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Volumn 3, Issue 11, 2007, Pages 2135-2146

Gene family evolution across 12 Drosophila genomes

Author keywords

[No Author keywords available]

Indexed keywords

NUCLEOTIDE; PROTEIN;

EID: 36048950933     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.0030197     Document Type: Article
Times cited : (296)

References (74)
  • 1
    • 0030660581 scopus 로고    scopus 로고
    • A genomic perspective on protein families
    • Tatusov RL, Koonin EV, Lipman DJ (1997) A genomic perspective on protein families. Science 278: 631-637.
    • (1997) Science , vol.278 , pp. 631-637
    • Tatusov, R.L.1    Koonin, E.V.2    Lipman, D.J.3
  • 3
    • 0035963319 scopus 로고    scopus 로고
    • Genes lost during evolution
    • Roelofs J, Van Haastert PJM (2001) Genes lost during evolution. Nature 411: 1013-1014.
    • (2001) Nature , vol.411 , pp. 1013-1014
    • Roelofs, J.1    Van Haastert, P.J.M.2
  • 4
    • 11944266550 scopus 로고    scopus 로고
    • Shedding genomic ballast: Extensive parallel loss of ancestral gene families in animals
    • Hughes AL, Friedman R (2004) 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
  • 5
    • 0034633626 scopus 로고    scopus 로고
    • Lineage-specific loss and divergence of functionally linked genes in eukaryotes
    • Aravind L, Watanabe H, Lipman DJ, Koonin EV (2000) Lineage-specific loss and divergence of functionally linked genes in eukaryotes. Proc Natl Acad Sci U S A 97: 11319-11324.
    • (2000) Proc Natl Acad Sci U S A , vol.97 , pp. 11319-11324
    • Aravind, L.1    Watanabe, H.2    Lipman, D.J.3    Koonin, E.V.4
  • 6
    • 0346734126 scopus 로고    scopus 로고
    • Extensive gene gain associated with adaptive evolution of poxviruses
    • McLysaght A, Baldi PF, Gaut BS (2003) Extensive gene gain associated with adaptive evolution of poxviruses. Proc Natl Acad Sci U S A 100: 15655-15660.
    • (2003) Proc Natl Acad Sci U S A , vol.100 , pp. 15655-15660
    • McLysaght, A.1    Baldi, P.F.2    Gaut, B.S.3
  • 7
    • 19344366754 scopus 로고    scopus 로고
    • Lineage-specific gene duplication and loss in human and great ape evolution
    • doi: 10.1371/journal.pbio.0020207
    • Fortna A, Kim Y, MacLaren E, Marshall K, Hahn G, et al. (2004) Lineage-specific gene duplication and loss in human and great ape evolution. PLoS Biology 2: e207. doi: 10.1371/journal.pbio.0020207
    • (2004) PLoS Biology , vol.2
    • Fortna, A.1    Kim, Y.2    MacLaren, E.3    Marshall, K.4    Hahn, G.5
  • 9
    • 1242352089 scopus 로고    scopus 로고
    • Temporal patterns of fruit fly (Drosophila) evolution revealed by mutation clocks
    • Tamura K, Subramanian S, Kumar S (2004) Temporal patterns of fruit fly (Drosophila) evolution revealed by mutation clocks. Mol Biol Evol 21: 36-44.
    • (2004) Mol Biol Evol , vol.21 , pp. 36-44
    • Tamura, K.1    Subramanian, S.2    Kumar, S.3
  • 11
    • 0028342845 scopus 로고
    • The evolution of functionally novel proteins after gene duplication
    • Hughes AL (1994) The evolution of functionally novel proteins after gene duplication. Proc R Soc Lond B Biol Sci 256: 119-124.
