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Volumn 16, Issue 7, 2006, Pages 934-946

Following tetraploidy in an Arabidopsis ancestor, genes were removed preferentially from one homeolog leaving clusters enriched in dose-sensitive genes

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EID: 33745617700     PISSN: 10889051     EISSN: 15495469     Source Type: Journal    
DOI: 10.1101/gr.4708406     Document Type: Article
Times cited : (362)

References (57)
  • 1
    • 11244349782 scopus 로고    scopus 로고
    • Organ-specific silencing of duplicated genes in a newly synthesized cotton allotetraploid
    • Adams, K.L., Percifield, R., and Wendel, J.F. 2004. Organ-specific silencing of duplicated genes in a newly synthesized cotton allotetraploid. Genetics 168: 2217-2226.
    • (2004) Genetics , vol.168 , pp. 2217-2226
    • Adams, K.L.1    Percifield, R.2    Wendel, J.F.3
  • 2
    • 0034649566 scopus 로고    scopus 로고
    • Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
    • The Arabidopsis Genome Initiative. 2000. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408: 796-815.
    • (2000) Nature , vol.408 , pp. 796-815
  • 3
    • 0032004775 scopus 로고    scopus 로고
    • Matrix attachment regions and structural collinearity in the genomes of two grass species
    • Avramova, Z., Tikhonov, A., Chen, M., and Bennetzen, J.L. 1998. Matrix attachment regions and structural collinearity in the genomes of two grass species. Nucleic Acids Res. 26: 761-767.
    • (1998) Nucleic Acids Res. , vol.26 , pp. 761-767
    • Avramova, Z.1    Tikhonov, A.2    Chen, M.3    Bennetzen, J.L.4
  • 4
    • 15244350824 scopus 로고    scopus 로고
    • Dosage balance in gene regulation: Biological implications
    • Birchler, J.A., Riddle, N.C., Auger, D.L., and Veitia, R.A. 2005. Dosage balance in gene regulation: Biological implications. Trends Genet. 21: 219-226.
    • (2005) Trends Genet. , vol.21 , pp. 219-226
    • Birchler, J.A.1    Riddle, N.C.2    Auger, D.L.3    Veitia, R.A.4
  • 5
    • 3142700743 scopus 로고    scopus 로고
    • Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes
    • Blanc, G. and Wolfe, K.H. 2004. Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes. Plant Cell 16: 1667-1678.
    • (2004) Plant Cell , vol.16 , pp. 1667-1678
    • Blanc, G.1    Wolfe, K.H.2
  • 6
    • 0033891353 scopus 로고    scopus 로고
    • Extensive duplication and reshuffling in the Arabidopsis genome
    • Blanc, G. Barakat, A., Guyot, R., Cooke, R., and Delseny, M. 2000. Extensive duplication and reshuffling in the Arabidopsis genome. Plant Cell 12: 1093-1101.
    • (2000) Plant Cell , vol.12 , pp. 1093-1101
    • Blanc, G.1    Barakat, A.2    Guyot, R.3    Cooke, R.4    Delseny, M.5
  • 7
    • 0037313579 scopus 로고    scopus 로고
    • A recent polyploidy superimposed on older large-scale duplications in the Arabidopsis genome
    • Blanc, G., Hokamp, K., and Wolfe, K.H. 2003. A recent polyploidy superimposed on older large-scale duplications in the Arabidopsis genome. Genome Res. 13: 137-144.
    • (2003) Genome Res. , vol.13 , pp. 137-144
    • Blanc, G.1    Hokamp, K.2    Wolfe, K.H.3
  • 8
    • 0037468758 scopus 로고    scopus 로고
    • Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events
    • Bowers, J.E., Chapman, B.A., Rong, J., and Paterson, A.H. 2003. Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events. Nature 422: 433-438.
    • (2003) Nature , vol.422 , pp. 433-438
    • Bowers, J.E.1    Chapman, B.A.2    Rong, J.3    Paterson, A.H.4
  • 9
    • 33646859550 scopus 로고    scopus 로고
    • Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana
    • Casneuf, T., De Bodt, S., Raes, J., Maere, S., and Van de Peer, Y. 2006. Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana. Genome Biol. 7: R13.
