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Volumn 4, Issue 4, 2012, Pages 486-500

Widespread recurrent evolution of genomic features

Author keywords

Convergence; Genome; Genotype phenotype map; Parallel evolution

Indexed keywords

ANIMALIA; EUKARYOTA; METAZOA;

EID: 84864107809     PISSN: None     EISSN: 17596653     Source Type: Journal    
DOI: 10.1093/gbe/evs022     Document Type: Conference Paper
Times cited : (30)

References (173)
  • 2
    • 33846071878 scopus 로고    scopus 로고
    • U12DB: A database of orthologous U12-type spliceosomal introns
    • DOI 10.1093/nar/gkl796
    • Alioto TS. 2007. U12DB: a database of orthologous U12-type spliceosomal introns. Nucleic Acids Res. 35:D110-D115. (Pubitemid 46056180)
    • (2007) Nucleic Acids Research , vol.35 , Issue.SUPPL. 1
    • Alioto, T.S.1
  • 5
    • 37549017103 scopus 로고    scopus 로고
    • Convergence and parallelism reconsidered: What have we learned about the genetics of adaptation?
    • Arendt J, Reznick D. 2008. Convergence and parallelism reconsidered: what have we learned about the genetics of adaptation? Trends Ecol Evol. 23:26-32.
    • (2008) Trends Ecol Evol. , vol.23 , pp. 26-32
    • Arendt, J.1    Reznick, D.2
  • 7
    • 65549112976 scopus 로고    scopus 로고
    • The cytochrome P450 (CYP) gene superfamily in Daphnia pulex
    • Baldwin W, Marko P, Nelson D. 2009. The cytochrome P450 (CYP) gene superfamily in Daphnia pulex. BMC Genomics 10:169.
    • (2009) BMC Genomics , vol.10 , pp. 169
    • Baldwin, W.1    Marko, P.2    Nelson, D.3
  • 8
    • 66449098550 scopus 로고    scopus 로고
    • Evolutionary history of the Snail/scratch superfamily
    • Barrallo-Gimeno A, Nieto MA. 2009. Evolutionary history of the Snail/Scratch superfamily. Trends Genet. 25:248-252.
    • (2009) Trends Genet. , vol.25 , pp. 248-252
    • Barrallo-Gimeno, A.1    Nieto, M.A.2
  • 9
    • 2942684863 scopus 로고    scopus 로고
    • The decline of isochores in mammals: An assessment of the GC content variation along the mammalian phylogeny
    • Belle EM, Duret L, Galtier N, Eyre-Walker A. 2004. The decline of isochores in mammals: an assessment of the GC content variation along the mammalian phylogeny. J Mol Evol. 58:653-660.
    • (2004) J Mol Evol. , vol.58 , pp. 653-660
    • Belle, E.M.1    Duret, L.2    Galtier, N.3    Eyre-Walker, A.4
  • 10
    • 77955177010 scopus 로고    scopus 로고
    • Convergent evolution of chicken Z and human X chromosomes by expansion and gene acquisition
    • Bellott DW, et al. 2010. Convergent evolution of chicken Z and human X chromosomes by expansion and gene acquisition. Nature 466: 612-616.
    • (2010) Nature , vol.466 , pp. 612-616
    • Bellott, D.W.1
  • 11
    • 0036021693 scopus 로고    scopus 로고
    • Mechanisms and rates of genome expansion and contraction in flowering plants
    • DOI 10.1023/A:1016015913350
    • Bennetzen JL. 2002. Mechanisms and rates of genome expansion and contraction in flowering plants. Genetica 115:29-36. (Pubitemid 34842168)
    • (2002) Genetica , vol.115 , Issue.1 , pp. 29-36
    • Bennetzen, J.L.1
  • 12
    • 34248998839 scopus 로고    scopus 로고
    • Evolutionary strata on the X chromosomes of the dioecious plant Silene latifolia: Evidence from new sex-linked genes
    • DOI 10.1534/genetics.106.070110
    • Bergero R, Forrest A, Kamau E, Charlesworth D. 2007. Evolutionary strata on the X chromosomes of the dioecious plant Silene latifolia: evidence from new sex-linked genes. Genetics 175:1945-1954. (Pubitemid 46789975)
    • (2007) Genetics , vol.175 , Issue.4 , pp. 1945-1954
    • Bergero, R.1    Forrest, A.2    Kamau, E.3    Charlesworth, D.4
  • 13
    • 0035986891 scopus 로고    scopus 로고
    • Integrating genomics, bioinformatics, and classical genetics to study the effects of recombination on genome evolution
    • Birdsell JA. 2002. Integrating genomics, bioinformatics, and classical genetics to study the effects of recombination on genome evolution. Mol Biol Evol. 19:1181-1197. (Pubitemid 34743242)
    • (2002) Molecular Biology and Evolution , vol.19 , Issue.7 , pp. 1181-1197
    • Birdsell, J.A.1
  • 14
    • 0017617781 scopus 로고
    • Albumin phylogeny for clawed frogs (Xenopus)
    • Bisbee CA, Baker MA, Wilson AC, Haji-Azimi I, Fischberg M. 1977. Albumin phylogeny for clawed frogs (Xenopus). Science 195:785-787. (Pubitemid 8055728)
    • (1977) Science , vol.195 , Issue.4286 , pp. 785-787
    • Bisbee, C.A.1    Baker, M.A.2    Wilson, A.C.3
  • 15
    • 33745067419 scopus 로고    scopus 로고
    • The gain and loss of genes during 600 million years of vertebrate evolution
    • Blomme T, et al. 2006. The gain and loss of genes during 600 million years of vertebrate evolution. Genome Biol. 7:R43.
    • (2006) Genome Biol. , vol.7
    • Blomme, T.1
  • 17
    • 0032247416 scopus 로고    scopus 로고
    • Evolutionary fates and origins of U12-type introns
    • Burge CB, Padgett RA, Sharp PA. 1998. Evolutionary fates and origins of U12-type introns. Mol Cell. 2:773-785. (Pubitemid 128378985)
    • (1998) Molecular Cell , vol.2 , Issue.6 , pp. 773-785
    • Burge, C.B.1    Padgett, R.A.2    Sharp, P.A.3
  • 18
    • 78149360928 scopus 로고    scopus 로고
    • A universal nonmonotonic relationship between gene compactness and expression levels in multicellular eukaryotes
    • Carmel L, Koonin EV. 2009. A universal nonmonotonic relationship between gene compactness and expression levels in multicellular eukaryotes. Genome Biol Evol. 1:382-390.
    • (2009) Genome Biol Evol. , vol.1 , pp. 382-390
    • Carmel, L.1    Koonin, E.V.2
  • 20
    • 74549118236 scopus 로고    scopus 로고
    • Adaptive evolution of pelvic reduction in sticklebacks by recurrent deletion of a Pitx1 enhancer
    • Chan YF, et al. 2010. Adaptive evolution of pelvic reduction in sticklebacks by recurrent deletion of a Pitx1 enhancer. Science 327:302-305.
    • (2010) Science , vol.327 , pp. 302-305
    • Chan, Y.F.1
  • 21
    • 77957839693 scopus 로고    scopus 로고
    • The birds and the bees and the flowers and the trees: Lessons from genetic mapping of sex determination in plants and animals
    • Charlesworth D, Mank JE. 2010. The birds and the bees and the flowers and the trees: lessons from genetic mapping of sex determination in plants and animals. Genetics 186:9-31.
    • (2010) Genetics , vol.186 , pp. 9-31
    • Charlesworth, D.1    Mank, J.E.2
  • 22
    • 77955846669 scopus 로고    scopus 로고
    • Causes and evolutionary significance of genetic convergence
    • Christin PA, Weinreich DM, Besnard G. 2010. Causes and evolutionary significance of genetic convergence. Trends Genet. 26:400-405.
    • (2010) Trends Genet. , vol.26 , pp. 400-405
    • Christin, P.A.1    Weinreich, D.M.2    Besnard, G.3
  • 23
    • 70349928636 scopus 로고    scopus 로고
    • The predictability of evolution: Glimpses into a post-Darwinian world
    • Conway Morris S. 2009. The predictability of evolution: glimpses into a post-Darwinian world. Naturwissenschaften 96:1313-1337.