    • (1994) Proc R Soc Lond B Biol Sci , vol.256 , pp. 119-124
    • Hughes, A.L.1
  • 12
    • 0032893932 scopus 로고    scopus 로고
    • Preservation of duplicate genes by complementary, degenerative mutations
    • Force A, Lynch M, Pickett FB, Amores A, Yan Y-l, et al. (1999) Preservation of duplicate genes by complementary, degenerative mutations. Genetics 151: 1531-1545.
    • (1999) Genetics , vol.151 , pp. 1531-1545
    • Force, A.1    Lynch, M.2    Pickett, F.B.3    Amores, A.4    Yan, Y.-L.5
  • 13
    • 0029810475 scopus 로고    scopus 로고
    • Duplication and divergence of the genes of the alpha-esterase cluster of Drosophila melanogaster
    • Robin C, Russell RJ, Medveczky KM, Oakeshott J (1996) Duplication and divergence of the genes of the alpha-esterase cluster of Drosophila melanogaster. J Mol Evol 43: 241-252.
    • (1996) J Mol Evol , vol.43 , pp. 241-252
    • Robin, C.1    Russell, R.J.2    Medveczky, K.M.3    Oakeshott, J.4
  • 14
    • 4344673329 scopus 로고    scopus 로고
    • Gene duplication and speciation in Drosophila: Evidence from the Odysseus locus
    • Ting C-T, Tsaur S-C, Sun S, Browne WE, Chen Y-C, et al. (2004) Gene duplication and speciation in Drosophila: evidence from the Odysseus locus. Proc Natl Acad Sci U S A 101: 12232-12235.
    • (2004) Proc Natl Acad Sci U S A , vol.101 , pp. 12232-12235
    • Ting, C.-T.1    Tsaur, S.-C.2    Sun, S.3    Browne, W.E.4    Chen, Y.-C.5
  • 15
    • 4143074629 scopus 로고    scopus 로고
    • Molecular evolution and population genetics of duplicated accessory gland protein genes in Drosophila
    • Holloway AK, Begun DJ (2004) Molecular evolution and population genetics of duplicated accessory gland protein genes in Drosophila. Mol Biol Evol 21: 1625-1628.
    • (2004) Mol Biol Evol , vol.21 , pp. 1625-1628
    • Holloway, A.K.1    Begun, D.J.2
  • 16
    • 14644423918 scopus 로고    scopus 로고
    • Birth-and-death evolution of the cecropin multigene family in Drosophila
    • Quesada H, Sebastián ER-O, Montserrat A (2005) Birth-and-death evolution of the cecropin multigene family in Drosophila. J Mol Evol 60: 1-11.
    • (2005) J Mol Evol , vol.60 , pp. 1-11
    • Quesada, H.1    Sebastián, E.R.-O.2    Montserrat, A.3
  • 17
    • 33746878289 scopus 로고    scopus 로고
    • Repression and loss of gene expression outpaces activation and gain in recently duplicated fly genes
    • Oakley TH, Ostman B, Wilson ACV (2006) Repression and loss of gene expression outpaces activation and gain in recently duplicated fly genes. Proc Natl Acad Sci U S A 103: 11637-11641.
    • (2006) Proc Natl Acad Sci U S A , vol.103 , pp. 11637-11641
    • Oakley, T.H.1    Ostman, B.2    Wilson, A.C.V.3
  • 18
    • 30744451158 scopus 로고    scopus 로고
    • Adaptive loss of an old duplicated gene during incipient speciation
    • Greenberg AJ, Moran JR, Fang S, Wu C-I (2006) Adaptive loss of an old duplicated gene during incipient speciation. Mol Biol Evol 23: 401-410.
    • (2006) Mol Biol Evol , vol.23 , pp. 401-410
    • Greenberg, A.J.1    Moran, J.R.2    Fang, S.3    Wu, C.-I.4
  • 19
    • 0033360995 scopus 로고    scopus 로고
    • When less is more: Gene loss as an engine of evolutionary change
    • Olson MV (1999) When less is more: gene loss as an engine of evolutionary change. Am J Hum Genet 64: 18-23.