    • (2006) Genome Biol. , vol.7
    • Casneuf, T.1    De Bodt, S.2    Raes, J.3    Maere, S.4    Van De Peer, Y.5
  • 10
    • 1042269474 scopus 로고    scopus 로고
    • A comparative phylogenetic approach for dating whole genome duplication events
    • Chapman, B.A., Bowers, J.E., Schultz, S.R., and Paterson, A.H. 2004. A comparative phylogenetic approach for dating whole genome duplication events. Bioinformatics 20: 180-185.
    • (2004) Bioinformatics , vol.20 , pp. 180-185
    • Chapman, B.A.1    Bowers, J.E.2    Schultz, S.R.3    Paterson, A.H.4
  • 11
    • 33644499450 scopus 로고    scopus 로고
    • Buffering of crucial functions by paleologous duplicated genes may contribute cyclicality to angiosperm genome duplication
    • Chapman, B.A., Bowers, J.E., Feltus, F.A., and Paterson, A.H. 2006. Buffering of crucial functions by paleologous duplicated genes may contribute cyclicality to angiosperm genome duplication. Proc. Natl. Acad. Sci. 103: 2730-2735.
    • (2006) Proc. Natl. Acad. Sci. , vol.103 , pp. 2730-2735
    • Chapman, B.A.1    Bowers, J.E.2    Feltus, F.A.3    Paterson, A.H.4
  • 12
    • 33646230540 scopus 로고    scopus 로고
    • Functional partitioning of yeast co-expression networks after genome duplication
    • Conant, G.C. and Wolfe, K.H. 2006. Functional partitioning of yeast co-expression networks after genome duplication. PLoS Biol. 4: e109.
    • (2006) PLoS Biol. , vol.4
    • Conant, G.C.1    Wolfe, K.H.2
  • 13
    • 0032893932 scopus 로고    scopus 로고
    • Preservation of duplicate genes by complementary, degenerative mutations
    • Force, A., Lynch, M., Pickett, F.B., Amores, A., Yan, Y.L., and Postlethwait, J. 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    Postlethwait, J.6
  • 14
    • 33745610025 scopus 로고    scopus 로고
    • Gene-balanced duplications, like tetraploidy, provide predictable drive to increase morphological complexity
    • Freeling, M. and Thomas, B.C. 2006. Gene-balanced duplications, like tetraploidy, provide predictable drive to increase morphological complexity. Genome Res. (this issue).
    • (2006) Genome Res. , Issue.THIS ISSUE
    • Freeling, M.1    Thomas, B.C.2
  • 15
    • 8844244033 scopus 로고    scopus 로고
    • Very low gene duplication rate in the yeast genome
    • Gao, L.Z. and Innan, H. 2004. Very low gene duplication rate in the yeast genome. Science 306: 1367-1370.
    • (2004) Science , vol.306 , pp. 1367-1370
    • Gao, L.Z.1    Innan, H.2
  • 16
    • 0037372327 scopus 로고    scopus 로고
    • A significant fraction of conserved noncoding DNA in human and mouse consists of predicted matrix attachment regions
    • Glazko, G.V., Koonin, E.V., Rogozin, I.B., and Shabalina, S.A. 2003. A significant fraction of conserved noncoding DNA in human and mouse consists of predicted matrix attachment regions. Trends Genet. 19: 119-124.
    • (2003) Trends Genet. , vol.19 , pp. 119-124
    • Glazko, G.V.1    Koonin, E.V.2    Rogozin, I.B.3    Shabalina, S.A.4
  • 17
    • 0346727127 scopus 로고    scopus 로고
    • Protein degradation and protection against misfolded or damaged proteins
    • Goldberg, A.L. 2003. Protein degradation and protection against misfolded or damaged proteins. Nature 426: 895-899.
    • (2003) Nature , vol.426 , pp. 895-899
    • Goldberg, A.L.1
  • 18
    • 0036890022 scopus 로고    scopus 로고
    • Rapid divergence in expression between duplicate genes inferred from microarray data
    • Gu, Z., Nicolae, D., Lu, H.H., and Li, W.H. 2002. Rapid divergence in expression between duplicate genes inferred from microarray data. Trends Genet. 18: 609-613.
