메뉴 건너뛰기




Volumn 10, Issue , 2010, Pages

Dating and functional characterization of duplicated genes in the apple (Malus domestica Borkh.) by analyzing EST data

Author keywords

[No Author keywords available]

Indexed keywords

ASTERIDS; MALUS X DOMESTICA; ROSACEAE;

EID: 77955505201     PISSN: None     EISSN: 14712229     Source Type: Journal    
DOI: 10.1186/1471-2229-10-87     Document Type: Article
Times cited : (19)

References (93)
  • 1
    • 36549038087 scopus 로고    scopus 로고
    • Consequences of genome duplication
    • 10.1016/j.gde.2007.09.007, 18006297
    • Sémon M, Wolfe KH. Consequences of genome duplication. Curr Opin Genet Dev 2007, 17(6):505-12. 10.1016/j.gde.2007.09.007, 18006297.
    • (2007) Curr Opin Genet Dev , vol.17 , Issue.6 , pp. 505-512
    • Sémon, M.1    Wolfe, K.H.2
  • 2
    • 0037500141 scopus 로고    scopus 로고
    • Evolution by gene duplication: an update
    • Zhang J. Evolution by gene duplication: an update. Trends Ecol Evol 2003, 18(6):292-298.
    • (2003) Trends Ecol Evol , vol.18 , Issue.6 , pp. 292-298
    • Zhang, J.1
  • 3
    • 0035546156 scopus 로고    scopus 로고
    • Gene and genome duplication
    • 10.1016/S0959-437X(00)00253-7, 11682313
    • Sankoff D. Gene and genome duplication. Curr Opin Genet Dev 2001, 11(6):681-684. 10.1016/S0959-437X(00)00253-7, 11682313.
    • (2001) Curr Opin Genet Dev , vol.11 , Issue.6 , pp. 681-684
    • Sankoff, D.1
  • 4
    • 19344372749 scopus 로고    scopus 로고
    • Gene duplication: The genomic trade in spare parts
    • 10.1371/journal.pbio.0020206, 449868, 15252449
    • Hurles M. Gene duplication: The genomic trade in spare parts. PLoS Biol 2004, 2(7):e206. 10.1371/journal.pbio.0020206, 449868, 15252449.
    • (2004) PLoS Biol , vol.2 , Issue.7
    • Hurles, M.1
  • 6
    • 62549166268 scopus 로고    scopus 로고
    • Human genes involved in copy number variation: mechanisms of origin, functional effects and implications for disease
    • 10.1159/000184688, 19287135
    • de Smith AJ, Walters RG, Froguel P, Blakemore AI. Human genes involved in copy number variation: mechanisms of origin, functional effects and implications for disease. Cytogenet Genome Res 2008, 123(1-4):17-26. 10.1159/000184688, 19287135.
    • (2008) Cytogenet Genome Res , vol.123 , Issue.1-4 , pp. 17-26
    • de Smith, A.J.1    Walters, R.G.2    Froguel, P.3    Blakemore, A.I.4
  • 7
    • 67651098662 scopus 로고    scopus 로고
    • Mechanisms of change in gene copy number
    • 10.1038/nrg2593, 2864001, 19597530
    • Hastings PJ, Lupski JR, Rosenberg SM, Ira G. Mechanisms of change in gene copy number. Nat Rev Genet 2009, 10(8):551-64. 10.1038/nrg2593, 2864001, 19597530.
    • (2009) Nat Rev Genet , vol.10 , Issue.8 , pp. 551-564
    • Hastings, P.J.1    Lupski, J.R.2    Rosenberg, S.M.3    Ira, G.4
  • 8
    • 0034500239 scopus 로고    scopus 로고
    • Polyploid incidence and evolution
    • 10.1146/annurev.genet.34.1.401, 11092833
    • Otto SP, Whitton J. Polyploid incidence and evolution. Annu Rev Genet 2000, 34:401-437. 10.1146/annurev.genet.34.1.401, 11092833.
    • (2000) Annu Rev Genet , vol.34 , pp. 401-437
    • Otto, S.P.1    Whitton, J.2
  • 9
    • 34848886909 scopus 로고    scopus 로고
    • The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla
    • The French-Italian Public Consortium for the grapevine genome characterization
    • The French-Italian Public Consortium for the grapevine genome characterization The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla. Nature 2007, 449(27):463-468. The French-Italian Public Consortium for the grapevine genome characterization.
    • (2007) Nature , vol.449 , Issue.27 , pp. 463-468
  • 10
    • 57149102681 scopus 로고    scopus 로고
    • Unraveling ancient hexaploidy through multiply-aligned angiosperm gene maps
    • 10.1101/gr.080978.108, 2593578, 18832442
    • Tang H, Wang X, Bowers JE, Ming R, Alam M, Paterson AH. Unraveling ancient hexaploidy through multiply-aligned angiosperm gene maps. Genome Res 2008, 18(12):1944-1954. 10.1101/gr.080978.108, 2593578, 18832442.
    • (2008) Genome Res , vol.18 , Issue.12 , pp. 1944-1954
    • Tang, H.1    Wang, X.2    Bowers, J.E.3    Ming, R.4    Alam, M.5    Paterson, A.H.6
  • 11
    • 2942620598 scopus 로고    scopus 로고
    • The roles of segmental and tandem gene duplication in the evolution of large gene families in Arabidopsis thaliana
    • 10.1186/1471-2229-4-10, 446195, 15171794
    • Cannon SB, Mitra A, Baumgarten A, Young ND, May G. The roles of segmental and tandem gene duplication in the evolution of large gene families in Arabidopsis thaliana. BMC Plant Biol 2004, 4:10. 10.1186/1471-2229-4-10, 446195, 15171794.