    • (1999) Am J Hum Genet , vol.64 , pp. 18-23
    • Olson, M.V.1
  • 20
    • 0027905006 scopus 로고
    • Natural selection and the origin of jingwei, a chimeric processed functional gene in Drosophila
    • Long M, Langley CH (1993) Natural selection and the origin of jingwei, a chimeric processed functional gene in Drosophila. Science 260: 91-95.
    • (1993) Science , vol.260 , pp. 91-95
    • Long, M.1    Langley, C.H.2
  • 21
    • 23844533589 scopus 로고    scopus 로고
    • Parallel evolution of chimeric fusion genes
    • Jones CD, Begun DJ (2005) Parallel evolution of chimeric fusion genes. Proc Natl Acad Sci U S A 102: 11373-11378.
    • (2005) Proc Natl Acad Sci U S A , vol.102 , pp. 11373-11378
    • Jones, C.D.1    Begun, D.J.2
  • 22
    • 33745585334 scopus 로고    scopus 로고
    • Novel genes derived from noncoding DNA in Drosophila melanogaster are frequently X-linked and exhibit testis-biased expression
    • Levine MT, Jones CD, Kern AD, Lindfors HA, Begun DJ (2006) Novel genes derived from noncoding DNA in Drosophila melanogaster are frequently X-linked and exhibit testis-biased expression. Proc Natl Acad Sci U S A 103: 9935-9939.
    • (2006) Proc Natl Acad Sci U S A , vol.103 , pp. 9935-9939
    • Levine, M.T.1    Jones, C.D.2    Kern, A.D.3    Lindfors, H.A.4    Begun, D.J.5
  • 23
    • 23744452485 scopus 로고    scopus 로고
    • Estimating the tempo and mode of gene family evolution from comparative genomic data
    • Hahn MW, De Bie T, Stajich JE, Nguyen C, Cristianini N (2005) Estimating the tempo and mode of gene family evolution from comparative genomic data. Genome Res 15: 1153-1160.
    • (2005) Genome Res , vol.15 , pp. 1153-1160
    • Hahn, M.W.1    De Bie, T.2    Stajich, J.E.3    Nguyen, C.4    Cristianini, N.5
  • 24
    • 0000365320 scopus 로고
    • Fitting the gene lineage into its species lineage, a parsimony strategy illustrated by cladograms constructed from globin sequences
    • Goodman M, Czelusniak J, Moore GW, Romero-Herrera AE, Matsuda G (1979) Fitting the gene lineage into its species lineage, a parsimony strategy illustrated by cladograms constructed from globin sequences. Syst Zool 28: 132-163.
    • (1979) Syst Zool , vol.28 , pp. 132-163
    • Goodman, M.1    Czelusniak, J.2    Moore, G.W.3    Romero-Herrera, A.E.4    Matsuda, G.5
  • 25
    • 0031774059 scopus 로고    scopus 로고
    • GeneTree: Comparing gene and species phylogenies using reconciled trees
    • Page RD (1998) GeneTree: comparing gene and species phylogenies using reconciled trees. Bioinformatics 14: 819-820.
    • (1998) Bioinformatics , vol.14 , pp. 819-820
    • Page, R.D.1
  • 26
    • 0034791426 scopus 로고    scopus 로고
    • A simple algorithm to infer gene duplication and speciation events on a gene tree
    • Zmasek CM, Eddy SR (2001) A simple algorithm to infer gene duplication and speciation events on a gene tree. Bioinformatics 17: 821-828.
    • (2001) Bioinformatics , vol.17 , pp. 821-828
    • Zmasek, C.M.1    Eddy, S.R.2
  • 27
    • 33645981936 scopus 로고    scopus 로고
    • A hybrid micro- macroevolutionary approach to gene tree reconstruction
    • Durand D, Halldorsson BV, Vernot B (2005) A hybrid micro- macroevolutionary approach to gene tree reconstruction. J Comput Biol 13: 320-335.