    • (2002) Trends Genet. , vol.18 , pp. 609-613
    • Gu, Z.1    Nicolae, D.2    Lu, H.H.3    Li, W.H.4
  • 19
    • 2642580659 scopus 로고    scopus 로고
    • Duplicate genes increase gene expression diversity within and between species
    • Gu, Z., Rifkin, S.A., White, K.P., and Li, W.H. 2004. Duplicate genes increase gene expression diversity within and between species. Nat. Genet. 36: 577-579.
    • (2004) Nat. Genet. , vol.36 , pp. 577-579
    • Gu, Z.1    Rifkin, S.A.2    White, K.P.3    Li, W.H.4
  • 20
    • 16544393690 scopus 로고    scopus 로고
    • Transcriptional similarities, dissimilarities, and conservation of cis-elements in duplicated genes of Arabidopsis
    • Haberer, G., Hindemitt, T., Meyers, B.C., and Mayer, K.F. 2004. Transcriptional similarities, dissimilarities, and conservation of cis-elements in duplicated genes of Arabidopsis. Plant Physiol. 136: 3009-3022.
    • (2004) Plant Physiol. , vol.136 , pp. 3009-3022
    • Haberer, G.1    Hindemitt, T.2    Meyers, B.C.3    Mayer, K.F.4
  • 21
    • 0002281363 scopus 로고
    • The part played by recurrent mutation in evolution
    • Haldane, J.B.S. 1933. The part played by recurrent mutation in evolution. Am. Nat. 67: 5-19.
    • (1933) Am. Nat. , vol.67 , pp. 5-19
    • Haldane, J.B.S.1
  • 22
    • 15544389841 scopus 로고    scopus 로고
    • Rapid subfunctionalization accompanied by prolonged and substantial neofunctionalization in duplicate gene evolution
    • He, X. and Zhang, J. 2005. Rapid subfunctionalization accompanied by prolonged and substantial neofunctionalization in duplicate gene evolution. Genetics 169: 1157-1164.
    • (2005) Genetics , vol.169 , pp. 1157-1164
    • He, X.1    Zhang, J.2
  • 23
    • 0025645782 scopus 로고
    • Gene expression and parental dominance in hybrid plants
    • Heslop-Harrison, J.S. 1990. Gene expression and parental dominance in hybrid plants. Dev. Suppl. 1990: 21-28.
    • (1990) Dev. Suppl. , vol.1990 , pp. 21-28
    • Heslop-Harrison, J.S.1
  • 25
    • 0036241339 scopus 로고    scopus 로고
    • Gene loss, silencing and activation in a newly synthesized wheat allotetraploid
    • Kashkush, K., Feldman, M., and Levy, A.A. 2002. Gene loss, silencing and activation in a newly synthesized wheat allotetraploid. Genetics 160: 1651-1659.
    • (2002) Genetics , vol.160 , pp. 1651-1659
    • Kashkush, K.1    Feldman, M.2    Levy, A.A.3
  • 26
    • 1942452749 scopus 로고    scopus 로고
    • Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae
    • Kellis, M., Birren, B.W., and Lander, E.S. 2004. Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae. Nature 428: 617-624.
    • (2004) Nature , vol.428 , pp. 617-624
    • Kellis, M.1    Birren, B.W.2    Lander, E.S.3
  • 27
    • 27644472372 scopus 로고    scopus 로고
    • Orthologs, paralogs, and evolutionary genomics
    • Koonin, E.V. 2005. Orthologs, paralogs, and evolutionary genomics. Annu. Rev. Genet. 39: 309-338.
    • (2005) Annu. Rev. Genet. , vol.39 , pp. 309-338
    • Koonin, E.V.1
  • 28
    • 0035810998 scopus 로고    scopus 로고
    • Protein-coding genes are epigenetically regulated in Arabidopsis polyploids
    • Lee, H.-S. and Chen, Z.J. 2001. Protein-coding genes are epigenetically regulated in Arabidopsis polyploids. Proc. Natl. Acad. Sci. 98: 6753-6758.
    • (2001) Proc. Natl. Acad. Sci. , vol.98 , pp. 6753-6758
    • Lee, H.-S.1    Chen, Z.J.2
  • 32
    • 13144251179 scopus 로고    scopus 로고
    • Plant conserved non-coding sequences and paralogue evolution
    • Lockton, S. and Gaut, B.S. 2005. Plant conserved non-coding sequences and paralogue evolution. Trends Genet. 21: 60-65.
