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Volumn 7, Issue 3, 2005, Pages 196-200

Loss of ancestral genes in the genomic evolution of Ciona intestinalis

Author keywords

[No Author keywords available]

Indexed keywords

EVOLUTION;

EID: 18944374801     PISSN: 1520541X     EISSN: None     Source Type: Journal    
DOI: 10.1111/j.1525-142X.2005.05022.x     Document Type: Article
Times cited : (53)

References (35)
  • 3
    • 0034633626 scopus 로고    scopus 로고
    • Lineage-specific loss and divergence of functionally linked genes in eukaryotes
    • Aravind, L., Watanabe, H., Lipman, D. J., and Koonin, E. V. 2000. Lineage-specific loss and divergence of functionally linked genes in eukaryotes. Proc. Natl. Acad. Sci. USA 97: 11319-11324.
    • (2000) Proc. Natl. Acad. Sci. USA , vol.97 , pp. 11319-11324
    • Aravind, L.1    Watanabe, H.2    Lipman, D.J.3    Koonin, E.V.4
  • 5
    • 0141593589 scopus 로고    scopus 로고
    • Evolutionary origins of the vertebrate heart: Specification of the cardiac lineage in Ciona intestinalis
    • Davidson, B., and Levine, M. 2003. Evolutionary origins of the vertebrate heart: specification of the cardiac lineage in Ciona intestinalis. Proc. Natl. Acad. Sci. USA 100: 11469-11473.
    • (2003) Proc. Natl. Acad. Sci. USA , vol.100 , pp. 11469-11473
    • Davidson, B.1    Levine, M.2
  • 6
    • 2242464840 scopus 로고    scopus 로고
    • The draft genome of Ciona intestinalis: Insights into chordate and vertebrate origins
    • Dehal, P., et al. 2003. The draft genome of Ciona intestinalis: insights into chordate and vertebrate origins. Science 298: 2157-2167.
    • (2003) Science , vol.298 , pp. 2157-2167
    • Dehal, P.1
  • 7
    • 0000461280 scopus 로고
    • Confidence limits on phylogenies: An approach using the bootstrap
    • Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783-791.
    • (1985) Evolution , vol.39 , pp. 783-791
    • Felsenstein, J.1
  • 8
    • 0036380405 scopus 로고    scopus 로고
    • Ciona intestinalis parahox genes: Evolution of Hox/ParaHox cluster integrity, developmental mode, and temporal colinearity
    • Ferrier, D. E. K., and Holland, P. W. H. 2002. Ciona intestinalis parahox genes: evolution of Hox/ParaHox cluster integrity, developmental mode, and temporal colinearity. Mol. Phyl. Evol. 24: 412-417.
    • (2002) Mol. Phyl. Evol. , vol.24 , pp. 412-417
    • Ferrier, D.E.K.1    Holland, P.W.H.2
  • 9
    • 0035179702 scopus 로고    scopus 로고
    • Pattern and timing of gene duplication in animal genomes
    • Friedman, R., and Hughes, A. L. 2001. Pattern and timing of gene duplication in animal genomes. Genome Res. 11: 1842-1847.
    • (2001) Genome Res. , vol.11 , pp. 1842-1847
    • Friedman, R.1    Hughes, A.L.2
  • 10
    • 0037227485 scopus 로고    scopus 로고
    • The temporal distribution of gene duplication events in a set of highly conserved human gene families
    • Friedman, R., and Hughes, A. L. 2003. The temporal distribution of gene duplication events in a set of highly conserved human gene families. Mol. Biol. Evol. 20: 154-161.
    • (2003) Mol. Biol. Evol. , vol.20 , pp. 154-161
    • Friedman, R.1    Hughes, A.L.2
  • 11
    • 2442715046 scopus 로고    scopus 로고
    • Two patterns of genome organization in mammals: The chromosomal distribution of duplicate genes in human and mouse
    • Friedman, R., and Hughes, A. L. 2004. Two patterns of genome organization in mammals: the chromosomal distribution of duplicate genes in human and mouse. Mol. Biol. Evol. 21: 1008-1013.
    • (2004) Mol. Biol. Evol. , vol.21 , pp. 1008-1013
    • Friedman, R.1    Hughes, A.L.2
  • 12
    • 0036613509 scopus 로고    scopus 로고
    • Age distribution of human gene families shows significant roles of both large- and small-scale duplications in vertebrate genomes
    • Gu, X., Wang, Y., and Gu, J. 2002. Age distribution of human gene families shows significant roles of both large- and small-scale duplications in vertebrate genomes. Nat. Genet. 31: 205-209.
    • (2002) Nat. Genet. , vol.31 , pp. 205-209
    • Gu, X.1    Wang, Y.2    Gu, J.3
  • 13