    • (2004) BMC Plant Biol , vol.4 , pp. 10
    • Cannon, S.B.1    Mitra, A.2    Baumgarten, A.3    Young, N.D.4    May, G.5
  • 12
    • 14744275073 scopus 로고    scopus 로고
    • Large-scale computational analysis of poplar ESTs reveals the repertoire and unique features of expressed genes in the poplar genome
    • Park S, Oh S, Han KH. Large-scale computational analysis of poplar ESTs reveals the repertoire and unique features of expressed genes in the poplar genome. Mol Breeding 2004, 14(4):429-440.
    • (2004) Mol Breeding , vol.14 , Issue.4 , pp. 429-440
    • Park, S.1    Oh, S.2    Han, K.H.3
  • 14
    • 33749137053 scopus 로고    scopus 로고
    • The monosaccharide transporter gene family in land plants is ancient and shows differential subfamily expression and expansion across lineages
    • 1479386, 16529655
    • Johnson DA, Hill JP, Thomas MA. The monosaccharide transporter gene family in land plants is ancient and shows differential subfamily expression and expansion across lineages. BMC Evol Biol 2006, 6(64):21. 1479386, 16529655.
    • (2006) BMC Evol Biol , vol.6 , Issue.64 , pp. 21
    • Johnson, D.A.1    Hill, J.P.2    Thomas, M.A.3
  • 15
    • 35348861423 scopus 로고    scopus 로고
    • Large-scale, lineage-specific expansion of a bric-a-brac/tramtrack/broad complex ubiquitin-ligase gene family in rice
    • 10.1105/tpc.107.051300, 2002615, 17720868
    • Gingerich DJ, Hanada K, Shiu SH, et al. Large-scale, lineage-specific expansion of a bric-a-brac/tramtrack/broad complex ubiquitin-ligase gene family in rice. Plant Cell 2007, 19(8):2329-2348. 10.1105/tpc.107.051300, 2002615, 17720868.
    • (2007) Plant Cell , vol.19 , Issue.8 , pp. 2329-2348
    • Gingerich, D.J.1    Hanada, K.2    Shiu, S.H.3
  • 16
    • 57749085421 scopus 로고    scopus 로고
    • Importance of lineage-specific expansion of plant tandem duplicates in the adaptive response to environmental stimuli
    • 10.1104/pp.108.122457, 2556807, 18715958
    • Hanada K, Zou C, Lehti-Shiu MD, Shinozaki K, Shiu SH. Importance of lineage-specific expansion of plant tandem duplicates in the adaptive response to environmental stimuli. Plant Physiol 2008, 148(2):993-1003. 10.1104/pp.108.122457, 2556807, 18715958.
    • (2008) Plant Physiol , vol.148 , Issue.2 , pp. 993-1003
    • Hanada, K.1    Zou, C.2    Lehti-Shiu, M.D.3    Shinozaki, K.4    Shiu, S.H.5
  • 17
    • 0032191746 scopus 로고    scopus 로고
    • The fate of duplicated genes: loss or new function?
    • 10.1002/(SICI)1521-1878(199810)20:10<785::AID-BIES2>;3.0.CO;2-M, 10200118
    • Wagner A. The fate of duplicated genes: loss or new function?. BioEssays 1998, 20(10):785-788. 10.1002/(SICI)1521-1878(199810)20:10<785::AID-BIES2>;3.0.CO;2-M, 10200118.
    • (1998) BioEssays , vol.20 , Issue.10 , pp. 785-788
    • Wagner, A.1
  • 18
  • 19
    • 54149092976 scopus 로고    scopus 로고
    • Multiple paleopolyploidizations during the evolution of the Compositae reveal parallel patterns of duplicate gene retention after millions of years
    • 10.1093/molbev/msn187, 2727391, 18728074
    • Barker MS, Kane NC, Matvienko M, Kozik A, Michelmore RW, Knapp SJ, Rieserberg LH. Multiple paleopolyploidizations during the evolution of the Compositae reveal parallel patterns of duplicate gene retention after millions of years. Mol Biol Evol 2008, 25(11):2445-2455. 10.1093/molbev/msn187, 2727391, 18728074.
    • (2008) Mol Biol Evol , vol.25 , Issue.11 , pp. 2445-2455
    • Barker, M.S.1    Kane, N.C.2    Matvienko, M.3    Kozik, A.4    Michelmore, R.W.5    Knapp, S.J.6    Rieserberg, L.H.7
  • 20
    • 0036890022 scopus 로고    scopus 로고
    • Rapid divergence in expression between duplicated gene inferred from microarray data
    • 10.1016/S0168-9525(02)02837-8, 12446139
    • Gu Z, Nicolae D, Lu HH, Li WH. Rapid divergence in expression between duplicated gene inferred from microarray data. Trends Genet 2002, 18(12):609-613. 10.1016/S0168-9525(02)02837-8, 12446139.
    • (2002) Trends Genet , vol.18 , Issue.12 , pp. 609-613
    • Gu, Z.1    Nicolae, D.2    Lu, H.H.3    Li, W.H.4
  • 21
    • 21344439563 scopus 로고    scopus 로고
    • Subfunctionalization of duplicated genes as a transition state to neofunctionalization
    • 10.1186/1471-2148-5-28, 1112588, 15831095
    • Rastogi S, Liberles DA. Subfunctionalization of duplicated genes as a transition state to neofunctionalization. BMC Evol Biol 2005, 5(1):28. 10.1186/1471-2148-5-28, 1112588, 15831095.
    • (2005) BMC Evol Biol , vol.5 , Issue.1 , pp. 28
    • Rastogi, S.1    Liberles, D.A.2
  • 23
    • 0000781703 scopus 로고
    • The origin of the Pomoideae
    • Sax K. The origin of the Pomoideae. Proc Amer Soc Hort Sci 1933, 30:147-150.