    • (2005) Trends Genet. , vol.21 , pp. 60-65
    • Lockton, S.1    Gaut, B.S.2
  • 33
    • 0033972072 scopus 로고    scopus 로고
    • The probability of duplicate gene preservation by subfunctionalization
    • Lynch, M. and Force, A. 2000. The probability of duplicate gene preservation by subfunctionalization. Genetics 154: 459-473.
    • (2000) Genetics , vol.154 , pp. 459-473
    • Lynch, M.1    Force, A.2
  • 35
    • 0038486898 scopus 로고    scopus 로고
    • Divergence in the spatial pattern of gene expression between human duplicate genes
    • Makova, K.D. and Li, W.-H. 2003. Divergence in the spatial pattern of gene expression between human duplicate genes. Genome Res. 13: 1638-1645.
    • (2003) Genome Res. , vol.13 , pp. 1638-1645
    • Makova, K.D.1    Li, W.-H.2
  • 36
    • 0036613237 scopus 로고    scopus 로고
    • Extensive genomic duplication during early chordate evolution
    • McLysaght, A., Hokamp, K., and Wolfe, K.H. 2002. Extensive genomic duplication during early chordate evolution. Nat. Genet. 31: 200-204.
    • (2002) Nat. Genet. , vol.31 , pp. 200-204
    • McLysaght, A.1    Hokamp, K.2    Wolfe, K.H.3
  • 40
    • 0038157152 scopus 로고    scopus 로고
    • Dosage sensitivity and the evolution of gene families in yeast
    • Papp, B., Pal, C., and Hurst, L.D. 2003. Dosage sensitivity and the evolution of gene families in yeast. Nature 424: 194-197.
    • (2003) Nature , vol.424 , pp. 194-197
    • Papp, B.1    Pal, C.2    Hurst, L.D.3
  • 42
    • 2642540236 scopus 로고    scopus 로고
    • Gene duplication, the evolution of novel gene functions, and detecting functional divergence of duplicates in silico
    • Raes, J. and Van de Peer, Y. 2003. Gene duplication, the evolution of novel gene functions, and detecting functional divergence of duplicates in silico. Appl. Bioinformatics 2: 91-101.
    • (2003) Appl. Bioinformatics , vol.2 , pp. 91-101
    • Raes, J.1    Van De Peer, Y.2
  • 43
    • 33645023614 scopus 로고    scopus 로고
    • Multiple rounds of speciation associated with reciprocal gene loss in polyploid yeasts
    • Scannell, D.R., Byrne, K.P., Gordon, J.L., Wong, S., and Wolfe, K.H. 2006. Multiple rounds of speciation associated with reciprocal gene loss in polyploid yeasts. Nature 440: 341-345.
    • (2006) Nature , vol.440 , pp. 341-345
    • Scannell, D.R.1    Byrne, K.P.2    Gordon, J.L.3    Wong, S.4    Wolfe, K.H.5
  • 44
    • 4444363053 scopus 로고    scopus 로고
    • Genome duplication led to highly selective expansion of the Arabidopsis thaliana proteome
    • Seoighe, C. and Gehring, C. 2004. Genome duplication led to highly selective expansion of the Arabidopsis thaliana proteome. Trends Genet. 20: 461-464.
    • (2004) Trends Genet. , vol.20 , pp. 461-464
    • Seoighe, C.1    Gehring, C.2
  • 45
    • 0034866855 scopus 로고    scopus 로고
    • Sequence elimination and cytosine methylation are rapid and reproducible responses of the genome to wide hybridization and allopolyploidy in wheat
    • Shaked, H., Kashkush, K., Ozkan, H., Feldman, M., and Levy, A.A. 2001. Sequence elimination and cytosine methylation are rapid and reproducible responses of the genome to wide hybridization and allopolyploidy in wheat. Plant Cell 13: 1749-1759.
    • (2001) Plant Cell , vol.13 , pp. 1749-1759
    • Shaked, H.1    Kashkush, K.2    Ozkan, H.3    Feldman, M.4    Levy, A.A.5
  • 46
    • 0004249246 scopus 로고
    • W.H. Freeman and Co., New York
    • Sokal, R.R. and Rohlf, F.J. 1995. Biometry. W.H. Freeman and Co., New York.