    • 4143134848 scopus 로고    scopus 로고
    • Phylogenetic timing of the fish-specific genome duplication correlates with the diversification of teleost fish
    • Hoegg, S., Brinkmann, H., Taylor, J. S., and Meyer, A. 2004. Phylogenetic timing of the fish-specific genome duplication correlates with the diversification of teleost fish. J. Mol. Evol. 59: 190-203.
    • (2004) J. Mol. Evol. , vol.59 , pp. 190-203
    • Hoegg, S.1    Brinkmann, H.2    Taylor, J.S.3    Meyer, A.4
  • 14
    • 0037781970 scopus 로고    scopus 로고
    • The Ciona intestinalis genome: When the constraints are off
    • Holland, L. Z., and Gibson-Brown, J. J. 2003. The Ciona intestinalis genome: when the constraints are off. BioEssays 25: 529-532.
    • (2003) BioEssays , vol.25 , pp. 529-532
    • Holland, L.Z.1    Gibson-Brown, J.J.2
  • 15
    • 0032957497 scopus 로고    scopus 로고
    • Phylogenies of developmentally important proteins do not support the hypothesis of two rounds of genome duplication early in vertebrate history
    • Hughes, A. L. 1999. Phylogenies of developmentally important proteins do not support the hypothesis of two rounds of genome duplication early in vertebrate history. J. Mol. Evol. 48: 565-576.
    • (1999) J. Mol. Evol. , vol.48 , pp. 565-576
    • Hughes, A.L.1
  • 16
    • 0442323217 scopus 로고    scopus 로고
    • Differential loss of ancestral gene families as a source of genomic divergence in animals
    • Hughes, A. L., and Friedman, R. 2004a. Differential loss of ancestral gene families as a source of genomic divergence in animals. Proc. R. Soc. Lond. B (Suppl) 271: S107-S109.
    • (2004) Proc. R. Soc. Lond. B (Suppl) , vol.271
    • Hughes, A.L.1    Friedman, R.2
  • 17
    • 11944266550 scopus 로고    scopus 로고
    • Shedding genomic ballast: Extensive parallel loss of ancestral gene families in animals
    • Hughes, A. L., and Friedman, R. 2004b. Shedding genomic ballast: extensive parallel loss of ancestral gene families in animals. J. Mol. Evol. 59: 827-833.
    • (2004) J. Mol. Evol. , vol.59 , pp. 827-833
    • Hughes, A.L.1    Friedman, R.2
  • 18
    • 3042745489 scopus 로고    scopus 로고
    • Pattern of divergence of amino acid sequences encoded by paralogous genes in human and pufferfish
    • Hughes, A. L., and Friedman, R. 2004c. Pattern of divergence of amino acid sequences encoded by paralogous genes in human and pufferfish. Mol. Phylogenet. Evol. 32: 337-343.
    • (2004) Mol. Phylogenet. Evol. , vol.32 , pp. 337-343
    • Hughes, A.L.1    Friedman, R.2
  • 19
    • 0024440685 scopus 로고
    • Evolution of the major histocompatibility complex: Independent origin of nonclassical class I genes in different groups of mammals
    • Hughes, A. L., and Nei, M. 1989. Evolution of the major histocompatibility complex: independent origin of nonclassical class I genes in different groups of mammals. Mol. Biol. Evol. 6: 559-579.
    • (1989) Mol. Biol. Evol. , vol.6 , pp. 559-579
    • Hughes, A.L.1    Nei, M.2
  • 20
    • 0032906220 scopus 로고    scopus 로고
    • Evolution of the ascidian anural larva: Evidence from embryos and molecules
    • Jeffery, W. R., Swalla, B. J., Ewing, N., and Kukasabe, T. 1999. Evolution of the ascidian anural larva: evidence from embryos and molecules. Mol. Biol. Evol. 16: 646-654.
    • (1999) Mol. Biol. Evol. , vol.16 , pp. 646-654
    • Jeffery, W.R.1    Swalla, B.J.2    Ewing, N.3    Kukasabe, T.4
  • 21
    • 0026691182 scopus 로고
    • The rapid generation of mutation data matrices from protein sequences
    • Jones, D. T., Taylor, W. R., and Thornton, J. M. 1992. The rapid generation of mutation data matrices from protein sequences. Comput. Appl. Biosci. 8: 275-282.
    • (1992) Comput. Appl. Biosci. , vol.8 , pp. 275-282
    • Jones, D.T.1    Taylor, W.R.2    Thornton, J.M.3
  • 22
    • 16444381885 scopus 로고    scopus 로고
    • A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes
    • Koonin, E. V., et al. 2004. A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes. Genome Biol. 5: R7.
    • (2004) Genome Biol. , vol.5
    • Koonin, E.V.1
  • 23