    • (1933) Proc Amer Soc Hort Sci , vol.30 , pp. 147-150
    • Sax, K.1
  • 24
    • 0036743062 scopus 로고    scopus 로고
    • The origin of the apple subfamily (Maloideae; Rosaceae) is clarified by DNA sequence data from duplicated GBSSI genes
    • Evans RC, Campbell CS. The origin of the apple subfamily (Maloideae; Rosaceae) is clarified by DNA sequence data from duplicated GBSSI genes. Am J Bot 2002, 89(9):1478-1484.
    • (2002) Am J Bot , vol.89 , Issue.9 , pp. 1478-1484
    • Evans, R.C.1    Campbell, C.S.2
  • 25
    • 3142700743 scopus 로고    scopus 로고
    • Widespread paleopolyploidy in model plant species inferred from age distributions of duplicated genes
    • 10.1105/tpc.021345, 514152, 15208399
    • Blanc G, Wolfe KH. Widespread paleopolyploidy in model plant species inferred from age distributions of duplicated genes. Plant Cell 2004, 16(7):1667-1678. 10.1105/tpc.021345, 514152, 15208399.
    • (2004) Plant Cell , vol.16 , Issue.7 , pp. 1667-1678
    • Blanc, G.1    Wolfe, K.H.2
  • 26
    • 2442712340 scopus 로고    scopus 로고
    • Mining EST databases to resolve evolutionary events in major crop species
    • 10.1139/g04-047, 15499401
    • Schlueter JA, Dixon P, Granger C, Grant D, Clark L, Doyle JJ, Shoemaker RC. Mining EST databases to resolve evolutionary events in major crop species. Genome 2004, 47(5):868-876. 10.1139/g04-047, 15499401.
    • (2004) Genome , vol.47 , Issue.5 , pp. 868-876
    • Schlueter, J.A.1    Dixon, P.2    Granger, C.3    Grant, D.4    Clark, L.5    Doyle, J.J.6    Shoemaker, R.C.7
  • 28
    • 84872364394 scopus 로고    scopus 로고
    • Genome Database for Rosaceae
    • Genome Database for Rosaceae. , http://www.bioinfo.wsu.edu/gdr/
  • 31
    • 33745960907 scopus 로고    scopus 로고
    • Identification of genes with potential roles in apple fruit development and biochemistry through large-scale statistical analysis of expressed sequence tags
    • 10.1104/pp.106.080994, 1489918, 16825339
    • Park S, Sugimoto N, Larson MD, Beaudry R, van Nocker S. Identification of genes with potential roles in apple fruit development and biochemistry through large-scale statistical analysis of expressed sequence tags. Plant Physiol 2006, 141(3):811-824. 10.1104/pp.106.080994, 1489918, 16825339.
    • (2006) Plant Physiol , vol.141 , Issue.3 , pp. 811-824
    • Park, S.1    Sugimoto, N.2    Larson, M.D.3    Beaudry, R.4    van Nocker, S.5
  • 32
    • 0030681260 scopus 로고    scopus 로고
    • The significance of digital gene expression profiles
    • Audic S, Claverie JM. The significance of digital gene expression profiles. Genome Res 1997, 7(10):986-995.
    • (1997) Genome Res , vol.7 , Issue.10 , pp. 986-995
    • Audic, S.1    Claverie, J.M.2
  • 33
    • 0001221327 scopus 로고
    • Inheritance of pollen enzymes and polyploid origin of apple (Malus × domestica Borkh.)
    • Chevreau E, Lespinasse Y, Gallet M. Inheritance of pollen enzymes and polyploid origin of apple (Malus × domestica Borkh.). Theor Appl Genet 1985, 71(2):268-277.
    • (1985) Theor Appl Genet , vol.71 , Issue.2 , pp. 268-277
    • Chevreau, E.1    Lespinasse, Y.2    Gallet, M.3
  • 34
    • 0034634395 scopus 로고    scopus 로고
    • The evolutionary fate and consequences of duplicate genes
    • 10.1126/science.290.5494.1151, 11073452
    • Lynch M, Conery JS. The evolutionary fate and consequences of duplicate genes. Science 2000, 290(5494):1151-1155. 10.1126/science.290.5494.1151, 11073452.
    • (2000) Science , vol.290 , Issue.5494 , pp. 1151-1155
    • Lynch, M.1    Conery, J.S.2
  • 35
    • 0033804889 scopus 로고    scopus 로고
    • Comparative evolutionary analysis of chalcone synthase and alcohol dehydrogenase loci in Arabidopsis, Arabis, and related genera (Brassicaceae)
    • Koch MA, Haubold B, Mitchell-Olds T. Comparative evolutionary analysis of chalcone synthase and alcohol dehydrogenase loci in Arabidopsis, Arabis, and related genera (Brassicaceae). Mol Biol Evol 2000, 17(10):1483-1498.
    • (2000) Mol Biol Evol , vol.17 , Issue.10 , pp. 1483-1498
    • Koch, M.A.1    Haubold, B.2    Mitchell-Olds, T.3
  • 36
    • 34547788846 scopus 로고    scopus 로고
    • A brief review of the fossil history of the family Rosaceae with a focus on the Eocene Okanogan Highlands of eastern Washington State, USA, and British Columbia, Canada
    • DeVore ML, Pigg KB. A brief review of the fossil history of the family Rosaceae with a focus on the Eocene Okanogan Highlands of eastern Washington State, USA, and British Columbia, Canada. Plant Syst Evol 2007, 266(1-2):45-57.