    • (2005) J Comput Biol , vol.13 , pp. 320-335
    • Durand, D.1    Halldorsson, B.V.2    Vernot, B.3
  • 28
    • 0034634395 scopus 로고    scopus 로고
    • The evolutionary fate and consequences of duplicate genes
    • Lynch M, Conery JS (2000) The evolutionary fate and consequences of duplicate genes. Science 290: 1151-1155.
    • (2000) Science , vol.290 , pp. 1151-1155
    • Lynch, M.1    Conery, J.S.2
  • 29
    • 0036187351 scopus 로고    scopus 로고
    • Extent of gene duplication in the genomes of Drosophila, nematode, and yeast
    • Gu ZL, Cavalcanti A, Chen F-C, Bouman P, Li W-H (2002) Extent of gene duplication in the genomes of Drosophila, nematode, and yeast. Mol Biol Evol 19: 256-262.
    • (2002) Mol Biol Evol , vol.19 , pp. 256-262
    • Gu, Z.L.1    Cavalcanti, A.2    Chen, F.-C.3    Bouman, P.4    Li, W.-H.5
  • 31
    • 33644873681 scopus 로고    scopus 로고
    • Grumbling G, Strelets V, Consortium TF (2006) FlyBase: anatomical data, images and queries. Nucleic Acids Res 34: D484-D488.
    • Grumbling G, Strelets V, Consortium TF (2006) FlyBase: anatomical data, images and queries. Nucleic Acids Res 34: D484-D488.
  • 32
    • 37349078211 scopus 로고    scopus 로고
    • Drosophila Comparative Genome Sequencing and Analysis Consortium (2007) Evolution of genes and genomes in the context of the Drosophila phylogeny. Nature. In press.
    • Drosophila Comparative Genome Sequencing and Analysis Consortium (2007) Evolution of genes and genomes in the context of the Drosophila phylogeny. Nature. In press.
  • 33
    • 36049018312 scopus 로고    scopus 로고
    • Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures
    • In press
    • Stark A, Lin MF, Kheradpour P, Pedersen JS, Parts L, et al. (2007) Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures. Nature. In press.
    • (2007) Nature
    • Stark, A.1    Lin, M.F.2    Kheradpour, P.3    Pedersen, J.S.4    Parts, L.5
  • 35
    • 35948940895 scopus 로고    scopus 로고
    • Population genomics: Whole-genome analysis of polymorphism and divergence in Drosophila simulans
    • In press
    • Begun DJ, Holloway AK, Stevens K, Hillier LW, Poh Y-P, et al. (2007) Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans. PLoS Biology. In press.
    • (2007) PLoS Biology
    • Begun, D.J.1    Holloway, A.K.2    Stevens, K.3    Hillier, L.W.4    Poh, Y.-P.5
  • 36
    • 37249003202 scopus 로고    scopus 로고
    • Five Drosophila genomes reveal non-neutral evolution and the signature of host specialization in the chemoreceptor superfamily
    • In press
    • McBride CS, Arguello JR (2007) Five Drosophila genomes reveal non-neutral evolution and the signature of host specialization in the chemoreceptor superfamily. Genetics. In press.
    • (2007) Genetics
    • McBride, C.S.1    Arguello, J.R.2
  • 37
    • 34147128526 scopus 로고    scopus 로고
    • Comparative genomics reveals a constant rate of origination and convergent acquisition of functional retrogenes in Drosophila
    • Bai Y, Casola C, Feschotte C, Betran E (2007) Comparative genomics reveals a constant rate of origination and convergent acquisition of functional retrogenes in Drosophila. Genome Biol 8: R11.
    • (2007) Genome Biol , vol.8
    • Bai, Y.1    Casola, C.2    Feschotte, C.3    Betran, E.4
  • 38
    • 37249034790 scopus 로고    scopus 로고
    • Bias in phylogenetic tree reconciliation methods: Implications for vertebrate genome evolution
    • Hahn MW (2007) Bias in phylogenetic tree reconciliation methods: implications for vertebrate genome evolution. Genome Biol 8: R141.