    • 0036613237 scopus 로고    scopus 로고
    • Extensive genomic duplication during early chordate evolution
    • McLysaght, A., Hokamp, K., and Wolfe, K. H. 2002. Extensive genomic duplication during early chordate evolution. Nat. Genet. 31: 200-204.
    • (2002) Nat. Genet. , vol.31 , pp. 200-204
    • McLysaght, A.1    Hokamp, K.2    Wolfe, K.H.3
  • 24
    • 0035385935 scopus 로고    scopus 로고
    • The larval ascidian nervous system: The chordate brain from its small beginnings
    • Meinertzhagen, I. A., and Okamura, Y. 2001. The larval ascidian nervous system: the chordate brain from its small beginnings. Trends Neurosci. 24: 401-410.
    • (2001) Trends Neurosci. , vol.24 , pp. 401-410
    • Meinertzhagen, I.A.1    Okamura, Y.2
  • 25
    • 0031877893 scopus 로고    scopus 로고
    • Large-scale taxonomic profiling of eukaryotic model organisms: A comparison of orthologous proteins encoded by the human, fly, nematode, and yeast genomes
    • Mushegian, A. R., Garey, J. R., Martin, J., and Liu, L. X. 1998. Large-scale taxonomic profiling of eukaryotic model organisms: a comparison of orthologous proteins encoded by the human, fly, nematode, and yeast genomes. Genome Res. 8: 590-598.
    • (1998) Genome Res. , vol.8 , pp. 590-598
    • Mushegian, A.R.1    Garey, J.R.2    Martin, J.3    Liu, L.X.4
  • 26
    • 0036094816 scopus 로고    scopus 로고
    • Purifying selection and birth-and-death evolution in the histone H4 gene family
    • Piontkivska, H., Rooney, A. P., and Nei, M. 2002. Purifying selection and birth-and-death evolution in the histone H4 gene family. Mol. Biol. Evol. 19: 689-697.
    • (2002) Mol. Biol. Evol. , vol.19 , pp. 689-697
    • Piontkivska, H.1    Rooney, A.P.2    Nei, M.3
  • 27
    • 0035963319 scopus 로고    scopus 로고
    • Genes lost during evolution
    • 200
    • Roelofs, J., and Van Haastert, J. P. 200. Genes lost during evolution. Nature 411: 1013-1014.
    • Nature , vol.411 , pp. 1013-1014
    • Roelofs, J.1    Van Haastert, J.P.2
  • 29
    • 0037677689 scopus 로고    scopus 로고
    • Ciona intestinalis: An emerging model for whole-genome analysis
    • Satoh, N., Satou, Y., Davidson, B., and Levine, M. 2003. Ciona intestinalis: an emerging model for whole-genome analysis. Trends Genet. 19: 376-381.
    • (2003) Trends Genet. , vol.19 , pp. 376-381
    • Satoh, N.1    Satou, Y.2    Davidson, B.3    Levine, M.4
  • 31
    • 0029836454 scopus 로고    scopus 로고
    • Quartet puzzling: A quartet maximum-likelihood method for reconstructing tree topologies
    • Strimmer, K., and von Haeseler, A. 1996. Quartet puzzling: a quartet maximum-likelihood method for reconstructing tree topologies. Mol. Biol. Evol. 13: 964-969.
    • (1996) Mol. Biol. Evol. , vol.13 , pp. 964-969
    • Strimmer, K.1    Von Haeseler, A.2
  • 33
    • 0027968068 scopus 로고
    • CLUSTALW: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
    • Thompson, J. D., Higgins, D. G., and Gibson, T. 1994. CLUSTALW: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22: 4673-4680.
    • (1994) Nucleic Acids Res. , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.3
  • 34
    • 0036097948 scopus 로고    scopus 로고
    • Evaluating hypotheses of deuterostome phylogeny and chordate evolution with new LSU and SSU ribosomal DNA data
    • Winchell, C. J., Sullivan, J., Cameron, C. B., Swalla, B. J., and Mallatt, J. 2002. Evaluating hypotheses of deuterostome phylogeny and chordate evolution with new LSU and SSU ribosomal DNA data. Mol. Biol. Evol. 19: 762-776.
    • (2002) Mol. Biol. Evol. , vol.19 , pp. 762-776
    • Winchell, C.J.1    Sullivan, J.2    Cameron, C.B.3    Swalla, B.J.4    Mallatt, J.5
  • 35
    • 0345874732 scopus 로고    scopus 로고
    • Coelomata and not Ecdysozoa: Evidence from genome-wide phylogenetic analysis
    • Wolf, Y. I., Rogozin, I. B., and Koonin, E. V. 2004. Coelomata and not Ecdysozoa: evidence from genome-wide phylogenetic analysis. Genome Res. 14: 29-36.
    • (2004) Genome Res. , vol.14 , pp. 29-36
    • Wolf, Y.I.1    Rogozin, I.B.2    Koonin, E.V.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.