    • (2007) Plant Syst Evol , vol.266 , Issue.1-2 , pp. 45-57
    • DeVore, M.L.1    Pigg, K.B.2
  • 37
    • 60849121440 scopus 로고    scopus 로고
    • Reconsidering the generation time hypothesis based on nuclear ribosomal ITS sequence comparisons in annual and perennial angiosperms
    • 10.1186/1471-2148-8-344, 2637270, 19113991
    • Soria-Hernanz DF, Fiz-Palacios O, Braverman JM, Hamilton MB. Reconsidering the generation time hypothesis based on nuclear ribosomal ITS sequence comparisons in annual and perennial angiosperms. BMC Evol Biol 2008, 8:344. 10.1186/1471-2148-8-344, 2637270, 19113991.
    • (2008) BMC Evol Biol , vol.8 , pp. 344
    • Soria-Hernanz, D.F.1    Fiz-Palacios, O.2    Braverman, J.M.3    Hamilton, M.B.4
  • 40
    • 57149089296 scopus 로고    scopus 로고
    • Finding and comparing syntenic regions among Arabidopsis and the outgroups papaya, poplar, and grape: CoGe with rosids
    • 10.1104/pp.108.124867, 2593677, 18952863
    • Lyons E, Pedersen B, Kane J, Alam M, Ming R, Tang H, Wang X, Bowers J, Paterson A, Lisch D, Freeling M. Finding and comparing syntenic regions among Arabidopsis and the outgroups papaya, poplar, and grape: CoGe with rosids. Plant Physiol 2008, 148(4):1772-1781. 10.1104/pp.108.124867, 2593677, 18952863.
    • (2008) Plant Physiol , vol.148 , Issue.4 , pp. 1772-1781
    • Lyons, E.1    Pedersen, B.2    Kane, J.3    Alam, M.4    Ming, R.5    Tang, H.6    Wang, X.7    Bowers, J.8    Paterson, A.9    Lisch, D.10    Freeling, M.11
  • 41
    • 0036726239 scopus 로고    scopus 로고
    • Patterns of nucleotide substitution among simultaneously duplicated gene pairs in Arabidopsis thaliana
    • Zhang L, Vision TJ, Gaut BS. Patterns of nucleotide substitution among simultaneously duplicated gene pairs in Arabidopsis thaliana. Mol Biol Evol 2002, 19(9):1464-1473.
    • (2002) Mol Biol Evol , vol.19 , Issue.9 , pp. 1464-1473
    • Zhang, L.1    Vision, T.J.2    Gaut, B.S.3
  • 43
    • 0031924363 scopus 로고    scopus 로고
    • The frequency distribution of gene family sizes in complete genomes
    • Huynen MA, van Nimwegen E. The frequency distribution of gene family sizes in complete genomes. Mol Biol Evol 1998, 15(5):583-589.
    • (1998) Mol Biol Evol , vol.15 , Issue.5 , pp. 583-589
    • Huynen, M.A.1    van Nimwegen, E.2
  • 44
    • 41949093234 scopus 로고    scopus 로고
    • The power-law distribution of gene family size is driven by the pseudogenisation rate's heterogeneity between gene families
    • 10.1016/j.gene.2008.02.014, 18378100
    • Hughes T, Liberles DA. The power-law distribution of gene family size is driven by the pseudogenisation rate's heterogeneity between gene families. Gene 2008, 414(1-2):85-94. 10.1016/j.gene.2008.02.014, 18378100.
    • (2008) Gene , vol.414 , Issue.1-2 , pp. 85-94
    • Hughes, T.1    Liberles, D.A.2
  • 45
    • 0037841804 scopus 로고    scopus 로고
    • Evolution of the protein repertoire
    • 10.1126/science.1085371, 12805536
    • Chothia C, Gough J, Vogel C, Teichmann SA. Evolution of the protein repertoire. Science 2003, 300(5626):1701-1703. 10.1126/science.1085371, 12805536.
    • (2003) Science , vol.300 , Issue.5626 , pp. 1701-1703
    • Chothia, C.1    Gough, J.2    Vogel, C.3    Teichmann, S.A.4
  • 46
    • 0034649566 scopus 로고    scopus 로고
    • Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
    • 10.1038/35048692, 11130711, Arabidopsis Genome Initiative
    • Arabidopsis Genome Initiative Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 2000, 408(6814):796-815. 10.1038/35048692, 11130711, Arabidopsis Genome Initiative.
    • (2000) Nature , vol.408 , Issue.6814 , pp. 796-815
  • 48
    • 0035909867 scopus 로고    scopus 로고
    • Plant receptor-like kinase gene family: diversity, function, and signaling
    • Shiu SH, Bleecker AB. Plant receptor-like kinase gene family: diversity, function, and signaling. Sci STKE 2001, 18(113):RE22.
    • (2001) Sci STKE , vol.18 , Issue.113
    • Shiu, S.H.1    Bleecker, A.B.2
  • 49
    • 0034763215 scopus 로고    scopus 로고
    • Plant MAP kinase pathways: how many and what for?
    • 10.1016/S0248-4900(01)01121-2, 11730326
    • Wrzaczek M, Hirt H. Plant MAP kinase pathways: how many and what for?. Biol Cell 2001, 93(1-2):81-87. 10.1016/S0248-4900(01)01121-2, 11730326.
    • (2001) Biol Cell , vol.93 , Issue.1-2 , pp. 81-87
    • Wrzaczek, M.1    Hirt, H.2
  • 50
    • 13844322067 scopus 로고    scopus 로고
    • Cytochrome P450: nature's most versatile biological catalyst
    • 10.1146/annurev.pharmtox.45.120403.100030, 15832443
    • Coon MJ. Cytochrome P450: nature's most versatile biological catalyst. Annu Rev Pharmacol Toxicol 2005, 45:1-25. 10.1146/annurev.pharmtox.45.120403.100030, 15832443.
