journal.pone.0005021, 2661371, 19352429
    • Eme L, Moreira D, Talla E, Brochier-Armanet C. A complex cell division machinery was present in the last common ancestor of eukaryotes. PLoS ONE 2009, 4:e5021. 10.1371/journal.pone.0005021, 2661371, 19352429.
    • (2009) PLoS ONE , vol.4
    • Eme, L.1    Moreira, D.2    Talla, E.3    Brochier-Armanet, C.4
  • 20
    • 33644557410 scopus 로고    scopus 로고
    • Eleven ancestral gene families lost in mammals and vertebrates while otherwise universally conserved in animals.
    • 10.1186/1471-2148-6-5, 1382263, 16420703
    • Danchin E, Gouret P, Pontarotti P. Eleven ancestral gene families lost in mammals and vertebrates while otherwise universally conserved in animals. BMC Evol Biol 2006, 6:5. 10.1186/1471-2148-6-5, 1382263, 16420703.
    • (2006) BMC Evol Biol , vol.6 , pp. 5
    • Danchin, E.1    Gouret, P.2    Pontarotti, P.3
  • 21
    • 0347033327 scopus 로고    scopus 로고
    • EST analysis of the cnidarian Acropora millepora reveals extensive gene loss and rapid sequence divergence in the model invertebrates.
    • 10.1016/j.cub.2003.11.030, 14680636
    • Kortschak, Samuel G, Saint R, Miller D. EST analysis of the cnidarian Acropora millepora reveals extensive gene loss and rapid sequence divergence in the model invertebrates. Curr Biol 2003, 13:2190-2195. 10.1016/j.cub.2003.11.030, 14680636.
    • (2003) Curr Biol , vol.13 , pp. 2190-2195
    • Kortschak1    Samuel, G.2    Saint, R.3    Miller, D.4
  • 23
    • 76749164479 scopus 로고    scopus 로고
    • Proteome complexity measures based on counting of domain-to-protein links for replicative and non-replicative domains.
    • Kluwer Academic Publishers, Kolchanov N, Hofestaedt R, Milanesi L
    • Kuznetsov V, Pickalov V, Kanapin A, Kolchanov N, Hofestaedt R, Milanesi L. Proteome complexity measures based on counting of domain-to-protein links for replicative and non-replicative domains. Bioinformatics of Genome Regulation and Structure II 2006, 329-341. Kluwer Academic Publishers, Kolchanov N, Hofestaedt R, Milanesi L.
    • (2006) Bioinformatics of Genome Regulation and Structure II , pp. 329-341
    • Kuznetsov, V.1    Pickalov, V.2    Kanapin, A.3    Kolchanov, N.4    Hofestaedt, R.5    Milanesi, L.6
  • 24
    • 0036089339 scopus 로고    scopus 로고
    • The natural history of protein domains.
    • 10.1146/annurev.biophys.31.082901.134314, 11988462
    • Ponting C, Russell R. The natural history of protein domains. Annu Rev Biophys Biomol Struct 2002, 31:45-71. 10.1146/annurev.biophys.31.082901.134314, 11988462.
    • (2002) Annu Rev Biophys Biomol Struct , vol.31 , pp. 45-71
    • Ponting, C.1    Russell, R.2
  • 29
    • 34648825194 scopus 로고    scopus 로고
    • Ancestral animal genomes reconstruction.
    • 10.1016/j.coi.2007.06.009, 17702562
    • Rascol V, Pontarotti P, Levasseur A. Ancestral animal genomes reconstruction. Curr Opin Immunol 2007, 19:542-546. 10.1016/j.coi.2007.06.009, 17702562.
    • (2007) Curr Opin Immunol , vol.19 , pp. 542-546
    • Rascol, V.1    Pontarotti, P.2    Levasseur, A.3
  • 30
    • 62649113993 scopus 로고    scopus 로고
    • Phylogenomic analyses support the monophyly of Excavata and resolve relationships among eukaryotic supergroups.