    • (2007) Genome Biol , vol.8
    • Hahn, M.W.1
  • 39
    • 33646856440 scopus 로고    scopus 로고
    • CAFE: A computational tool for the study of gene family evolution
    • De Bie T, Demuth JP, Cristianini N, Hahn MW (2006) CAFE: a computational tool for the study of gene family evolution. Bioinformatics 22: 1269-1271.
    • (2006) Bioinformatics , vol.22 , pp. 1269-1271
    • De Bie, T.1    Demuth, J.P.2    Cristianini, N.3    Hahn, M.W.4
  • 40
    • 20444427160 scopus 로고    scopus 로고
    • Time dependency of molecular rate estimates and systematic overestimation of recent divergence times
    • Ho SYW, Phillips MJ, Cooper A, Drummond AJ (2005) Time dependency of molecular rate estimates and systematic overestimation of recent divergence times. Mol Biol Evol 22: 1561-1568.
    • (2005) Mol Biol Evol , vol.22 , pp. 1561-1568
    • Ho, S.Y.W.1    Phillips, M.J.2    Cooper, A.3    Drummond, A.J.4
  • 41
    • 33750933355 scopus 로고    scopus 로고
    • Can deleterious mutations explain the time dependency of molecular rate estimates?
    • Woodhams M (2006) Can deleterious mutations explain the time dependency of molecular rate estimates? Mol Biol Evol 23: 2271-2273.
    • (2006) Mol Biol Evol , vol.23 , pp. 2271-2273
    • Woodhams, M.1
  • 42
    • 3242808027 scopus 로고    scopus 로고
    • Large-scale copy number polymorphism in the human genome
    • Sebat J, Lakshmi B, Troge J, Alexander J, Young J, et al. (2004) Large-scale copy number polymorphism in the human genome. Science 305: 525-528.
    • (2004) Science , vol.305 , pp. 525-528
    • Sebat, J.1    Lakshmi, B.2    Troge, J.3    Alexander, J.4    Young, J.5
  • 43
    • 33750437728 scopus 로고    scopus 로고
    • Pollard D, Iyer VN, Moses AM, Eisen MB (2006) Widespread discordance of gene trees with species tree in Drosophila: evidence for incomplete lineage sorting. PLoS Genetics 2: e173. doi: 10.1371/journal.pgen.0020173
    • Pollard D, Iyer VN, Moses AM, Eisen MB (2006) Widespread discordance of gene trees with species tree in Drosophila: evidence for incomplete lineage sorting. PLoS Genetics 2: e173. doi: 10.1371/journal.pgen.0020173
  • 44
    • 33748490697 scopus 로고    scopus 로고
    • Gene transposition as a cause of hybrid sterility in Drosophila
    • Masly JP, Jones CD, Noor MAF, Locke J, Orr HA (2006) Gene transposition as a cause of hybrid sterility in Drosophila. Science 313: 1448-1450.
    • (2006) Science , vol.313 , pp. 1448-1450
    • Masly, J.P.1    Jones, C.D.2    Noor, M.A.F.3    Locke, J.4    Orr, H.A.5
  • 45
    • 27844524905 scopus 로고    scopus 로고
    • Evolutionary change of the numbers of homeobox genes in bilateral animals
    • Nam J, Nei M (2005) Evolutionary change of the numbers of homeobox genes in bilateral animals. Mol Biol Evol 22: 2386-2394.
    • (2005) Mol Biol Evol , vol.22 , pp. 2386-2394
    • Nam, J.1    Nei, M.2
  • 46
    • 33745067419 scopus 로고    scopus 로고
    • The gain and loss of genes during 600 million years of vertebrate evolution
    • Blomme T, Vandepoele K, De Bodt S, Simillion C, Maere S, 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    Vandepoele, K.2    De Bodt, S.3    Simillion, C.4    Maere, S.5
  • 47
    • 0023375195 scopus 로고
    • The neighbor-joining method: A new method for reconstructing phylogenetic trees
    • Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4: 406-425.