    • (2009) Naturwissenschaften , vol.96 , pp. 1313-1337
    • Conway Morris, S.1
  • 24
    • 1642385302 scopus 로고    scopus 로고
    • Evolutionary convergence of alternative splicing in ion channels
    • DOI 10.1016/j.tig.2004.02.001, PII S016895250400037X
    • Copley RR. 2004. Evolutionary convergence of alternative splicing in ion channels. Trends Genet. 20:171-176. (Pubitemid 38369186)
    • (2004) Trends in Genetics , vol.20 , Issue.4 , pp. 171-176
    • Copley, R.R.1
  • 25
    • 84856489199 scopus 로고    scopus 로고
    • The complete sequence of the smallest known nuclear genome from the microsporidian Encephalitozoon intestinalis
    • Corradi N, Pombert JF, Farinelli L, Didier ES, Keeling PJ. 2010. The complete sequence of the smallest known nuclear genome from the microsporidian Encephalitozoon intestinalis. Nat Commun. 1:77.
    • (2010) Nat Commun. , vol.1 , pp. 77
    • Corradi, N.1    Pombert, J.F.2    Farinelli, L.3    Didier, E.S.4    Keeling, P.J.5
  • 26
    • 0027201750 scopus 로고
    • On the evolution of RNA editing
    • DOI 10.1016/0168-9525(93)90011-6
    • Covello PS, Gray MW. 1993. On the evolution of RNA editing. Trends Genet. 9:265-268. (Pubitemid 23218831)
    • (1993) Trends in Genetics , vol.9 , Issue.8 , pp. 265-268
    • Covello, P.S.1    Gray, M.W.2
  • 28
    • 49749110720 scopus 로고    scopus 로고
    • Gene expansion and retention leads to a diverse tyrosine kinase superfamily in amphioxus
    • D'Aniello S, et al. 2008. Gene expansion and retention leads to a diverse tyrosine kinase superfamily in amphioxus. Mol Biol Evol. 25: 1841-1854.
    • (2008) Mol Biol Evol. , vol.25 , pp. 1841-1854
    • D'Aniello, S.1
  • 29
    • 84859934504 scopus 로고    scopus 로고
    • Parallel signatures of sequence evolution among hearing genes in echolocating mammals: An emerging model of genetic convergence
    • Advance Access published December 14 doi:10.1038/hdy.2011.119
    • Davies KT, Cotton JA, Kirwan JD, Teeling EC, Rossiter SJ. Parallel signatures of sequence evolution among hearing genes in echolocating mammals: an emerging model of genetic convergence. Heredity. Advance Access published December 14, 2011, doi:10.1038/hdy.2011.119
    • (2011) Heredity
    • Davies, K.T.1    Cotton, J.A.2    Kirwan, J.D.3    Teeling, E.C.4    Rossiter, S.J.5
  • 30
    • 44349155377 scopus 로고    scopus 로고
    • Computational screen for spliceosomal RNA genes aids in defining the phylogenetic distribution of major and minor spliceosomal components
    • DOI 10.1093/nar/gkn142
    • Dävila López M, Rosenblad MA, Samuelsson T. 2008. Computational screen for spliceosomal RNA genes aids in defining the phylogenetic distribution of major and minor spliceosomal components. Nucleic Acids Res. 36:3001-3010. (Pubitemid 351737192)
    • (2008) Nucleic Acids Research , vol.36 , Issue.9 , pp. 3001-3010
    • Lopez, M.D.1    Alm Rosenblad, M.2    Samuelsson, T.3
  • 31
    • 77956913111 scopus 로고    scopus 로고
    • A W-linked palindrome and gene conversion in New World sparrows and blackbirds
    • NISC Comparative Sequencing Program, Thomas JW.
    • Davis JK, Thomas PJ. NISC Comparative Sequencing Program, Thomas JW. 2010. A W-linked palindrome and gene conversion in New World sparrows and blackbirds. Chromosome Res. 18:543-553.
    • (2010) Chromosome Res. , vol.18 , pp. 543-553
    • Davis, J.K.1    Thomas, P.J.2
  • 33
    • 0024462103 scopus 로고
    • Evidence that introns arose at proto-splice sites
    • Dibb NJ, Newman AJ. 1989. Evidence that introns arose at proto-splice sites. EMBO J. 8:2015-2021. (Pubitemid 19273529)
    • (1989) EMBO Journal , vol.8 , Issue.7 , pp. 2015-2021
    • Dibb, N.J.1    Newman, A.J.2
  • 34
    • 20144366981 scopus 로고    scopus 로고
    • Genome duplication, extinction and vertebrate evolution
    • DOI 10.1016/j.tree.2005.04.008, PII S0169534705001084
    • Donoghue PC, Purnell MA. 2005. Genome duplication, extinction and vertebrate evolution. Trends Ecol Evol. 20:312-319. (Pubitemid 40772078)
    • (2005) Trends in Ecology and Evolution , vol.20 , Issue.6 SPEC. ISS. , pp. 312-319
    • Donoghue, P.C.J.1    Purnell, M.A.2
  • 35
    • 0027983037 scopus 로고
    • Convergent evolution: The need to be explicit
    • DOI 10.1016/0968-0004(94)90167-8
    • Doolittle RF. 1994. Convergent evolution: the need to be explicit. Trends Biochem Sci. 19:15-18. (Pubitemid 24028725)
    • (1994) Trends in Biochemical Sciences , vol.19 , Issue.1 , pp. 15-18
    • Doolittle, R.F.1
  • 36
    • 34547642637 scopus 로고
    • Genes in pieces: Were they ever together?
    • Doolittle WF. 1978. Genes in pieces: were they ever together? Nature 272:581-582.
    • (1978) Nature , vol.272 , pp. 581-582
    • Doolittle, W.F.1
  • 37
    • 0032404453 scopus 로고    scopus 로고
    • You are what you eat: A gene transfer ratchet could account for bacterial genes in eukaryotic nuclear genomes
    • Doolittle WF. 1998. You are what you eat: a gene transfer ratchet could account for bacterial genes in eukaryotic nuclear genomes. Trends Genet. 14:307-311.
    • (1998) Trends Genet. , vol.14 , pp. 307-311
    • Doolittle, W.F.1
  • 38
    • 79956090191 scopus 로고    scopus 로고
    • Does constructive neutral evolution play an important role in the origin of cellular complexity?
    • Comment on
    • Doolittle WF, Lukes J, Archibald JM, Keeling PJ, Gray MW. 2011. Comment on "Does constructive neutral evolution play an important role in the origin of cellular complexity?" Bioessays 33:427-429.
    • (2011) Bioessays , vol.33 , pp. 427-429
    • Doolittle, W.F.1    Lukes, J.2    Archibald, J.M.3    Keeling, P.J.4    Gray, M.W.5
  • 39
    • 77249139172 scopus 로고    scopus 로고
    • Evidence for multiple independent origins of trans-splicing in Metazoa
    • Douris V, Telford MJ, Averof M. 2010. Evidence for multiple independent origins of trans-splicing in Metazoa. Mol Biol Evol. 27:684-693.
    • (2010) Mol Biol Evol. , vol.27 , pp. 684-693
    • Douris, V.1    Telford, M.J.2    Averof, M.3
  • 40
    • 34547819351 scopus 로고    scopus 로고
    • The rise and fall of Hox gene clusters
    • DOI 10.1242/dev.001065
    • Duboule D. 2007. The rise and fall of Hox gene clusters. Development 134:2549-2560. (Pubitemid 47225952)
    • (2007) Development , vol.134 , Issue.14 , pp. 2549-2560
    • Duboule, D.1
  • 41
    • 58949089591 scopus 로고    scopus 로고
    • Evolutionary origin and genomic organisation of runt-domain containing genes in arthropods
    • Duncan E, Wilson M, Smith J, Dearden P. 2008. Evolutionary origin and genomic organisation of runt-domain containing genes in arthropods. BMC Genomics 9:558.
    • (2008) BMC Genomics , vol.9 , pp. 558
    • Duncan, E.1    Wilson, M.2    Smith, J.3    Dearden, P.4
  • 42
    • 33646890948 scopus 로고    scopus 로고
    • The GC content of primates and rodents genomes is not at equilibrium: A reply to Antezana [1]
    • DOI 10.1007/s00239-005-0228-7
    • Duret L. 2006. The GC content of primates and rodents genomes is not at equilibrium: a reply to Antezana. J Mol Evol. 62:803-806. (Pubitemid 43847230)
    • (2006) Journal of Molecular Evolution , vol.62 , Issue.6 , pp. 803-806
    • Duret, L.1
  • 43
    • 44949198268 scopus 로고    scopus 로고
    • The impact of recombination on nucleotide substitutions in the human genome
    • Duret L, Arndt PF. 2008. The impact of recombination on nucleotide substitutions in the human genome. PLoS Genet. 4:e1000071.