    • 10.1073/pnas.0807880106, 2656170, 19237557
    • Hampl V, Hug L, Leigh J, Dacks J, Lang F, Simpson A, Roger A. Phylogenomic analyses support the monophyly of Excavata and resolve relationships among eukaryotic supergroups. Proc Natl Acad Sci USA 2009, 106:3859-3864. 10.1073/pnas.0807880106, 2656170, 19237557.
    • (2009) Proc Natl Acad Sci USA , vol.106 , pp. 3859-3864
    • Hampl, V.1    Hug, L.2    Leigh, J.3    Dacks, J.4    Lang, F.5    Simpson, A.6    Roger, A.7
  • 31
    • 33845985995 scopus 로고    scopus 로고
    • Evaluating support for the current classification of eukaryotic diversity.
    • 10.1371/journal.pgen.0020220, 1713255, 17194223
    • Parfrey L, Barbero E, Lasser E, Dunthorn M, Bhattacharya D, Patterson D, Katz L. Evaluating support for the current classification of eukaryotic diversity. PLoS Genet 2006, 2:e220. 10.1371/journal.pgen.0020220, 1713255, 17194223.
    • (2006) PLoS Genet , vol.2
    • Parfrey, L.1    Barbero, E.2    Lasser, E.3    Dunthorn, M.4    Bhattacharya, D.5    Patterson, D.6    Katz, L.7
  • 32
    • 33748763306 scopus 로고    scopus 로고
    • Monophyly of rhizaria and multigene phylogeny of unicellular bikonts.
    • 10.1093/molbev/msl055, 16829542
    • Burki F, Pawlowski J. Monophyly of rhizaria and multigene phylogeny of unicellular bikonts. Mol Biol Evol 2006, 23:1922-1930. 10.1093/molbev/msl055, 16829542.
    • (2006) Mol Biol Evol , vol.23 , pp. 1922-1930
    • Burki, F.1    Pawlowski, J.2
  • 33
    • 84959795073 scopus 로고
    • Phylogenetic analysis under Dollo's law.
    • Farris J. Phylogenetic analysis under Dollo's law. Systemat Zool 1977, 26:77-88.
    • (1977) Systemat Zool , vol.26 , pp. 77-88
    • Farris, J.1
  • 34
    • 33646001426 scopus 로고    scopus 로고
    • Graph theoretical insights into evolution of multidomain proteins.
    • 10.1089/cmb.2006.13.351, 1815482, 16597245
    • Przytycka T, Davis G, Song N, Durand D. Graph theoretical insights into evolution of multidomain proteins. J Comput Biol 2006, 13:351-363. 10.1089/cmb.2006.13.351, 1815482, 16597245.
    • (2006) J Comput Biol , vol.13 , pp. 351-363
    • Przytycka, T.1    Davis, G.2    Song, N.3    Durand, D.4
  • 35
    • 40449095056 scopus 로고    scopus 로고
    • Evolution of protein domain promiscuity in eukaryotes.
    • 10.1101/gr.6943508, 2259109, 18230802
    • Basu MK, Carmel L, Rogozin IB, Koonin EV. Evolution of protein domain promiscuity in eukaryotes. Genome Res 2008, 18:449-461. 10.1101/gr.6943508, 2259109, 18230802.
    • (2008) Genome Res , vol.18 , pp. 449-461
    • Basu, M.K.1    Carmel, L.2    Rogozin, I.B.3    Koonin, E.V.4
  • 36
    • 15544380021 scopus 로고    scopus 로고
    • Prokaryotic phylogenies inferred from protein structural domains.
    • 10.1101/gr.3033805, 551566, 15741510
    • Deeds EJ, Hennessey H, Shakhnovich EI. Prokaryotic phylogenies inferred from protein structural domains. Genome Res 2005, 15:393-402. 10.1101/gr.3033805, 551566, 15741510.