    • (2005) Annu Rev Pharmacol Toxicol , vol.45 , pp. 1-25
    • Coon, M.J.1
  • 51
    • 33745040554 scopus 로고    scopus 로고
    • Plant NBS-LRR proteins: adaptable guards
    • 10.1186/gb-2006-7-4-212, 1557992, 16677430
    • McHale L, Tan X, Koehl P, Michelmore RW. Plant NBS-LRR proteins: adaptable guards. Genome Biol 2006, 7(4):212. 10.1186/gb-2006-7-4-212, 1557992, 16677430.
    • (2006) Genome Biol , vol.7 , Issue.4 , pp. 212
    • McHale, L.1    Tan, X.2    Koehl, P.3    Michelmore, R.W.4
  • 52
    • 67651039811 scopus 로고    scopus 로고
    • Bias in plant gene content following different sorts of duplication: tandem, whole-genome, segmental, or by transposition
    • 10.1146/annurev.arplant.043008.092122, 19575588
    • Freeling M. Bias in plant gene content following different sorts of duplication: tandem, whole-genome, segmental, or by transposition. Annu Rev Plant Biol 2009, 60:433-453. 10.1146/annurev.arplant.043008.092122, 19575588.
    • (2009) Annu Rev Plant Biol , vol.60 , pp. 433-453
    • Freeling, M.1
  • 53
    • 70349682921 scopus 로고    scopus 로고
    • Gene and genome duplications: the impact of dosage-sensitivity on the fate of nuclear genes
    • 10.1007/s10577-009-9055-9, 19802709
    • Edger PP, Pires JC. Gene and genome duplications: the impact of dosage-sensitivity on the fate of nuclear genes. Chromosome Res 2009, 17(5):699-717. 10.1007/s10577-009-9055-9, 19802709.
    • (2009) Chromosome Res , vol.17 , Issue.5 , pp. 699-717
    • Edger, P.P.1    Pires, J.C.2
  • 54
    • 33745617700 scopus 로고    scopus 로고
    • Following tetraploidy in an Arabidopsis ancestor, genes were removed preferentially from one homeolog leaving clusters enriched in dose-sensitive genes
    • 10.1101/gr.4708406, 1484460, 16760422
    • Thomas BC, Pedersen B, Freeling M. Following tetraploidy in an Arabidopsis ancestor, genes were removed preferentially from one homeolog leaving clusters enriched in dose-sensitive genes. Genome Res 2006, 16(7):934-46. 10.1101/gr.4708406, 1484460, 16760422.
    • (2006) Genome Res , vol.16 , Issue.7 , pp. 934-946
    • Thomas, B.C.1    Pedersen, B.2    Freeling, M.3
  • 55
    • 57149120510 scopus 로고    scopus 로고
    • Many or most genes in Arabidopsis transposed after the origin of the order Brassicales
    • 10.1101/gr.081026.108, 2593585, 18836034
    • Freeling M, Lyons E, Pedersen B, Alam M, Ming R, Lisch D. Many or most genes in Arabidopsis transposed after the origin of the order Brassicales. Genome Res 2008, 18(12):1924-1937. 10.1101/gr.081026.108, 2593585, 18836034.
    • (2008) Genome Res , vol.18 , Issue.12 , pp. 1924-1937
    • Freeling, M.1    Lyons, E.2    Pedersen, B.3    Alam, M.4    Ming, R.5    Lisch, D.6
  • 56
    • 33646945632 scopus 로고    scopus 로고
    • Abundantly and rarely expressed Lhc protein genes exhibit distinct regulation patterns in plants
    • 10.1104/pp.105.073304, 1400566, 16524980
    • Klimmek F, Sjödin A, Noutsos C, Leister D, Jansson S. Abundantly and rarely expressed Lhc protein genes exhibit distinct regulation patterns in plants. Plant Physiol 2006, 140(3):793-804. 10.1104/pp.105.073304, 1400566, 16524980.
    • (2006) Plant Physiol , vol.140 , Issue.3 , pp. 793-804
    • Klimmek, F.1    Sjödin, A.2    Noutsos, C.3    Leister, D.4    Jansson, S.5
  • 57
    • 36248982734 scopus 로고    scopus 로고
    • Differential expansion and expression of alpha- and beta-tubulin gene families in Populus
    • 10.1104/pp.107.107086, 2048781, 17885081
    • Oakley RV, Wang YS, Ramakrishna W, Harding SA, Tsai CJ. Differential expansion and expression of alpha- and beta-tubulin gene families in Populus. Plant Physiol 2007, 145(3):961-973. 10.1104/pp.107.107086, 2048781, 17885081.
    • (2007) Plant Physiol , vol.145 , Issue.3 , pp. 961-973
    • Oakley, R.V.1    Wang, Y.S.2    Ramakrishna, W.3    Harding, S.A.4    Tsai, C.J.5
  • 58
    • 39749142082 scopus 로고    scopus 로고
    • Analysis of the Arabidopsis cytosolic ribosome proteome provides detailed insights into its components and their post-translational modification
    • Carroll AJ, Heazlewood JL, Ito J, Millar AH. Analysis of the Arabidopsis cytosolic ribosome proteome provides detailed insights into its components and their post-translational modification. Mol Cell Proteomics 2008, 7(2):347-69.