    • (1987) Mol Biol Evol , vol.4 , pp. 406-425
    • Saitou, N.1    Nei, M.2
  • 48
    • 20044369186 scopus 로고    scopus 로고
    • An adaptive radiation model for the origin of new gene functions
    • Francino MP (2005) An adaptive radiation model for the origin of new gene functions. Nat Genet 37: 573-578.
    • (2005) Nat Genet , vol.37 , pp. 573-578
    • Francino, M.P.1
  • 49
    • 37249061101 scopus 로고    scopus 로고
    • Accelerated rate of gene gain and loss in primates
    • In press
    • Hahn MW, Demuth JP, Han S-G (2007) Accelerated rate of gene gain and loss in primates. Genetics. In press.
    • (2007) Genetics
    • Hahn, M.W.1    Demuth, J.P.2    Han, S.-G.3
  • 50
    • 0037020194 scopus 로고    scopus 로고
    • Comparative genome and proteome analysis of Anopheles gambiae and Drosophila melanogaster
    • Zdobnov EM, von Mering C, Letunic I, Torrents D, Suyama M, et al. (2002) Comparative genome and proteome analysis of Anopheles gambiae and Drosophila melanogaster. Science 298: 149-159.
    • (2002) Science , vol.298 , pp. 149-159
    • Zdobnov, E.M.1    von Mering, C.2    Letunic, I.3    Torrents, D.4    Suyama, M.5
  • 51
    • 0028178116 scopus 로고
    • lola encodes a putative transcription factor required for axon growth and guidance in Drosophila
    • Giniger E, Tietje K, Jan LY, Jan YN (1994) lola encodes a putative transcription factor required for axon growth and guidance in Drosophila. Development 120: 1385-1398.
    • (1994) Development , vol.120 , pp. 1385-1398
    • Giniger, E.1    Tietje, K.2    Jan, L.Y.3    Jan, Y.N.4
  • 52
    • 0026584187 scopus 로고
    • Is Stellate a relict meiotic driver?
    • Hurst L (1992) Is Stellate a relict meiotic driver? Genetics 130: 229-230.
    • (1992) Genetics , vol.130 , pp. 229-230
    • Hurst, L.1
  • 53
    • 0030072831 scopus 로고    scopus 로고
    • Further evidence consistent with Stellate's involvement in meiotic drive
    • Hurst L (1996) Further evidence consistent with Stellate's involvement in meiotic drive. Genetics 142: 641-643.
    • (1996) Genetics , vol.142 , pp. 641-643
    • Hurst, L.1
  • 54
    • 0021229506 scopus 로고
    • Organization and mapping of a sequence on the Drosophila melanogaster X and Y chromosomes that is transcribed during spermatogenesis
    • Livak KJ (1984) Organization and mapping of a sequence on the Drosophila melanogaster X and Y chromosomes that is transcribed during spermatogenesis. Genetics 107: 611-634.
    • (1984) Genetics , vol.107 , pp. 611-634
    • Livak, K.J.1
  • 55
    • 0032506534 scopus 로고    scopus 로고
    • Selective sweep of a newly evolved sperm-specific gene in Drosophila
    • Nurminsky DI, Nurminskaya MV, De Aguiar D, Hartl DL (1998) Selective sweep of a newly evolved sperm-specific gene in Drosophila. Nature 396: 572-575.
    • (1998) Nature , vol.396 , pp. 572-575
    • Nurminsky, D.I.1    Nurminskaya, M.V.2    De Aguiar, D.3    Hartl, D.L.4
  • 56
    • 0035808561 scopus 로고    scopus 로고
    • Chromosomal effects of rapid gene evolution in Drosophila melanogaster
    • Nurminsky D, De Aguiar D, Bustamante CD, Hartl DL (2001) Chromosomal effects of rapid gene evolution in Drosophila melanogaster. Science 291: 128-130.