    • (2008) PLoS Genet. , vol.4
    • Duret, L.1    Arndt, P.F.2
  • 44
    • 0036959203 scopus 로고    scopus 로고
    • Vanishing GC-rich isochores in mammalian genomes
    • Duret L, Semon M, Piganeau G, Mouchiroud D, Galtier N. 2002. Vanishing GC-rich isochores in mammalian genomes. Genetics 162:1837-1847. (Pubitemid 36114667)
    • (2002) Genetics , vol.162 , Issue.4 , pp. 1837-1847
    • Duret, L.1    Semon, M.2    Piganeau, G.3    Mouchiroud, D.4    Galtier, N.5
  • 45
    • 70349682921 scopus 로고    scopus 로고
    • Gene and genome duplications: The impact of dosage-sensitivity on the fate of nuclear genes
    • Edger PP, Pires JC. 2009. Gene and genome duplications: the impact of dosage-sensitivity on the fate of nuclear genes. Chromosome Res. 17:699-717.
    • (2009) Chromosome Res. , vol.17 , pp. 699-717
    • Edger, P.P.1    Pires, J.C.2
  • 46
    • 18344395923 scopus 로고    scopus 로고
    • The genome of the social amoeba Dictyostelium discoideum
    • Eichinger L, et al. 2005. The genome of the social amoeba Dictyostelium discoideum. Nature 435:43-57.
    • (2005) Nature , vol.435 , pp. 43-57
    • Eichinger, L.1
  • 47
    • 33748598232 scopus 로고    scopus 로고
    • Macronuclear genome sequence of the ciliate Tetrahymena thermophila, a model eukaryote
    • Eisen JA, et al. 2006. Macronuclear genome sequence of the ciliate Tetrahymena thermophila, a model eukaryote. PLoS Biol. 4:e286.
    • (2006) PLoS Biol. , vol.4
    • Eisen, J.A.1
  • 48
    • 79951813599 scopus 로고    scopus 로고
    • Sex-chromosome evolution: Recent progress and the influence of male and female heterogamety
    • Ellegren H. 2011. Sex-chromosome evolution: recent progress and the influence of male and female heterogamety. Nat Rev Genet. 12: 157-166.
    • (2011) Nat Rev Genet. , vol.12 , pp. 157-166
    • Ellegren, H.1
  • 49
    • 38849112675 scopus 로고    scopus 로고
    • Genomic regulatory blocks underlie extensive microsynteny conservation in insects
    • DOI 10.1101/gr.6669607
    • Engstrom PG, Ho Sui SJ, Drivenes O, Becker TS, Lenhard B. 2007. Genomic regulatory blocks underlie extensive microsynteny conservation in insects. Genome Res. 17:1898-1908. (Pubitemid 351360012)
    • (2007) Genome Research , vol.17 , Issue.12 , pp. 1898-1908
    • Engstrom, P.G.1    Sui, S.J.H.2    Drivenes, O.3    Becker, T.S.4    Lenhard, B.5
  • 50
    • 4344713315 scopus 로고    scopus 로고
    • A mitochondrial DNA phylogeny of African clawed frogs: Phylogeography and implications for polyploid evolution
    • DOI 10.1016/j.ympev.2004.04.018, PII S1055790304001514
    • Evans BJ, Kelley DB, Tinsley RC, Melnick DJ, Cannatella DC. 2004. A mitochondrial DNA phylogeny of African clawed frogs: phylogeography and implications for polyploidy evolution. Mol Phylogenet Evol. 33:197-213. (Pubitemid 39138745)
    • (2004) Molecular Phylogenetics and Evolution , vol.33 , Issue.1 , pp. 197-213
    • Evans, B.J.1    Kelley, D.B.2    Tinsley, R.C.3    Melnick, D.J.4    Cannatella, D.C.5
  • 51
    • 65249143921 scopus 로고    scopus 로고
    • Plants with double genomes might have had a better chance to survive the Cretaceous-Tertiary extinction event
    • Fawcett JA, Maere S, Van de Peer Y. 2009. Plants with double genomes might have had a better chance to survive the Cretaceous-Tertiary extinction event. Proc Natl Acad Sci U S A. 106:5737-5742.
    • (2009) Proc Natl Acad Sci U S A , vol.106 , pp. 5737-5742
    • Fawcett, J.A.1    Maere, S.2    Van De Peer, Y.3
  • 52
    • 0036380405 scopus 로고    scopus 로고
    • Ciona intestinalis ParaHox genes: Evolution of Hox/ParaHox cluster integrity, developmental mode, and temporal colinearity
    • Ferrier DE, Holland PW. 2002. Ciona intestinalis ParaHox genes: evolution of Hox/ParaHox cluster integrity, developmental mode, and temporal colinearity. Mol Phylogenet Evol. 24:412-417.
    • (2002) Mol Phylogenet Evol. , vol.24 , pp. 412-417
    • Ferrier, D.E.1    Holland, P.W.2
  • 53
    • 67349260120 scopus 로고    scopus 로고
    • Convergent evolution of alternative splices at domain boundaries of the BK channel
    • Fodor AA, Aldrich RW. 2009. Convergent evolution of alternative splices at domain boundaries of the BK channel. Annu Rev Physiol. 71:19-36.
    • (2009) Annu Rev Physiol. , vol.71 , pp. 19-36
    • Fodor, A.A.1    Aldrich, R.W.2
  • 54
    • 27444434599 scopus 로고    scopus 로고
    • Chromosomal sex-determining regions in animals, plants and fungi
    • DOI 10.1016/j.gde.2005.09.002, PII S0959437X05001711, Genomes and Evolution
    • Fraser JA, Heitman J. 2005. Chromosomal sex-determining regions in animals, plants and fungi. Curr Opin Genet Dev. 15:645-651. (Pubitemid 41532339)
    • (2005) Current Opinion in Genetics and Development , vol.15 , Issue.6 , pp. 645-651
    • Fraser, J.A.1    Heitman, J.2
  • 55
    • 9444275028 scopus 로고    scopus 로고
    • Convergent evolution of chromosomal sex-determining regions in the animal and fungal kingdoms
    • Fraser JA, et al. 2004. Convergent evolution of chromosomal sex-determining regions in the animal and fungal kingdoms. PLoS Biol. 2:e384.
    • (2004) PLoS Biol. , vol.2
    • Fraser, J.A.1
  • 56
    • 77649290275 scopus 로고    scopus 로고
    • The genome of Naegleria gruberi illuminates early eukaryotic versatility
    • Fritz-Laylin LK, et al. 2010. The genome of Naegleria gruberi illuminates early eukaryotic versatility. Cell 140:631-642.
    • (2010) Cell , vol.140 , pp. 631-642
    • Fritz-Laylin, L.K.1
  • 58
    • 84855290528 scopus 로고    scopus 로고
    • Divergence and convergence in enzyme evolution
    • Galperin MY, Koonin EV. 2012. Divergence and convergence in enzyme evolution. J Biol Chem. 287:21-28.
    • (2012) J Biol Chem. , vol.287 , pp. 21-28
    • Galperin, M.Y.1    Koonin, E.V.2
  • 59
    • 73949123826 scopus 로고    scopus 로고
    • Ubiquitous internal gene duplication and intron creation in eukaryotes
    • Gao X, Lynch M. 2009. Ubiquitous internal gene duplication and intron creation in eukaryotes. Proc Natl Acad Sci U S A. 106: 20818-20823.
    • (2009) Proc Natl Acad Sci U S A , vol.106 , pp. 20818-20823
    • Gao, X.1    Lynch, M.2
  • 60
    • 0037015614 scopus 로고    scopus 로고
    • Genome sequence of the human malaria parasite Plasmodium falciparum
    • Gardner MJ, et al. 2002. Genome sequence of the human malaria parasite Plasmodium falciparum. Nature 419:498-511.