    • (2008) Mol Cell Proteomics , vol.7 , Issue.2 , pp. 347-369
    • Carroll, A.J.1    Heazlewood, J.L.2    Ito, J.3    Millar, A.H.4
  • 59
    • 70349669222 scopus 로고    scopus 로고
    • Transcript profiling provides evidence of functional divergence and expression networks among ribosomal protein gene paralogs in Brassica napus
    • 10.1105/tpc.109.068411, 2751962, 19706795
    • Whittle CA, Krochko JE. Transcript profiling provides evidence of functional divergence and expression networks among ribosomal protein gene paralogs in Brassica napus. Plant Cell 2009, 21(8):2203-19. 10.1105/tpc.109.068411, 2751962, 19706795.
    • (2009) Plant Cell , vol.21 , Issue.8 , pp. 2203-2219
    • Whittle, C.A.1    Krochko, J.E.2
  • 60
    • 0242383977 scopus 로고    scopus 로고
    • Retention of enzyme gene duplicates by subfunctionalization
    • 10.1016/S0141-8130(03)00059-X, 14599579
    • Braun FN, Liberles DA. Retention of enzyme gene duplicates by subfunctionalization. Int J Biol Macromol 2003, 33(1-3):19-22. 10.1016/S0141-8130(03)00059-X, 14599579.
    • (2003) Int J Biol Macromol , vol.33 , Issue.1-3 , pp. 19-22
    • Braun, F.N.1    Liberles, D.A.2
  • 61
    • 3142732892 scopus 로고    scopus 로고
    • Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution
    • 10.1105/tpc.160710, 514149, 15272471
    • Blanc G, Wolfe KH. Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution. Plant Cell 2004, 16(7):1647-1659. 10.1105/tpc.160710, 514149, 15272471.
    • (2004) Plant Cell , vol.16 , Issue.7 , pp. 1647-1659
    • Blanc, G.1    Wolfe, K.H.2
  • 62
    • 30744464824 scopus 로고    scopus 로고
    • Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis
    • 10.1093/molbev/msj051, 16280546
    • Duarte JM, Cui L, Wall PK, Zhang Q, Zhang X, Leebens-Mack J, Ma H, Altman N, dePamphilis CW. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol Biol Evol 2006, 23(2):469-478. 10.1093/molbev/msj051, 16280546.
    • (2006) Mol Biol Evol , vol.23 , Issue.2 , pp. 469-478
    • Duarte, J.M.1    Cui, L.2    Wall, P.K.3    Zhang, Q.4    Zhang, X.5    Leebens-Mack, J.6    Ma, H.7    Altman, N.8    dePamphilis, C.W.9
  • 64
    • 67650915748 scopus 로고    scopus 로고
    • Gene duplication and evolutionary novelty in plants
    • 10.1111/j.1469-8137.2009.02923.x, 19555435
    • Flagel LE, Wendel JF. Gene duplication and evolutionary novelty in plants. New Phytol 2009, 183(3):557-564. 10.1111/j.1469-8137.2009.02923.x, 19555435.
    • (2009) New Phytol , vol.183 , Issue.3 , pp. 557-564
    • Flagel, L.E.1    Wendel, J.F.2
  • 65
    • 58249105076 scopus 로고    scopus 로고
    • Altered circadian rhythms regulate growth vigor in hybrids and allopolyploids
    • 10.1038/nature07523, 2679702, 19029881
    • Ni Z, Kim ED, Ha M, Lackey E, Liu J, Zhang Y, Sun Q, Chen ZJ. Altered circadian rhythms regulate growth vigor in hybrids and allopolyploids. Nature 2009, 457(7227):327-331. 10.1038/nature07523, 2679702, 19029881.
    • (2009) Nature , vol.457 , Issue.7227 , pp. 327-331
    • Ni, Z.1    Kim, E.D.2    Ha, M.3    Lackey, E.4    Liu, J.5    Zhang, Y.6    Sun, Q.7    Chen, Z.J.8
  • 66
    • 0001098169 scopus 로고
    • The Eocene North Atlantic land bridge: its importance in the Tertiary and modern phytogeography of the northern hemisphere
    • Tiffney BH. The Eocene North Atlantic land bridge: its importance in the Tertiary and modern phytogeography of the northern hemisphere. J Arnold Arbor 1985, 66:243-263.
    • (1985) J Arnold Arbor , vol.66 , pp. 243-263
    • Tiffney, B.H.1
  • 67
    • 17844382727 scopus 로고    scopus 로고
    • Phylogenetic and phytogeographycal relationships in Maloideae (Rosaceae) based on morphological and anatomical characters
    • Aldasoro JJ, Aedo C, Navarro C. Phylogenetic and phytogeographycal relationships in Maloideae (Rosaceae) based on morphological and anatomical characters. Blumea 2005, 50:3-32.
    • (2005) Blumea , vol.50 , pp. 3-32
    • Aldasoro, J.J.1    Aedo, C.2    Navarro, C.3
  • 68
    • 0000140932 scopus 로고    scopus 로고
    • A paleobotanical interpretation of the Tertiary climate in the northern hemisphere
    • Wolfe JA. A paleobotanical interpretation of the Tertiary climate in the northern hemisphere. American Scientist 66:694-703.
    • American Scientist , vol.66 , pp. 694-703
    • Wolfe, J.A.1
  • 69
    • 34347208342 scopus 로고    scopus 로고
    • Variation in cold hardiness and carbohydrate concentration from dormancy induction to bud burst among provenances of three European oak species
    • Morin X, Améglio T, Ahas R, Kurz-Besson C, Lanta V, Lebourgeois F, Miglietta F, Chuine I. Variation in cold hardiness and carbohydrate concentration from dormancy induction to bud burst among provenances of three European oak species. Tree Physiol 2007, 27(6):817-825.