    • (2005) Genome Res , vol.15 , pp. 393-402
    • Deeds, E.J.1    Hennessey, H.2    Shakhnovich, E.I.3
  • 37
    • 0027946472 scopus 로고
    • Dollo's law and the death and resurrection of genes.
    • 10.1073/pnas.91.25.12283, 45421, 7991619
    • Marshall CR, Raff EC, Raff RA. Dollo's law and the death and resurrection of genes. Proc Natl Acad Sci USA 1994, 91:12283-12287. 10.1073/pnas.91.25.12283, 45421, 7991619.
    • (1994) Proc Natl Acad Sci USA , vol.91 , pp. 12283-12287
    • Marshall, C.R.1    Raff, E.C.2    Raff, R.A.3
  • 38
    • 40049102815 scopus 로고    scopus 로고
    • Reconstructing ancestral genome content based on symmetrical best alignments and Dollo parsimony.
    • 10.1093/bioinformatics/btn005, 18184685
    • Sakarya O, Kosik KS, Oakley TH. Reconstructing ancestral genome content based on symmetrical best alignments and Dollo parsimony. Bioinformatics 2008, 24:606-612. 10.1093/bioinformatics/btn005, 18184685.
    • (2008) Bioinformatics , vol.24 , pp. 606-612
    • Sakarya, O.1    Kosik, K.S.2    Oakley, T.H.3
  • 39
    • 70350116756 scopus 로고    scopus 로고
    • Calibrating and constraining molecular clocks.
    • Oxford: Oxford University Press, Hedges SB, Kumar S
    • Benton MJ, Donoghue PCJ, Asher RJ. Calibrating and constraining molecular clocks. The Timetree of Life 2009, 35-86. Oxford: Oxford University Press, Hedges SB, Kumar S.
    • (2009) The Timetree of Life , pp. 35-86
    • Benton, M.J.1    Donoghue, P.C.J.2    Asher, R.J.3
  • 40
    • 0142124263 scopus 로고    scopus 로고
    • Gene loss, protein sequence divergence, gene dispensability, expression level, and interactivity are correlated in eukaryotic evolution.
    • 10.1101/gr.1589103, 403683, 14525925
    • Krylov D, Wolf Y, Rogozin I, Koonin E. Gene loss, protein sequence divergence, gene dispensability, expression level, and interactivity are correlated in eukaryotic evolution. Genome Res 2003, 13:2229-2235. 10.1101/gr.1589103, 403683, 14525925.
    • (2003) Genome Res , vol.13 , pp. 2229-2235
    • Krylov, D.1    Wolf, Y.2    Rogozin, I.3    Koonin, E.4
  • 41
    • 72849109949 scopus 로고    scopus 로고
    • The gene complement of the ancestral bilaterian - was Urbilateria a monster?.
    • 10.1186/jbiol192, 2790832, 19939290
    • Miller D, Ball E. The gene complement of the ancestral bilaterian - was Urbilateria a monster?. J Biol 2009, 8:89. 10.1186/jbiol192, 2790832, 19939290.
    • (2009) J Biol , vol.8 , pp. 89
    • Miller, D.1    Ball, E.2
  • 42
    • 11944266550 scopus 로고    scopus 로고
    • Shedding genomic ballast: extensive parallel loss of ancestral gene families in animals.
    • 10.1007/s00239-004-0115-7, 15599514
    • Hughes A, Friedman R. Shedding genomic ballast: extensive parallel loss of ancestral gene families in animals. J Mol Evol 2004, 59:827-833. 10.1007/s00239-004-0115-7, 15599514.
    • (2004) J Mol Evol , vol.59 , pp. 827-833
    • Hughes, A.1    Friedman, R.2
  • 43
    • 14344266019 scopus 로고    scopus 로고
    • Rising starlet: the starlet sea anemone, Nematostella vectensis.
    • 10.1002/bies.20181, 15666346
    • Darling J, Reitzel A, Burton P, Mazza M, Ryan J, Sullivan J, Finnerty J. Rising starlet: the starlet sea anemone, Nematostella vectensis. Bioessays 2005, 27:211-221. 10.1002/bies.20181, 15666346.