    • (2002) Nature , vol.419 , pp. 498-511
    • Gardner, M.J.1
  • 64
    • 34247616059 scopus 로고    scopus 로고
    • Base-compositional heterogeneity in the RAG1 locus among didelphid marsupials: Implications for phylogenetic inference and the evolution of GC content
    • Gruber KF, Voss RS, Jansa SA. 2007. Base-compositional heterogeneity in the RAG1 locus among didelphid marsupials: implications for phylogenetic inference and the evolution of GC content. Syst Biol. 56:83-96.
    • (2007) Syst Biol. , vol.56 , pp. 83-96
    • Gruber, K.F.1    Voss, R.S.2    Jansa, S.A.3
  • 66
    • 68249114427 scopus 로고    scopus 로고
    • General rules for optimal codon choice
    • Hershberg R, Petrov DA. 2009. General rules for optimal codon choice. PLoS Genet. 5:e1000556.
    • (2009) PLoS Genet. , vol.5
    • Hershberg, R.1    Petrov, D.A.2
  • 67
    • 80055036494 scopus 로고    scopus 로고
    • The fifth adaptor protein complex
    • Hirst J, et al. 2011. The fifth adaptor protein complex. PLoS Biol. 9: e1001170.
    • (2011) PLoS Biol. , vol.9
    • Hirst, J.1
  • 68
    • 84856397079 scopus 로고    scopus 로고
    • Differential loss and retention of cytoglobin, myoglobin, and globin-E during the radiation of vertebrates
    • Hoffmann FG, Opazo JC, Storz JF. 2011. Differential loss and retention of cytoglobin, myoglobin, and globin-E during the radiation of vertebrates. Genome Biol Evol. 3:588-600.
    • (2011) Genome Biol Evol. , vol.3 , pp. 588-600
    • Hoffmann, F.G.1    Opazo, J.C.2    Storz, J.F.3
  • 70
    • 47649129807 scopus 로고    scopus 로고
    • Convergent evolution of clustering of Iroquois homeobox genes across metazoans
    • DOI 10.1093/molbev/msn109
    • Irimia M, Maeso I, Garcia-Fernandez J. 2008. Convergent evolution of clustering of Iroquois homeobox genes across metazoans. Mol Biol Evol. 25:1521-1525. (Pubitemid 352019844)
    • (2008) Molecular Biology and Evolution , vol.25 , Issue.8 , pp. 1521-1525
    • Irimia, M.1    Maeso, I.2    Garcia-Fernandez, J.3
  • 71
    • 77953790078 scopus 로고    scopus 로고
    • Internal and external paralogy in the evolution of tropomyosin genes in metazoans
    • Irimia M, Maeso I, Gunning PW, Garcia-Fernandez J, Roy SW. 2010. Internal and external paralogy in the evolution of tropomyosin genes in metazoans. Mol Biol Evol. 27:1504-1517.
    • (2010) Mol Biol Evol. , vol.27 , pp. 1504-1517
    • Irimia, M.1    Maeso, I.2    Gunning, P.W.3    Garcia-Fernandez, J.4    Roy, S.W.5
  • 73
    • 34250707188 scopus 로고    scopus 로고
    • Coevolution of genomic intron number and splice sites
    • DOI 10.1016/j.tig.2007.04.001, PII S0168952507001229
    • Irimia M, Penny D, Roy SW. 2007. Co-evolution of genomic intron number and splice sites. Trends Genet. 23:321-325. (Pubitemid 46962797)
    • (2007) Trends in Genetics , vol.23 , Issue.7 , pp. 321-325
    • Irimia, M.1    Penny, D.2    Roy, S.W.3
  • 74
    • 50849088978 scopus 로고    scopus 로고
    • Evolutionary convergence on highly-conserved 3' intron structures in intron-poor eukaryotes and insights into the ancestral eukaryotic genome
    • Irimia M, Roy SW. 2008. Evolutionary convergence on highly-conserved 3' intron structures in intron-poor eukaryotes and insights into the ancestral eukaryotic genome. PLoS Genet. 4:e1000148.
    • (2008) PLoS Genet. , vol.4
    • Irimia, M.1    Roy, S.W.2
  • 76
    • 70350710157 scopus 로고    scopus 로고
    • Complex selection on 5'splice sites in intron-rich organisms
    • Irimia M, et al. 2009. Complex selection on 5' splice sites in intron-rich organisms. Genome Res. 19:2021-2027.
    • (2009) Genome Res. , vol.19 , pp. 2021-2027
    • Irimia, M.1
  • 77
    • 79955092263 scopus 로고    scopus 로고
    • Conserved developmental expression of Fezf in chordates and Drosophila and the origin of the Zona Limitans Intrathalamica (ZLI) brain organizer
    • Irimia M, et al. 2010. Conserved developmental expression of Fezf in chordates and Drosophila and the origin of the Zona Limitans Intrathalamica (ZLI) brain organizer. EvoDevo 1:7.
    • (2010) EvoDevo , vol.1 , pp. 7
    • Irimia, M.1
  • 78
    • 80054787751 scopus 로고    scopus 로고
    • Contrasting 5' and 3' evolutionary histories and frequent evolutionary convergence in Meis/hth gene structures
    • Irimia M, et al. 2011. Contrasting 5' and 3' evolutionary histories and frequent evolutionary convergence in Meis/hth gene structures. Genome Biol Evol. 3:551-564.
    • (2011) Genome Biol Evol. , vol.3 , pp. 551-564
    • Irimia, M.1
  • 79
    • 78149461230 scopus 로고    scopus 로고
    • Evolution of sex chromosomes in insects
    • Kaiser VB, Bachtrog D. 2010. Evolution of sex chromosomes in insects. Annu Rev Genet. 44:91-112.
    • (2010) Annu Rev Genet. , vol.44 , pp. 91-112
    • Kaiser, V.B.1    Bachtrog, D.2
  • 80
    • 33750987302 scopus 로고    scopus 로고
    • Pollinator-mediated assortative mating in mixed ploidy populations of Chamerion angustifolium (Onagraceae)
    • DOI 10.1007/s00442-006-0536-7
    • Kennedy B, Sabara H, Haydon D, Husband B. 2006. Pollinator-mediated assortative mating in mixed ploidy populations of Chamerion angustifolium (Onagraceae). Oecologia 150:398-408. (Pubitemid 44748897)
    • (2006) Oecologia , vol.150 , Issue.3 , pp. 398-408
    • Kennedy, B.F.1    Sabara, H.A.2    Haydon, D.3    Husband, B.C.4
  • 81
    • 65349175602 scopus 로고    scopus 로고
    • Evolutionary history of the iroquois/Irx genes in metazoans
    • Kerner P, Ikmi A, Coen D, Vervoort M. 2009. Evolutionary history of the iroquois/Irx genes in metazoans. BMC Evol Biol. 9:74.
    • (2009) BMC Evol Biol. , vol.9 , pp. 74
    • Kerner, P.1    Ikmi, A.2    Coen, D.3    Vervoort, M.4
  • 82
    • 0036021699 scopus 로고    scopus 로고
    • Transposable elements and the evolution of genome size in eukaryotes
    • DOI 10.1023/A:1016072014259
    • Kidwell MG. 2002. Transposable elements and the evolution of genome size in eukaryotes. Genetica 115:49-63. (Pubitemid 34842170)
    • (2002) Genetica , vol.115 , Issue.1 , pp. 49-63
    • Kidwell, M.G.1
  • 84
    • 0035510644 scopus 로고    scopus 로고
    • Origin of alternative splicing by tandem exon duplication
    • Kondrashov FA, Koonin EV. 2001. Origin of alternative splicing by tandem exon duplication. Hum Mol Genet. 10:2661-2669. (Pubitemid 33133407)
    • (2001) Human Molecular Genetics , vol.10 , Issue.23 , pp. 2661-2669
    • Kondrashov, F.A.1    Koonin, E.V.2
  • 85
    • 78650305624 scopus 로고    scopus 로고
    • Developmental expression of high molecular weight tropomyosin isoforms in Mesocestoides corti
    • Koziol U, et al. 2011. Developmental expression of high molecular weight tropomyosin isoforms in Mesocestoides corti. Mol Biochem Parasitol. 175:181-191.
    • (2011) Mol Biochem Parasitol. , vol.175 , pp. 181-191
    • Koziol, U.1
  • 86
    • 0017324044 scopus 로고
    • Serine proteases: Structure and mechanism of catalysis
    • Kraut J. 1977. Serine proteases: structure and mechanism of catalysis. Annu Rev Biochem. 46:331-358.