    • (2007) Tree Physiol , vol.27 , Issue.6 , pp. 817-825
    • Morin, X.1    Améglio, T.2    Ahas, R.3    Kurz-Besson, C.4    Lanta, V.5    Lebourgeois, F.6    Miglietta, F.7    Chuine, I.8
  • 70
    • 34250177304 scopus 로고    scopus 로고
    • Transcript and metabolite profiling during cold acclimation of Arabidopsis reveals an intricate relationship of cold-regulated gene expression with modifications in metabolite content
    • 10.1111/j.1365-313X.2007.03100.x, 17461790
    • Kaplan F, Kopka J, Sung DY, Zhao W, Popp M, Porat R, Guy CL. Transcript and metabolite profiling during cold acclimation of Arabidopsis reveals an intricate relationship of cold-regulated gene expression with modifications in metabolite content. Plant J 2007, 50(6):967-981. 10.1111/j.1365-313X.2007.03100.x, 17461790.
    • (2007) Plant J , vol.50 , Issue.6 , pp. 967-981
    • Kaplan, F.1    Kopka, J.2    Sung, D.Y.3    Zhao, W.4    Popp, M.5    Porat, R.6    Guy, C.L.7
  • 71
    • 53549126960 scopus 로고    scopus 로고
    • Changes in carbohydrates, ABA and bark proteins during seasonal cold acclimation and deacclimation in Hydrangea species differing in cold hardiness
    • 10.1111/j.1399-3054.2008.01154.x, 18636985
    • Pagter M, Jensen CR, Petersen KK, Liu F, Arora R. Changes in carbohydrates, ABA and bark proteins during seasonal cold acclimation and deacclimation in Hydrangea species differing in cold hardiness. Physiol Plant 2008, 134(3):473-485. 10.1111/j.1399-3054.2008.01154.x, 18636985.
    • (2008) Physiol Plant , vol.134 , Issue.3 , pp. 473-485
    • Pagter, M.1    Jensen, C.R.2    Petersen, K.K.3    Liu, F.4    Arora, R.5
  • 73
    • 77951511718 scopus 로고
    • Carbohydrate sources and sinks in woody plants
    • Kozlowski TT. Carbohydrate sources and sinks in woody plants. Bot Rev 1992, 58(2):107-122.
    • (1992) Bot Rev , vol.58 , Issue.2 , pp. 107-122
    • Kozlowski, T.T.1
  • 74
    • 0036923686 scopus 로고    scopus 로고
    • Comparison of temperate and tropical rainforest tree species: photosynthetic response to growth temperature
    • Cunningham SC, Read J. Comparison of temperate and tropical rainforest tree species: photosynthetic response to growth temperature. Oecologia 2002, 133:112-119.
    • (2002) Oecologia , vol.133 , pp. 112-119
    • Cunningham, S.C.1    Read, J.2
  • 75
    • 65249143921 scopus 로고    scopus 로고
    • Plants with double genomes might have had a better chance to survive the Cretaceous-Tertiary extinction event
    • 10.1073/pnas.0900906106, 2667025, 19325131
    • Fawcett JA, Maere S, Peer Y. Plants with double genomes might have had a better chance to survive the Cretaceous-Tertiary extinction event. Proc Natl Acad Sci USA 2009, 106(14):5737-5742. 10.1073/pnas.0900906106, 2667025, 19325131.
    • (2009) Proc Natl Acad Sci USA , vol.106 , Issue.14 , pp. 5737-5742
    • Fawcett, J.A.1    Maere, S.2    Peer, Y.3
  • 76
    • 70349325524 scopus 로고    scopus 로고
    • The evolutionary significance of ancient genome duplications
    • 10.1038/nrg2600, 19652647
    • Peer Y, Maere S, Meyer A. The evolutionary significance of ancient genome duplications. Nat Rev Genet 2009, 10(10):725-732. 10.1038/nrg2600, 19652647.
    • (2009) Nat Rev Genet , vol.10 , Issue.10 , pp. 725-732
    • Peer, Y.1    Maere, S.2    Meyer, A.3
  • 77
    • 40849085290 scopus 로고    scopus 로고
    • A retrotransposon-mediated gene duplication underlies morphological variation of tomato fruit
    • 10.1126/science.1153040, 18339939
    • Xiao H, Jiang N, Schaffner E, Stockinger EJ, Knaap E. A retrotransposon-mediated gene duplication underlies morphological variation of tomato fruit. Science 2008, 319(5869):1527-1530. 10.1126/science.1153040, 18339939.
    • (2008) Science , vol.319 , Issue.5869 , pp. 1527-1530
    • Xiao, H.1    Jiang, N.2    Schaffner, E.3    Stockinger, E.J.4    Knaap, E.5
  • 78
    • 74049118261 scopus 로고    scopus 로고
    • Large-scale assignment of orthology: back to phylogenetics?
    • 10.1186/gb-2008-9-10-235, 2760865, 18983710
    • Gabaldón T. Large-scale assignment of orthology: back to phylogenetics?. Genome Biol 2008, 9(10):235. 10.1186/gb-2008-9-10-235, 2760865, 18983710.
    • (2008) Genome Biol , vol.9 , Issue.10 , pp. 235
    • Gabaldón, T.1
  • 79
    • 84871112211 scopus 로고    scopus 로고
    • The Gene Index Project
    • The Gene Index Project. , http://compbio.dfci.harvard.edu/tgi/software/
  • 80
    • 0033965855 scopus 로고    scopus 로고
    • The TIGR Gene Indices: reconstruction and representation of expressed gene sequences
    • 10.1093/nar/28.1.141, 102391, 10592205
    • Quackenbush J, Liang F, Holt I, Pertea G, Upton J. The TIGR Gene Indices: reconstruction and representation of expressed gene sequences. Nucleic Acids Res 2000, 28(1):141-145. 10.1093/nar/28.1.141, 102391, 10592205.