    • (2005) Bioessays , vol.27 , pp. 211-221
    • Darling, J.1    Reitzel, A.2    Burton, P.3    Mazza, M.4    Ryan, J.5    Sullivan, J.6    Finnerty, J.7
  • 44
    • 33646566815 scopus 로고    scopus 로고
    • Proceedings of the SMBE Tri-National Young Investigators' Workshop 2005. Mutation rate and the cost of complexity.
    • 10.1093/molbev/msj104, 16469852
    • Haygood R. Proceedings of the SMBE Tri-National Young Investigators' Workshop 2005. Mutation rate and the cost of complexity. Mol Biol Evol 2006, 23:957-963. 10.1093/molbev/msj104, 16469852.
    • (2006) Mol Biol Evol , vol.23 , pp. 957-963
    • Haygood, R.1
  • 46
    • 42949148784 scopus 로고    scopus 로고
    • Surprising complexity of the ancestral apoptosis network.
    • 10.1186/gb-2007-8-10-r226, 2246300, 17958905
    • Zmasek CM, Zhang Q, Ye Y, Godzik A. Surprising complexity of the ancestral apoptosis network. Genome Biol 2007, 8:R226. 10.1186/gb-2007-8-10-r226, 2246300, 17958905.
    • (2007) Genome Biol , vol.8
    • Zmasek, C.M.1    Zhang, Q.2    Ye, Y.3    Godzik, A.4
  • 47
    • 53149129831 scopus 로고    scopus 로고
    • Evolution of complex fruiting-body morphologies in homobasidiomycetes.
    • 10.1098/rspb.2002.2123, 1691125, 12396494
    • Hibbett D, Binder M. Evolution of complex fruiting-body morphologies in homobasidiomycetes. Proc Biol Sci 2002, 269:1963-1969. 10.1098/rspb.2002.2123, 1691125, 12396494.
    • (2002) Proc Biol Sci , vol.269 , pp. 1963-1969
    • Hibbett, D.1    Binder, M.2
  • 48
    • 33847264343 scopus 로고    scopus 로고
    • Enrichment or depletion of a GO category within a class of genes: which test?.
    • 10.1093/bioinformatics/btl633, 17182697
    • Rivals I, Personnaz L, Taing L, Potier MC. Enrichment or depletion of a GO category within a class of genes: which test?. Bioinformatics 2007, 23:401-407. 10.1093/bioinformatics/btl633, 17182697.
    • (2007) Bioinformatics , vol.23 , pp. 401-407
    • Rivals, I.1    Personnaz, L.2    Taing, L.3    Potier, M.C.4
  • 49
    • 0345328163 scopus 로고    scopus 로고
    • Cytoskeletal organization, phylogenetic affinities and systematics in the contentious taxon Excavata (Eukaryota).
    • 10.1099/ijs.0.02578-0, 14657103
    • Simpson A. Cytoskeletal organization, phylogenetic affinities and systematics in the contentious taxon Excavata (Eukaryota). Int J Syst Evol Microbiol 2003, 53:1759-1777. 10.1099/ijs.0.02578-0, 14657103.
    • (2003) Int J Syst Evol Microbiol , vol.53 , pp. 1759-1777
    • Simpson, A.1
  • 53
    • 33845904639 scopus 로고    scopus 로고
    • Horizontal gene transfer in plants.
    • 10.1093/jxb/erl148, 17030541
    • Richardson, Aaron O, Palmer, Jeffrey D. Horizontal gene transfer in plants. J Exp Bot 2007, 58:1-9. 10.1093/jxb/erl148, 17030541.
    • (2007) J Exp Bot , vol.58 , pp. 1-9
    • Richardson1    Aaron, O.2    Palmer3    Jeffrey, D.4
  • 54
    • 66749144677 scopus 로고    scopus 로고
    • Lateral gene transfer between prokaryotes and multicellular eukaryotes: ongoing and significant?.