    • (1977) Annu Rev Biochem. , vol.46 , pp. 331-358
    • Kraut, J.1
  • 89
    • 38049150492 scopus 로고    scopus 로고
    • Nucleomorph genome of Hemiselmis andersenii reveals complete intron loss and compaction as a driver of protein structure and function
    • Lane CE, et al. 2007. Nucleomorph genome of Hemiselmis andersenii reveals complete intron loss and compaction as a driver of protein structure and function. Proc Natl Acad Sci U S A. 104:19908-19913.
    • (2007) Proc Natl Acad Sci U S A , vol.104 , pp. 19908-19913
    • Lane, C.E.1
  • 90
    • 77958506746 scopus 로고    scopus 로고
    • Genome-wide phylogenetic comparative analysis of plant transcriptional regulation: A timeline of loss, gain, expansion, and correlation with complexity
    • Lang D, et al. 2010. Genome-wide phylogenetic comparative analysis of plant transcriptional regulation: a timeline of loss, gain, expansion, and correlation with complexity. Genome Biol Evol. 2:488-503.
    • (2010) Genome Biol Evol. , vol.2 , pp. 488-503
    • Lang, D.1
  • 91
    • 75649092310 scopus 로고    scopus 로고
    • Massive expansions of Dscam splicing diversity via staggered homologous recombination during arthropod evolution
    • Lee C, Kim N, Roy M, Graveley BR. 2010. Massive expansions of Dscam splicing diversity via staggered homologous recombination during arthropod evolution. RNA 16:91-105.
    • (2010) RNA , vol.16 , pp. 91-105
    • Lee, C.1    Kim, N.2    Roy, M.3    Graveley, B.R.4
  • 92
    • 52149110322 scopus 로고    scopus 로고
    • Structural insights into the evolutionary paths of oxylipin biosynthetic enzymes
    • Lee D-S, Nioche P, Hamberg M, Raman CS. 2008. Structural insights into the evolutionary paths of oxylipin biosynthetic enzymes. Nature 455: 363-368.
    • (2008) Nature , vol.455 , pp. 363-368
    • Lee, D.-S.1    Nioche, P.2    Hamberg, M.3    Raman, C.S.4
  • 93
    • 0037096758 scopus 로고    scopus 로고
    • Common exon duplication in animals and its role in alternative splicing
    • Letunic I, Copley RR, Bork P. 2002. Common exon duplication in animals and its role in alternative splicing. Hum Mol Genet. 11:1561-1567. (Pubitemid 34679256)
    • (2002) Human Molecular Genetics , vol.11 , Issue.13 , pp. 1561-1567
    • Letunic, I.1    Copley, R.R.2    Bork, P.3
  • 94
    • 70849137211 scopus 로고    scopus 로고
    • Extensive, recent intron gains in Daphnia populations
    • Li W, Tucker AE, Sung W, Thomas WK, Lynch M. 2009. Extensive, recent intron gains in Daphnia populations. Science 326:1260-1262.
    • (2009) Science , vol.326 , pp. 1260-1262
    • Li, W.1    Tucker, A.E.2    Sung, W.3    Thomas, W.K.4    Lynch, M.5
  • 95
    • 79951773479 scopus 로고    scopus 로고
    • High spontaneous rate of gene duplication in Caenorhabditis elegans
    • Lipinski KJ, et al. 2011. High spontaneous rate of gene duplication in Caenorhabditis elegans. Curr Biol. 21:306-310.
    • (2011) Curr Biol. , vol.21 , pp. 306-310
    • Lipinski, K.J.1
  • 96
    • 74549224446 scopus 로고    scopus 로고
    • Convergent sequence evolution between echolocating bats and dolphins
    • Liu Y, et al. 2010. Convergent sequence evolution between echolocating bats and dolphins. Curr Biol. 20:R53-R54.
    • (2010) Curr Biol. , vol.20
    • Liu, Y.1
  • 97
    • 67650297002 scopus 로고    scopus 로고
    • Cascades of convergent evolution: The corresponding evolutionary histories of euglenozoans and dinoflagellates
    • Lukes J, Leander BS, Keeling PJ. 2009. Cascades of convergent evolution: the corresponding evolutionary histories of euglenozoans and dinoflagellates. Proc Natl Acad Sci U.S.A. 106:9963-9970.
    • (2009) Proc Natl Acad Sci U.S.A. , vol.106 , pp. 9963-9970
    • Lukes, J.1    Leander, B.S.2    Keeling, P.J.3
  • 98
    • 30744475434 scopus 로고    scopus 로고
    • The origins of eukaryotic gene structure
    • DOI 10.1093/molbev/msj050
    • Lynch M. 2006. The origins of eukaryotic gene structure. Mol Biol Evol. 23:450-468. (Pubitemid 43100058)
    • (2006) Molecular Biology and Evolution , vol.23 , Issue.2 , pp. 450-468
    • Lynch, M.1
  • 100
    • 79959819623 scopus 로고    scopus 로고
    • Statistical inference on the mechanisms of genome evolution
    • Lynch M. 2011. Statistical inference on the mechanisms of genome evolution. PLoS Genet. 7:e1001389.
    • (2011) PLoS Genet. , vol.7
    • Lynch, M.1
  • 101
    • 0345306751 scopus 로고    scopus 로고
    • The Origins of Genome Complexity
    • DOI 10.1126/science.1089370
    • Lynch M, Conery JS. 2003. The origins of genome complexity. Science 302:1401-1404. (Pubitemid 37452183)
    • (2003) Science , vol.302 , Issue.5649 , pp. 1401-1404
    • Lynch, M.1    Conery, J.S.2
  • 102
    • 68249097196 scopus 로고    scopus 로고
    • Genomic analysis of the basal lineage fungus Rhizopus oryzae reveals a whole-genome duplication
    • Ma L-J, et al. 2009. Genomic analysis of the basal lineage fungus Rhizopus oryzae reveals a whole-genome duplication. PLoS Genet. 5:e1000549.
    • (2009) PLoS Genet. , vol.5
    • Ma, L.-J.1
  • 103
    • 84859541999 scopus 로고    scopus 로고
    • An ancient genomic regulatory block conserved across bilaterians and its dismantling in tetrapods by retrogene replacement
    • Maeso I, et al. 2012. An ancient genomic regulatory block conserved across bilaterians and its dismantling in tetrapods by retrogene replacement. Genome Res. 22:642-655.
    • (2012) Genome Res. , vol.22 , pp. 642-655
    • Maeso, I.1
  • 104
    • 74049101127 scopus 로고    scopus 로고
    • Phylogenomics of the oxidative phosphorylation in fungi reveals extensive gene duplication followed by functional divergence
    • Marcet-Houben M, Marceddu G, Gabaldon T. 2009. Phylogenomics of the oxidative phosphorylation in fungi reveals extensive gene duplication followed by functional divergence. BMC Evol Biol. 9:295.
    • (2009) BMC Evol Biol. , vol.9 , pp. 295
    • Marcet-Houben, M.1    Marceddu, G.2    Gabaldon, T.3
  • 105
    • 77953019476 scopus 로고    scopus 로고
    • The hidden duplication past of the plant pathogen Phytophthora and its consequences for infection
    • Martens C, Van de Peer Y. 2010. The hidden duplication past of the plant pathogen Phytophthora and its consequences for infection. BMC Genomics 11:353.
    • (2010) BMC Genomics , vol.11 , pp. 353
    • Martens, C.1    Van De Peer, Y.2
  • 107
    • 79960189760 scopus 로고    scopus 로고
    • Evolution of the Alx homeobox gene family: Parallel retention and independent loss of the vertebrate Alx3 gene
    • McGonnell IM, et al. 2011. Evolution of the Alx homeobox gene family: parallel retention and independent loss of the vertebrate Alx3 gene. Evol Dev. 13:343-351.
    • (2011) Evol Dev. , vol.13 , pp. 343-351
    • McGonnell, I.M.1
  • 108
    • 79952386187 scopus 로고    scopus 로고
    • Human-specific loss of regulatory DNA and the evolution of human-specific traits
    • McLean CY, et al. 2011. Human-specific loss of regulatory DNA and the evolution of human-specific traits. Nature 471:216-219.
    • (2011) Nature , vol.471 , pp. 216-219
    • McLean, C.Y.1
  • 109
    • 35348896591 scopus 로고    scopus 로고
    • The Chlamydomonas genome reveals the evolution of key animal and plant functions
    • Merchant SS, et al. 2007. The Chlamydomonas genome reveals the evolution of key animal and plant functions. Science 318: 245-250.