    • (1995) Biometry
    • Sokal, R.R.1    Rohlf, F.J.2
  • 47
    • 0029162810 scopus 로고
    • Rapid genome change in synthetic polyploids of Brassica and its implications for polyploid evolution
    • Song, K., Lu, P., Tang, K., and Osborn, T.C. 1995. Rapid genome change in synthetic polyploids of Brassica and its implications for polyploid evolution. Proc. Natl. Acad. Sci. 92: 7719-7723.
    • (1995) Proc. Natl. Acad. Sci. , vol.92 , pp. 7719-7723
    • Song, K.1    Lu, P.2    Tang, K.3    Osborn, T.C.4
  • 49
    • 0032964297 scopus 로고    scopus 로고
    • BLAST 2 sequences, a new tool for comparing protein and nucleotide sequences
    • Tatusova, T.A. and Madden, T.L. 1999. BLAST 2 sequences, a new tool for comparing protein and nucleotide sequences. FEMS Microbiol. Lett. 174: 247-250.
    • (1999) FEMS Microbiol. Lett. , vol.174 , pp. 247-250
    • Tatusova, T.A.1    Madden, T.L.2
  • 50
    • 18844408081 scopus 로고    scopus 로고
    • Evidence for an ancient whole genome duplication event in rice and other cereals
    • Tian, C.G., Xiong, Y.Q., Liu, T.Y., Sun, S.H., Chen, L.B., and Chen, M.S. 2005. Evidence for an ancient whole genome duplication event in rice and other cereals. Acta Genetica Sinica 32: 519-527.
    • (2005) Acta Genetica Sinica , vol.32 , pp. 519-527
    • Tian, C.G.1    Xiong, Y.Q.2    Liu, T.Y.3    Sun, S.H.4    Chen, L.B.5    Chen, M.S.6
  • 51
    • 0141564555 scopus 로고    scopus 로고
    • Evidence that rice and other cereals are ancient aneuploids
    • Vandepoele, K., Simillion, C., and Van de Peer, Y. 2003. Evidence that rice and other cereals are ancient aneuploids. Plant Cell 9: 2192-2202.
    • (2003) Plant Cell , vol.9 , pp. 2192-2202
    • Vandepoele, K.1    Simillion, C.2    Van De Peer, Y.3
  • 52
    • 0036008552 scopus 로고    scopus 로고
    • Exploring the etiology of haploinsufficiency
    • Veitia, R.A. 2002. Exploring the etiology of haploinsufficiency. Bioessays 24: 175-184.
    • (2002) Bioessays , vol.24 , pp. 175-184
    • Veitia, R.A.1
  • 53
    • 0034671866 scopus 로고    scopus 로고
    • The origins of genomic duplications in Arabidopsis
    • Vision, T.J., Brown, D.G., and Tanksley, S.D. 2000. The origins of genomic duplications in Arabidopsis. Science 290: 2114-2117.
    • (2000) Science , vol.290 , pp. 2114-2117
    • Vision, T.J.1    Brown, D.G.2    Tanksley, S.D.3
  • 54
    • 0036792156 scopus 로고    scopus 로고
    • Asymmetric functional divergence of duplicate genes in yeast
    • Wagner, A. 2002. Asymmetric functional divergence of duplicate genes in yeast. Mol. Biol. Evol. 19: 1760-1768.
    • (2002) Mol. Biol. Evol. , vol.19 , pp. 1760-1768
    • Wagner, A.1
  • 56
    • 3042569650 scopus 로고    scopus 로고
    • Coexpression of neighboring genes in the genome of Arabidopsis thaliana
    • Williams, E.J. and Bowles, D.J. 2004. Coexpression of neighboring genes in the genome of Arabidopsis thaliana. Genome Res. 14: 1060-1067.
    • (2004) Genome Res. , vol.14 , pp. 1060-1067
    • Williams, E.J.1    Bowles, D.J.2
  • 57
    • 0030947344 scopus 로고    scopus 로고
    • Molecular evidence for an ancient duplication of the entire yeast genome
    • Wolfe, K.H. and Shields, D.C. 1997. Molecular evidence for an ancient duplication of the entire yeast genome. Nature 387: 708-713.
    • (1997) Nature , vol.387 , pp. 708-713
    • Wolfe, K.H.1    Shields, D.C.2


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