    • 10.1186/1741-7007-7-20, 2687425, 19416510
    • Ros V, Hurst G. Lateral gene transfer between prokaryotes and multicellular eukaryotes: ongoing and significant?. BMC Biol 2009, 7:20. 10.1186/1741-7007-7-20, 2687425, 19416510.
    • (2009) BMC Biol , vol.7 , pp. 20
    • Ros, V.1    Hurst, G.2
  • 55
    • 47649104484 scopus 로고    scopus 로고
    • Horizontal gene transfer in eukaryotic evolution.
    • 10.1038/nrg2386, 18591983
    • Keeling P, Palmer J. Horizontal gene transfer in eukaryotic evolution. Nat Rev Genet 2008, 9:605-618. 10.1038/nrg2386, 18591983.
    • (2008) Nat Rev Genet , vol.9 , pp. 605-618
    • Keeling, P.1    Palmer, J.2
  • 56
    • 77953231719 scopus 로고    scopus 로고
    • Analysis of rare genomic changes does not support the unikont-bikont phylogeny and suggests cyanobacterial symbiosis as the point of primary radiation of eukaryotes.
    • 2817406, 20333181
    • Rogozin IB, Basu MK, Csürös M, Koonin EV. Analysis of rare genomic changes does not support the unikont-bikont phylogeny and suggests cyanobacterial symbiosis as the point of primary radiation of eukaryotes. Genome Biol Evol 2009, 25:99-113. 2817406, 20333181.
    • (2009) Genome Biol Evol , vol.25 , pp. 99-113
    • Rogozin, I.B.1    Basu, M.K.2    Csürös, M.3    Koonin, E.V.4
  • 57
    • 60349108359 scopus 로고    scopus 로고
    • Evolution: revisiting the root of the eukaryote tree.
    • 10.1016/j.cub.2008.12.032, 19243692
    • Roger A, Simpson A. Evolution: revisiting the root of the eukaryote tree. Curr Biol 2009, 19:R165-R167. 10.1016/j.cub.2008.12.032, 19243692.
    • (2009) Curr Biol , vol.19
    • Roger, A.1    Simpson, A.2
  • 58
    • 1842715894 scopus 로고    scopus 로고
    • Animal phylogeny: back to the coelomata?.
    • 10.1016/j.cub.2004.03.022, 15062120
    • Telford M. Animal phylogeny: back to the coelomata?. Curr Biol 2004, 14:R274-R276. 10.1016/j.cub.2004.03.022, 15062120.
    • (2004) Curr Biol , vol.14
    • Telford, M.1
  • 59
    • 65349129373 scopus 로고    scopus 로고
    • How to become a parasite - lessons from the genomes of nematodes.
    • 10.1016/j.tig.2009.03.006, 19361881
    • Dieterich C, Sommer R. How to become a parasite - lessons from the genomes of nematodes. Trends Genet 2009, 25:203-209. 10.1016/j.tig.2009.03.006, 19361881.
    • (2009) Trends Genet , vol.25 , pp. 203-209
    • Dieterich, C.1    Sommer, R.2
  • 60
    • 46949092431 scopus 로고    scopus 로고
    • Phylogenomics reveals a new 'megagroup' including most photosynthetic eukaryotes.
    • 10.1098/rsbl.2008.0224, 2610160, 18522922
    • Burki F, Shalchian-Tabrizi K, Pawlowski J. Phylogenomics reveals a new 'megagroup' including most photosynthetic eukaryotes. Biol Lett 2008, 4:366-369. 10.1098/rsbl.2008.0224, 2610160, 18522922.
    • (2008) Biol Lett , vol.4 , pp. 366-369
    • Burki, F.1    Shalchian-Tabrizi, K.2    Pawlowski, J.3
  • 61
    • 79951954537 scopus 로고    scopus 로고
    • HMMER.