    • (2007) Science , vol.318 , pp. 245-250
    • Merchant, S.S.1
  • 111
    • 77957224735 scopus 로고    scopus 로고
    • Parallel retention of Pdx2 genes in cartilaginous fish and coelacanths
    • Mulley JF, Holland PWH. 2010. Parallel retention of Pdx2 genes in cartilaginous fish and coelacanths. Mol Biol Evol. 27:2386-2391.
    • (2010) Mol Biol Evol. , vol.27 , pp. 2386-2391
    • Mulley, J.F.1    Holland, P.W.H.2
  • 113
    • 33846526141 scopus 로고    scopus 로고
    • HOM-C evolution in Drosophila: Is there a need for Hox gene clustering?
    • DOI 10.1016/j.tig.2006.12.001, PII S0168952506004045
    • Negre B, Ruiz A. 2007. HOM-C evolution in Drosophila: is there a need for Hox gene clustering? Trends Genet. 23:55-59. (Pubitemid 46161212)
    • (2007) Trends in Genetics , vol.23 , Issue.2 , pp. 55-59
    • Negre, B.1    Ruiz, A.2
  • 114
    • 63449101748 scopus 로고    scopus 로고
    • Evolution of the achaete-scute complex in insects: Convergent duplication of proneural genes
    • Negre B, Simpson P. 2009. Evolution of the achaete-scute complex in insects: convergent duplication of proneural genes. Trends Genet. 25:147-152.
    • (2009) Trends Genet. , vol.25 , pp. 147-152
    • Negre, B.1    Simpson, P.2
  • 115
    • 84872246297 scopus 로고    scopus 로고
    • New maximum likelihood estimators for eukaryotic intron evolution
    • Nguyen H, Yoshihama M, Kenmochi N. 2005. New maximum likelihood estimators for eukaryotic intron evolution. PLoS Comput Biol. 1:e79.
    • (2005) PLoS Comput Biol. , vol.1
    • Nguyen, H.1    Yoshihama, M.2    Kenmochi, N.3
  • 116
    • 76949087640 scopus 로고    scopus 로고
    • On the origin and evolution of vertebrate olfactory receptor genes: Comparative genome analysis among 23 chordate species
    • Niimura Y. 2009. On the origin and evolution of vertebrate olfactory receptor genes: comparative genome analysis among 23 chordate species. Genome Biol Evol. 1:34-44.
    • (2009) Genome Biol Evol. , vol.1 , pp. 34-44
    • Niimura, Y.1
  • 117
    • 40249098860 scopus 로고    scopus 로고
    • Extensive gains and losses of olfactory receptor genes in mammalian evolution
    • Niimura Y, Nei M. 2007. Extensive gains and losses of olfactory receptor genes in mammalian evolution. PLoS One 2:e708.
    • (2007) PLoS One , vol.2
    • Niimura, Y.1    Nei, M.2
  • 118
    • 52449091825 scopus 로고    scopus 로고
    • Intron presence-absence polymorphisms in Daphnia
    • Omilian AR, Scofield DG, Lynch M. 2008. Intron presence-absence polymorphisms in Daphnia. Mol Biol Evol. 25:2129-2139.
    • (2008) Mol Biol Evol. , vol.25 , pp. 2129-2139
    • Omilian, A.R.1    Scofield, D.G.2    Lynch, M.3
  • 119
    • 54149092490 scopus 로고    scopus 로고
    • Sequence and genetic map of Meloidogyne hapla: A compact nematode genome for plant parasitism
    • Opperman CH, et al. 2008. Sequence and genetic map of Meloidogyne hapla: a compact nematode genome for plant parasitism. Proc Natl Acad Sci U.S.A. 105:14802-14807.
    • (2008) Proc Natl Acad Sci U.S.A. , vol.105 , pp. 14802-14807
    • Opperman, C.H.1
  • 120
    • 33750173564 scopus 로고    scopus 로고
    • Many gene and domain families have convergent fates following independent whole-genome duplication events in Arabidopsis, Oryza, Saccharomyces and Tetraodon
    • DOI 10.1016/j.tig.2006.09.003, PII S0168952506002964
    • Paterson AH, et al. 2006. Many gene and domain families have convergent fates following independent whole-genome duplication events in Arabidopsis, Oryza, Saccharomyces and Tetraodon. Trends Genet. 22:597-602. (Pubitemid 44602267)
    • (2006) Trends in Genetics , vol.22 , Issue.11 , pp. 597-602
    • Paterson, A.H.1    Chapman, B.A.2    Kissinger, J.C.3    Bowers, J.E.4    Feltus, F.A.5    Estill, J.C.6
  • 121
    • 2442438948 scopus 로고    scopus 로고
    • Isolation of Hox and Parahox genes in the hemichordate Ptychodera flava and the evolution of deuterostome Hox genes
    • DOI 10.1016/j.ympev.2003.10.007
    • Peterson KJ. 2004. Isolation of Hox and Parahox genes in the hemichordate Ptychodera flava and the evolution of deuterostome Hox genes. Mol Phylogenet Evol. 31:1208-1215. (Pubitemid 38610983)
    • (2004) Molecular Phylogenetics and Evolution , vol.31 , Issue.3 , pp. 1208-1215
    • Peterson, K.J.1
  • 122
    • 0036021703 scopus 로고    scopus 로고
    • DNA loss and evolution of genome size in Drosophila
    • DOI 10.1023/A:1016076215168
    • Petrov DA. 2002a. DNA loss and evolution of genome size in Drosophila. Genetica 115:81-91. (Pubitemid 34842172)
    • (2002) Genetica , vol.115 , Issue.1 , pp. 81-91
    • Petrov, D.A.1
  • 123
    • 0345070506 scopus 로고    scopus 로고
    • Mutational equilibrium model of genome size evolution
    • Petrov DA. 2002b. Mutational equilibrium model of genome size evolution. Theor Popul Biol. 61:531-544.
    • (2002) Theor Popul Biol. , vol.61 , pp. 531-544
    • Petrov, D.A.1
  • 126
    • 79955040565 scopus 로고    scopus 로고
    • Genetic basis of eye and pigment loss in the cave crustacean, Asellus aquaticus
    • Protas ME, Trontelj P, Patel NH. 2011. Genetic basis of eye and pigment loss in the cave crustacean, Asellus aquaticus. Proc Natl Acad Sci U S A. 108:5702-5707.
    • (2011) Proc Natl Acad Sci U S A , vol.108 , pp. 5702-5707
    • Protas, M.E.1    Trontelj, P.2    Patel, N.H.3
  • 128
    • 3042548834 scopus 로고    scopus 로고
    • The evolutionary gain of spliceosomal introns: Sequence and phase preferences
    • DOI 10.1093/molbev/msh120
    • Qiu W, Schisler N, Stoltzfus A. 2004. The evolutionary gain of spliceosomal introns: sequence and phase preferences. Mol Biol Evol. 21:1252-1263. (Pubitemid 38823728)
    • (2004) Molecular Biology and Evolution , vol.21 , Issue.7 , pp. 1252-1263
    • Qiu, W.-G.1    Schisler, N.2    Stoltzfus, A.3
  • 129
    • 70349522026 scopus 로고    scopus 로고
    • Elephant shark (Callorhinchus milii) provides insights into the evolution of Hox gene clusters in gnathostomes
    • Ravi V, et al. 2009. Elephant shark (Callorhinchus milii) provides insights into the evolution of Hox gene clusters in gnathostomes. Proc Natl Acad Sci U S A. 106:16327-16332.
    • (2009) Proc Natl Acad Sci U S A , vol.106 , pp. 16327-16332
    • Ravi, V.1
  • 130
    • 77957942680 scopus 로고    scopus 로고
    • Independent mammalian genome contractions following the KT boundary
    • Rho M, et al. 2009. Independent mammalian genome contractions following the KT boundary. Genome Biol Evol. 1:2-12.
    • (2009) Genome Biol Evol. , vol.1 , pp. 2-12
    • Rho, M.1
  • 131
    • 42249084107 scopus 로고    scopus 로고
    • Homoplasy in genome-wide analysis of rare amino acid replacements: The molecular-evolutionary basis for Vavilov's law of homologous series
    • Rogozin IB, Thomson K, Csürös M, Carmel L, Koonin EV. 2008. Homoplasy in genome-wide analysis of rare amino acid replacements: the molecular-evolutionary basis for Vavilov's law of homologous series. Biol Direct. 3:7.