    • (2001) Science , vol.291 , pp. 128-130
    • Nurminsky, D.1    De Aguiar, D.2    Bustamante, C.D.3    Hartl, D.L.4
  • 57
    • 0037968831 scopus 로고    scopus 로고
    • Origin and evolution of a new gene expressed in the Drosophila sperm axoneme
    • Ranz JM, Ponce AR, Hartl DL, Nurminsky D (2003) Origin and evolution of a new gene expressed in the Drosophila sperm axoneme. Genetica 118: 233-244.
    • (2003) Genetica , vol.118 , pp. 233-244
    • Ranz, J.M.1    Ponce, A.R.2    Hartl, D.L.3    Nurminsky, D.4
  • 58
    • 0036165516 scopus 로고    scopus 로고
    • The Drosophila melanogaster seminal fluid protein Acp62F is a protease inhibitor that is toxic upon ectopic expression
    • Lung O, Tram U, Finnerty CM, Eipper-Mains MA, Kalb JM, et al. (2002) The Drosophila melanogaster seminal fluid protein Acp62F is a protease inhibitor that is toxic upon ectopic expression. Genetics 160: 211-224.
    • (2002) Genetics , vol.160 , pp. 211-224
    • Lung, O.1    Tram, U.2    Finnerty, C.M.3    Eipper-Mains, M.A.4    Kalb, J.M.5
  • 59
    • 33750997047 scopus 로고    scopus 로고
    • Likelihood-ratio tests for positive selection of human and mouse duplicate genes reveal nonconservative and anomalous properties of widely used methods
    • Friedman R, Hughes AL (2007) Likelihood-ratio tests for positive selection of human and mouse duplicate genes reveal nonconservative and anomalous properties of widely used methods. Mol Phylogenet Evol 42: 388-393.
    • (2007) Mol Phylogenet Evol , vol.42 , pp. 388-393
    • Friedman, R.1    Hughes, A.L.2
  • 60
    • 0042208362 scopus 로고    scopus 로고
    • Effect of recombination on the accuracy of the likelihood method for detecting positive selection at amino acid sites
    • Anisimova M, Nielsen R, Yang Z (2003) Effect of recombination on the accuracy of the likelihood method for detecting positive selection at amino acid sites. Genetics 164: 1229-1236.
    • (2003) Genetics , vol.164 , pp. 1229-1236
    • Anisimova, M.1    Nielsen, R.2    Yang, Z.3
  • 61
    • 10844254878 scopus 로고    scopus 로고
    • Rapid evolution through gene duplication and subfunctionalization of the testes-specific alpha4 proteasome subunits in Drosophila
    • Torgerson DG, Singh RS (2005) Rapid evolution through gene duplication and subfunctionalization of the testes-specific alpha4 proteasome subunits in Drosophila. Genetics 168: 1421-1432.
    • (2005) Genetics , vol.168 , pp. 1421-1432
    • Torgerson, D.G.1    Singh, R.S.2
  • 63
    • 0742316351 scopus 로고    scopus 로고
    • An integrated gene annotation and transcriptional profiling approach towards the full gene content of the Drosophila genome
    • Hild M, Beckmann B, Haas SA, Koch B, Solovyev V, et al. (2003) An integrated gene annotation and transcriptional profiling approach towards the full gene content of the Drosophila genome. Genome Biol 5: R3.
    • (2003) Genome Biol , vol.5
    • Hild, M.1    Beckmann, B.2    Haas, S.A.3    Koch, B.4    Solovyev, V.5
  • 64
    • 0142028990 scopus 로고    scopus 로고
    • An evolutionary analysis of orphan genes in Drosophila
    • Domazet-Loso T, Tautz D (2003) An evolutionary analysis of orphan genes in Drosophila. Genome Res 13: 2213-2219.