    • (2000) Nucleic Acids Res , vol.28 , Issue.1 , pp. 141-145
    • Quackenbush, J.1    Liang, F.2    Holt, I.3    Pertea, G.4    Upton, J.5
  • 81
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
    • 10.1093/nar/25.17.3389, 146917, 9254694
    • Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997, 25(17):3389-3402. 10.1093/nar/25.17.3389, 146917, 9254694.
    • (1997) Nucleic Acids Res , vol.25 , Issue.17 , pp. 3389-3402
    • Altschul, S.F.1    Madden, T.L.2    Schäffer, A.A.3    Zhang, J.4    Zhang, Z.5    Miller, W.6    Lipman, D.J.7
  • 82
    • 2442713832 scopus 로고    scopus 로고
    • GeneWise and Genomewise
    • 10.1101/gr.1865504, 479130, 15123596
    • Birney E, Clamp M, Durbin R. GeneWise and Genomewise. Genome Res 2004, 14(5):988-995. 10.1101/gr.1865504, 479130, 15123596.
    • (2004) Genome Res , vol.14 , Issue.5 , pp. 988-995
    • Birney, E.1    Clamp, M.2    Durbin, R.3
  • 83
    • 0027968068 scopus 로고
    • CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
    • 10.1093/nar/22.22.4673, 308517, 7984417
    • Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994, 22(22):4673-4680. 10.1093/nar/22.22.4673, 308517, 7984417.
    • (1994) Nucleic Acids Res , vol.22 , Issue.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 84
    • 0028168856 scopus 로고
    • A codon-based model of nucleotide substitution for protein-coding DNA sequences
    • Goldman N, Yang Z. A codon-based model of nucleotide substitution for protein-coding DNA sequences. Mol Biol Evol 1994, 11(5):725-736.
    • (1994) Mol Biol Evol , vol.11 , Issue.5 , pp. 725-736
    • Goldman, N.1    Yang, Z.2
  • 85
    • 0030683599 scopus 로고    scopus 로고
    • PAML: a program package for phylogenetic analysis by maximum likelihood
    • Yang Z. PAML: a program package for phylogenetic analysis by maximum likelihood. Comput Appl Biosci 1997, 13(5):555-556.
    • (1997) Comput Appl Biosci , vol.13 , Issue.5 , pp. 555-556
    • Yang, Z.1
  • 86
    • 34547781750 scopus 로고    scopus 로고
    • MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0
    • 10.1093/molbev/msm092, 17488738
    • Tamura K, Dudley J, Nei M, Kumar S. MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 2007, 24(8):1596-1599. 10.1093/molbev/msm092, 17488738.
    • (2007) Mol Biol Evol , vol.24 , Issue.8 , pp. 1596-1599
    • Tamura, K.1    Dudley, J.2    Nei, M.3    Kumar, S.4
  • 87
    • 0041386108 scopus 로고    scopus 로고
    • MrBayes 3: Bayesian phylogenetic inference under mixed models
    • 10.1093/bioinformatics/btg180, 12912839
    • Ronquist F, Huelsenbeck JP. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 2003, 19(12):1572-4. 10.1093/bioinformatics/btg180, 12912839.
    • (2003) Bioinformatics , vol.19 , Issue.12 , pp. 1572-1574
    • Ronquist, F.1    Huelsenbeck, J.P.2
  • 88
    • 0030203863 scopus 로고    scopus 로고
    • TreeView: an application to display phylogenetic trees on personal computers
    • Page RD. TreeView: an application to display phylogenetic trees on personal computers. Comput Appl Biosci 1996, 12(4):357-358.
    • (1996) Comput Appl Biosci , vol.12 , Issue.4 , pp. 357-358
    • Page, R.D.1
  • 89
    • 84870438764 scopus 로고    scopus 로고
    • The Gene Ontology
    • The Gene Ontology. , http://www.geneontology.org/
  • 90
    • 24644503098 scopus 로고    scopus 로고
    • Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research
    • 10.1093/bioinformatics/bti610, 16081474
    • Conesa A, Götz S, García-Gómez JM, Terol J, Talón M, Robles M. Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics 2005, 21(18):3674-3676. 10.1093/bioinformatics/bti610, 16081474.
    • (2005) Bioinformatics , vol.21 , Issue.18 , pp. 3674-3676
    • Conesa, A.1    Götz, S.2    García-Gómez, J.M.3    Terol, J.4    Talón, M.5    Robles, M.6
  • 92
    • 33747860914 scopus 로고    scopus 로고
    • Additional gene ontology structure for improved biological reasoning
    • 10.1093/bioinformatics/btl334, 16787968
    • Myhre S, Tveit H, Mollestad T, Laegreid A. Additional gene ontology structure for improved biological reasoning. Bioinformatics 2006, 22(16):2020-2027. 10.1093/bioinformatics/btl334, 16787968.
    • (2006) Bioinformatics , vol.22 , Issue.16 , pp. 2020-2027
    • Myhre, S.1    Tveit, H.2    Mollestad, T.3    Laegreid, A.4
  • 93
    • 42149175948 scopus 로고    scopus 로고
    • Whole-genome analysis reveals molecular innovations and evolutionary transitions in chromalveolate species
    • 10.1073/pnas.0712248105, 2265158, 18299576
    • Martens C, Vandepoele K, Peer Y. Whole-genome analysis reveals molecular innovations and evolutionary transitions in chromalveolate species. Proc Natl Acad Sci USA 2008, 105(9):3427-3432. 10.1073/pnas.0712248105, 2265158, 18299576.
    • (2008) Proc Natl Acad Sci USA , vol.105 , Issue.9 , pp. 3427-3432
    • Martens, C.1    Vandepoele, K.2    Peer, Y.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.