    • (2008) Biol Direct. , vol.3 , pp. 7
    • Rogozin, I.B.1    Thomson, K.2    Csürös, M.3    Carmel, L.4    Koonin, E.V.5
  • 132
    • 37549040975 scopus 로고    scopus 로고
    • Analysis of rare amino acid replacements supports the Coelomata clade
    • Rogozin IB, Wolf YI, Carmel L, Koonin EV. 2007a. Analysis of rare amino acid replacements supports the Coelomata clade. Mol Biol Evol. 24:2594-2597.
    • (2007) Mol Biol EVol. , vol.24 , pp. 2594-2597
    • Rogozin, I.B.1    Wolf, Y.I.2    Carmel, L.3    Koonin, E.V.4
  • 133
    • 34047227628 scopus 로고    scopus 로고
    • Ecdysozoan clade rejected by genome-wide analysis of rare amino acid replacements
    • DOI 10.1093/molbev/msm029
    • Rogozin IB, Wolf YI, Carmel L, Koonin EV. 2007b. Ecdysozoan clade rejected by genome-wide analysis of rare amino acid replacements. Mol Biol Evol. 24:1080-1090. (Pubitemid 46536720)
    • (2007) Molecular Biology and Evolution , vol.24 , Issue.4 , pp. 1080-1090
    • Rogozin, I.B.1    Wolf, Y.I.2    Carmel, L.3    Koonin, E.V.4
  • 134
    • 49749137335 scopus 로고    scopus 로고
    • Frequent and widespread parallel evolution of protein sequences
    • Rokas A, Carroll SB. 2008. Frequent and widespread parallel evolution of protein sequences. Mol Biol Evol. 25:1943-1953.
    • (2008) Mol Biol Evol. , vol.25 , pp. 1943-1953
    • Rokas, A.1    Carroll, S.B.2
  • 135
    • 77955136814 scopus 로고    scopus 로고
    • Contrasting GC-content dynamics across 33 mammalian genomes: Relationship with life-history traits and chromosome sizes
    • Romiguier J, Ranwez V, Douzery EJ, Galtier N. 2010. Contrasting GC-content dynamics across 33 mammalian genomes: relationship with life-history traits and chromosome sizes. Genome Res. 20:1001-1009.
    • (2010) Genome Res. , vol.20 , pp. 1001-1009
    • Romiguier, J.1    Ranwez, V.2    Douzery, E.J.3    Galtier, N.4
  • 136
    • 40849147083 scopus 로고    scopus 로고
    • Rare genomic characters do not support Coelomata: Intron loss/gain
    • DOI 10.1093/molbev/msn035
    • Roy SW, Irimia M. 2008a. Rare genomic characters do not support Coelomata: intron loss/gain. Mol Biol Evol. 25:620-623. (Pubitemid 351398337)
    • (2008) Molecular Biology and Evolution , vol.25 , Issue.4 , pp. 620-623
    • Roy, S.W.1    Irimia, M.2
  • 137
    • 43149098505 scopus 로고    scopus 로고
    • Rare genomic characters do not support Coelomata: Rgc-CAMs
    • Roy SW, Irimia M. 2008b. Rare genomic characters do not support Coelomata: RGC-CAMs. J Mol Evol. 66:308-315.
    • (2008) J Mol EVol. , vol.66 , pp. 308-315
    • Roy, S.W.1    Irimia, M.2
  • 138
    • 59349107038 scopus 로고    scopus 로고
    • Mystery of intron gain: New data and new models
    • Roy SW, Irimia M. 2009a. Mystery of intron gain: new data and new models. Trends Genet. 25:67-73.
    • (2009) Trends Genet. , vol.25 , pp. 67-73
    • Roy, S.W.1    Irimia, M.2
  • 139
    • 67651124996 scopus 로고    scopus 로고
    • Splicing in the eukaryotic ancestor: Form, function and dysfunction
    • Roy SW, Irimia M. 2009b. Splicing in the eukaryotic ancestor: form, function and dysfunction. Trends Ecol Evol. 24:447-455.
    • (2009) Trends Ecol Evol. , vol.24 , pp. 447-455
    • Roy, S.W.1    Irimia, M.2
  • 140
    • 33750938326 scopus 로고    scopus 로고
    • Smoke without fire: Most reported cases of intron gain in nematodes instead reflect intron losses
    • DOI 10.1093/molbev/msl098
    • Roy SW, Penny D. 2006. Smoke without fire: most reported cases of intron gain in nematodes instead reflect intron losses. Mol Biol Evol. 23:2259-2262. (Pubitemid 44737116)
    • (2006) Molecular Biology and Evolution , vol.23 , Issue.12 , pp. 2259-2262
    • Roy, S.W.1    Penny, D.2
  • 141
    • 35748951022 scopus 로고    scopus 로고
    • Widespread intron loss suggests retrotranspo-son activity in ancient apicomplexans
    • Roy SW, Penny D. 2007. Widespread intron loss suggests retrotranspo-son activity in ancient apicomplexans. Mol Biol Evol. 24:1926-1933.
    • (2007) Mol Biol Evol. , vol.24 , pp. 1926-1933
    • Roy, S.W.1    Penny, D.2
  • 142
    • 80052152362 scopus 로고    scopus 로고
    • Transphyletic conservation of developmental regulatory state in animal evolution
    • Royo JL, et al. 2011. Transphyletic conservation of developmental regulatory state in animal evolution. Proc Natl Acad Sci U S A. 108:14186-14191.
    • (2011) Proc Natl Acad Sci U S A , vol.108 , pp. 14186-14191
    • Royo, J.L.1
  • 143
    • 24944446017 scopus 로고    scopus 로고
    • An ancient spliceosomal intron in the ribosomal protein L7a gene (Rpl7a) of Giardia lamblia
    • Russell A, Shutt T, Watkins R, Gray M. 2005. An ancient spliceosomal intron in the ribosomal protein L7a gene (Rpl7a) of Giardia lamblia. BMC Evol Biol. 5:45.
    • (2005) BMC Evol Biol. , vol.5 , pp. 45
    • Russell, A.1    Shutt, T.2    Watkins, R.3    Gray, M.4
  • 145
    • 0034625260 scopus 로고    scopus 로고
    • Drosophila Dscam is an axon guidance receptor exhibiting extraordinary molecular diversity
    • Schmucker D, et al. 2000. Drosophila Dscam is an axon guidance receptor exhibiting extraordinary molecular diversity. Cell 101:671-684.
    • (2000) Cell , vol.101 , pp. 671-684
    • Schmucker, D.1
  • 146
    • 38049029652 scopus 로고    scopus 로고
    • Large-scale comparative analysis of splicing signals and their corresponding splicing factors in eukaryotes
    • Schwartz S, et al. 2008. Large-scale comparative analysis of splicing signals and their corresponding splicing factors in eukaryotes. Genome Res. 18:88-103.
    • (2008) Genome Res. , vol.18 , pp. 88-103
    • Schwartz, S.1
  • 147
    • 79952727146 scopus 로고    scopus 로고
    • What is parallelism?
    • Scotland RW. 2011. What is parallelism? Evol Dev. 13:214-227.
    • (2011) Evol Dev. , vol.13 , pp. 214-227
    • Scotland, R.W.1
  • 148
    • 4544320630 scopus 로고    scopus 로고
    • Hox cluster disintegration with persistent anteroposterior order of expression in Oikopleura dioica
    • Seo HC, et al. 2004. Hox cluster disintegration with persistent anteroposterior order of expression in Oikopleura dioica. Nature 431:67-71.
    • (2004) Nature , vol.431 , pp. 67-71
    • Seo, H.C.1
  • 149
    • 67749101349 scopus 로고    scopus 로고
    • Evolution of ultrasmall spliceosomal introns in highly reduced nuclear genomes
    • Slamovits CH, Keeling PJ. 2009. Evolution of ultrasmall spliceosomal introns in highly reduced nuclear genomes. Mol Biol Evol. 26:1699-1705.
    • (2009) Mol Biol Evol. , vol.26 , pp. 1699-1705
    • Slamovits, C.H.1    Keeling, P.J.2
  • 150
    • 77953399342 scopus 로고    scopus 로고
    • Multiple GAL pathway gene clusters evolved independently and by different mechanisms in fungi
    • Slot JC, Rokas A. 2010. Multiple GAL pathway gene clusters evolved independently and by different mechanisms in fungi. Proc Natl Acad Sci U S A. 107:10136-10141.