    • (2003) Genome Res , vol.13 , pp. 2213-2219
    • Domazet-Loso, T.1    Tautz, D.2
  • 65
    • 0034754788 scopus 로고    scopus 로고
    • The evolutionary analysis of "orphans" from the Drosophila genome identifies rapidly diverging and incorrectly annotated genes
    • Schmid KJ, Aquadro CF (2001) The evolutionary analysis of "orphans" from the Drosophila genome identifies rapidly diverging and incorrectly annotated genes. Genetics 159: 589-598.
    • (2001) Genetics , vol.159 , pp. 589-598
    • Schmid, K.J.1    Aquadro, C.F.2
  • 66
    • 0030928758 scopus 로고    scopus 로고
    • A screen for fast evolving genes from Drosophila
    • Schmid KJ, Tautz D (1997) A screen for fast evolving genes from Drosophila. Proc Natl Acad Sci U S A 94: 9746-9750.
    • (1997) Proc Natl Acad Sci U S A , vol.94 , pp. 9746-9750
    • Schmid, K.J.1    Tautz, D.2
  • 67
    • 0242354129 scopus 로고    scopus 로고
    • The origin of new genes: Glimpses from the young and old
    • Long M, Betran E, Thornton K, Wang W (2003) The origin of new genes: glimpses from the young and old. Nat Rev Genet 4: 865-875.
    • (2003) Nat Rev Genet , vol.4 , pp. 865-875
    • Long, M.1    Betran, E.2    Thornton, K.3    Wang, W.4
  • 68
    • 33845904639 scopus 로고    scopus 로고
    • Horizontal gene transfer in plants
    • Richardson AO, Palmer JD (2007) Horizontal gene transfer in plants. J Exp Bot 58: 1-9.
    • (2007) J Exp Bot , vol.58 , pp. 1-9
    • Richardson, A.O.1    Palmer, J.D.2
  • 70
    • 3042666256 scopus 로고    scopus 로고
    • MUSCLE: Multiple sequence alignment with high accuracy and high throughput
    • Edgar RC (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32: 1792-1797.
    • (2004) Nucleic Acids Res , vol.32 , pp. 1792-1797
    • Edgar, R.C.1
  • 71
    • 37349036086 scopus 로고    scopus 로고
    • Felsenstein J (1989) PHYLIP, Phylogeny Inference Package Version 3.2, Cladistics 5: 164-166
    • Felsenstein J (1989) PHYLIP - Phylogeny Inference Package (Version 3.2). Cladistics 5: 164-166.
  • 72
    • 0030683599 scopus 로고    scopus 로고
    • PAML: A program package for phylogenetic analysis by maximum likelihood
    • Yang Z (1997) PAML: a program package for phylogenetic analysis by maximum likelihood. CABIOS 13: 555-556.
    • (1997) CABIOS , vol.13 , pp. 555-556
    • Yang, Z.1
  • 73
    • 8544225780 scopus 로고    scopus 로고
    • Accuracy and power of statistical methods for detecting adaptive evolution in protein coding sequences and for identifying positively selected sites
    • Wong WSW, Yang Z, Goldman N, Nielsen R (2004) Accuracy and power of statistical methods for detecting adaptive evolution in protein coding sequences and for identifying positively selected sites. Genetics 168: 1041-1051.
    • (2004) Genetics , vol.168 , pp. 1041-1051
    • Wong, W.S.W.1    Yang, Z.2    Goldman, N.3    Nielsen, R.4
  • 74
    • 3142665525 scopus 로고    scopus 로고
    • GOstat: Find statistically over-represented Gene Ontologies within a group of genes
    • Beissbarth T, Speed TP (2004) GOstat: find statistically over-represented Gene Ontologies within a group of genes. Bioinformatics 20: 1464-1465.
    • (2004) Bioinformatics , vol.20 , pp. 1464-1465
    • Beissbarth, T.1    Speed, T.P.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.