    • HMMER. , http://hmmer.org/
  • 63
    • 47049099111 scopus 로고    scopus 로고
    • Ontologizer 2.0 - a multifunctional tool for GO term enrichment analysis and data exploration.
    • 10.1093/bioinformatics/btn250, 18511468
    • Bauer S, Grossmann S, Vingron M, Robinson P. Ontologizer 2.0 - a multifunctional tool for GO term enrichment analysis and data exploration. Bioinformatics 2008, 24:1650-1651. 10.1093/bioinformatics/btn250, 18511468.
    • (2008) Bioinformatics , vol.24 , pp. 1650-1651
    • Bauer, S.1    Grossmann, S.2    Vingron, M.3    Robinson, P.4
  • 64
    • 33745626459 scopus 로고    scopus 로고
    • Improved scoring of functional groups from gene expression data by decorrelating GO graph structure.
    • 10.1093/bioinformatics/btl140, 16606683
    • Alexa A, Rahnenführer J, Lengauer T. Improved scoring of functional groups from gene expression data by decorrelating GO graph structure. Bioinformatics 2006, 22:1600-1607. 10.1093/bioinformatics/btl140, 16606683.
    • (2006) Bioinformatics , vol.22 , pp. 1600-1607
    • Alexa, A.1    Rahnenführer, J.2    Lengauer, T.3
  • 65
    • 36448946146 scopus 로고    scopus 로고
    • Improved detection of overrepresentation of Gene-Ontology annotations with parent child analysis.
    • 10.1093/bioinformatics/btm440, 17848398
    • Grossmann S, Bauer S, Robinson P, Vingron M. Improved detection of overrepresentation of Gene-Ontology annotations with parent child analysis. Bioinformatics 2007, 23:3024-3031. 10.1093/bioinformatics/btm440, 17848398.
    • (2007) Bioinformatics , vol.23 , pp. 3024-3031
    • Grossmann, S.1    Bauer, S.2    Robinson, P.3    Vingron, M.4
  • 66
    • 79951942112 scopus 로고    scopus 로고
    • Forester.
    • forester. , http://www.phylosoft.org/forester/
  • 68
    • 33750618212 scopus 로고    scopus 로고
    • A molecular time-scale for eukaryote evolution recalibrated with the continuous microfossil record.
    • 10.1098/rspb.2006.3537, 1634798, 16822745
    • Berney C, Pawlowski J. A molecular time-scale for eukaryote evolution recalibrated with the continuous microfossil record. Proc Biol Sci 2006, 273:1867-1872. 10.1098/rspb.2006.3537, 1634798, 16822745.
    • (2006) Proc Biol Sci , vol.273 , pp. 1867-1872
    • Berney, C.1    Pawlowski, J.2
  • 69
    • 0034712855 scopus 로고    scopus 로고
    • The Cambrian "explosion": slow-fuse or megatonnage?.
    • 10.1073/pnas.97.9.4426, 34314, 10781036
    • Conway Morris S. The Cambrian "explosion": slow-fuse or megatonnage?. Proc Natl Acad Sci USA 2000, 97:4426-4429. 10.1073/pnas.97.9.4426, 34314, 10781036.
    • (2000) Proc Natl Acad Sci USA , vol.97 , pp. 4426-4429
    • Conway Morris, S.1
  • 70
    • 71749099862 scopus 로고    scopus 로고
    • PhyloXML: XML for evolutionary biology and comparative genomics.
    • 10.1186/1471-2105-10-356, 2774328, 19860910
    • Han MV, Zmasek CM. phyloXML: XML for evolutionary biology and comparative genomics. BMC Bioinformatics 2009, 10:356. 10.1186/1471-2105-10-356, 2774328, 19860910.
    • (2009) BMC Bioinformatics , vol.10 , pp. 356
    • Han, M.V.1    Zmasek, C.M.2
  • 71
    • 84874651370 scopus 로고    scopus 로고
    • Archaeopteryx.
    • Archaeopteryx. , http://www.phylosoft.org/archaeopteryx/


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.