    • (2010) Proc Natl Acad Sci U S A , vol.107 , pp. 10136-10141
    • Slot, J.C.1    Rokas, A.2
  • 151
    • 79954582755 scopus 로고    scopus 로고
    • Does constructive neutral evolution play an important role in the origin of cellular complexity? Making sense of the origins and uses of biological complexity
    • Speijer D. 2011. Does constructive neutral evolution play an important role in the origin of cellular complexity? Making sense of the origins and uses of biological complexity. Bioessays 33:344-349.
    • (2011) Bioessays , vol.33 , pp. 344-349
    • Speijer, D.1
  • 152
    • 0032770725 scopus 로고    scopus 로고
    • On the possibility of constructive neutral evolution
    • DOI 10.1007/PL00006540
    • Stoltzfus A. 1999. On the possibility of constructive neutral evolution. J Mol Evol. 49:169-181. (Pubitemid 29357860)
    • (1999) Journal of Molecular Evolution , vol.49 , Issue.2 , pp. 169-181
    • Stoltzfus, A.1
  • 153
  • 154
    • 33847698971 scopus 로고    scopus 로고
    • The relationship between non-protein-coding DNA and eukaryotic complexity
    • DOI 10.1002/bies.20544
    • Taft RJ, Pheasant M, Mattick JS. 2007. The relationship between non-protein-coding DNA and eukaryotic complexity. Bioessays 29: 288-299. (Pubitemid 46384167)
    • (2007) BioEssays , vol.29 , Issue.3 , pp. 288-299
    • Taft, R.J.1    Pheasant, M.2    Mattick, J.S.3
  • 155
    • 57649222295 scopus 로고    scopus 로고
    • Comprehensive survey and classification of homeobox genes in the genome of amphioxus, Branchiostoma floridae
    • Takatori N, et al. 2008. Comprehensive survey and classification of homeobox genes in the genome of amphioxus, Branchiostoma floridae. Dev Genes Evol. 218:579-590.
    • (2008) Dev Genes Evol. , vol.218 , pp. 579-590
    • Takatori, N.1
  • 157
    • 79955859947 scopus 로고    scopus 로고
    • An evolutionarily conserved three-dimensional structure in the vertebrate Irx clusters facilitates enhancer sharing and co-regulation
    • Tena JJ, et al. 2011. An evolutionarily conserved three-dimensional structure in the vertebrate Irx clusters facilitates enhancer sharing and co-regulation. Nat Commun. 2:310.
    • (2011) Nat Commun. , vol.2 , pp. 310
    • Tena, J.J.1
  • 158
    • 34249736446 scopus 로고    scopus 로고
    • Rapid birth-death evolution specific to xenobiotic cytochrome P450 genes in vertebrates
    • Thomas JH. 2007. Rapid birth-death evolution specific to xenobiotic cytochrome P450 genes in vertebrates. PLoS Genet. 3:e67.
    • (2007) PLoS Genet. , vol.3
    • Thomas, J.H.1
  • 159
    • 54549123375 scopus 로고    scopus 로고
    • Evolution of polyploidy and the diversification of plant-pollinator interactions
    • Thompson JN, Merg KF. 2008. Evolution of polyploidy and the diversification of plant-pollinator interactions. Ecology 89: 2197-2206.
    • (2008) Ecology , vol.89 , pp. 2197-2206
    • Thompson, J.N.1    Merg, K.F.2
  • 160
    • 33750018038 scopus 로고    scopus 로고
    • Genome expansion in three hybrid sunflower species is associated with retrotransposon proliferation
    • DOI 10.1016/j.cub.2006.09.020, PII S0960982206022135
    • Ungerer MC, Strakosh SC, Zhen Y. 2006. Genome expansion in three hybrid sunflower species is associated with retrotransposon proliferation. Curr Biol. 16:R872-R873. (Pubitemid 44573827)
    • (2006) Current Biology , vol.16 , Issue.20
    • Ungerer, M.C.1    Strakosh, S.C.2    Zhen, Y.3
  • 162
    • 0034733948 scopus 로고    scopus 로고
    • Fugu: A compact vertebrate reference genome
    • DOI 10.1016/S0014-5793(00)01659-8, PII S0014579300016598
    • Venkatesh B, Gilligan P, Brenner S. 2000. Fugu: a compact vertebrate reference genome. FEBS Lett. 476:3-7. (Pubitemid 30394639)
    • (2000) FEBS Letters , vol.476 , Issue.1-2 , pp. 3-7
    • Venkatesh, B.1    Gilligan, P.2    Brenner, S.3
  • 163
    • 0035895505 scopus 로고    scopus 로고
    • The sequence of the human genome
    • Venter JC, et al. 2001. The sequence of the human genome. Science 291:1304-1351.
    • (2001) Science , vol.291 , pp. 1304-1351
    • Venter, J.C.1
  • 164
    • 33646909100 scopus 로고    scopus 로고
    • Protein family expansions and biological complexity
    • Vogel C, Chothia C. 2006. Protein family expansions and biological complexity. PLoS Comput Biol. 2:e48.
    • (2006) PLoS Comput Biol. , vol.2
    • Vogel, C.1    Chothia, C.2
  • 167
    • 77957326306 scopus 로고    scopus 로고
    • Did genetic drift drive increases in genome complexity?
    • Whitney KD, Garland T. 2010. Did genetic drift drive increases in genome complexity? PLoS Genet. 6:e1001080.
    • (2010) PLoS Genet. , vol.6
    • Whitney, K.D.1    Garland, T.2
  • 168
    • 0030947344 scopus 로고    scopus 로고
    • Molecular evidence for an ancient duplication of the entire yeast genome
    • DOI 10.1038/42711
    • Wolfe KH, Shields DC. 1997. Molecular evidence for an ancient duplication of the entire yeast genome. Nature 387:708-713. (Pubitemid 27270611)
    • (1997) Nature , vol.387 , Issue.6634 , pp. 708-713
    • Wolfe, K.H.1    Shields, D.C.2
  • 169
    • 0035050426 scopus 로고    scopus 로고
    • Bias in the introduction of variation as an orienting factor in evolution
    • DOI 10.1046/j.1525-142X.2001.003002073.x
    • Yampolsky LY, Stoltzfus A. 2001. Bias in the introduction of variation as an orienting factor in evolution. Evol Dev. 3:73-83. (Pubitemid 32406505)
    • (2001) Evolution and Development , vol.3 , Issue.2 , pp. 73-83
    • Yampolsky, L.Y.1    Stoltzfus, A.2
  • 170
    • 53449101955 scopus 로고    scopus 로고
    • Genome duplication and the origin of the vertebrate skeleton
    • Zhang G, Cohn MJ. 2008. Genome duplication and the origin of the vertebrate skeleton. Curr Opin Genet Dev. 18:387-393.
    • (2008) Curr Opin Genet Dev. , vol.18 , pp. 387-393
    • Zhang, G.1    Cohn, M.J.2
  • 171
    • 33745543629 scopus 로고    scopus 로고
    • Parallel adaptive origins of digestive RNases in Asian and African leaf monkeys
    • DOI 10.1038/ng1812, PII N1812
    • Zhang J. 2006. Parallel adaptive origins of digestive RNases in Asian and African leaf monkeys. Nat Genet. 38:819-823. (Pubitemid 43980604)
    • (2006) Nature Genetics , vol.38 , Issue.7 , pp. 819-823
    • Zhang, J.1
  • 172
    • 0030957216 scopus 로고    scopus 로고
    • Detection of convergent and parallel evolution at the amino acid sequence level
    • Zhang J, Kumar S. 1997. Detection of convergent and parallel evolution at the amino acid sequence level. Mol Biol Evol. 14:527-536. (Pubitemid 27200483)
    • (1997) Molecular Biology and Evolution , vol.14 , Issue.5 , pp. 527-536
    • Zhang, J.1    Kumar, S.2
  • 173
    • 77954540386 scopus 로고    scopus 로고
    • Loss of fish actinotrichia proteins and the finto-limb transition
    • Zhang J, et al. 2010. Loss of fish actinotrichia proteins and the finto-limb transition. Nature 466:234-237.
    • (2010) Nature , vol.466 , pp. 234-237
    • Zhang, J.1


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