메뉴 건너뛰기




Volumn 196, Issue 4, 2012, Pages 966-971

Homoeolog expression bias and expression level dominance in allopolyploids

Author keywords

Gene expression; Genome duplication; Polyploidy; Speciation; Terminology

Indexed keywords

GENE EXPRESSION REGULATION; LETTER; PLANT GENOME; POLYPLOIDY;

EID: 84868595333     PISSN: 0028646X     EISSN: 14698137     Source Type: Journal    
DOI: 10.1111/j.1469-8137.2012.04365.x     Document Type: Letter
Times cited : (209)

References (58)
  • 1
    • 0345071423 scopus 로고    scopus 로고
    • Genes duplicated by polyploidy show unequal contributions to the transcriptome and organ-specific reciprocal silencing
    • Adams KL, Cronn R, Percifield R, Wendel JF. 2003. Genes duplicated by polyploidy show unequal contributions to the transcriptome and organ-specific reciprocal silencing. Proceedings of the National Academy of Sciences, USA 100: 4649-4654.
    • (2003) Proceedings of the National Academy of Sciences, USA , vol.100 , pp. 4649-4654
    • Adams, K.L.1    Cronn, R.2    Percifield, R.3    Wendel, J.F.4
  • 3
    • 66249102962 scopus 로고    scopus 로고
    • Phenotypic, genetic and genomic consequences of natural and synthetic polyploidization of Nicotiana attenuata and Nicotiana obtusifolia
    • Anssour S, Krugel T, Sharbel TF, Saluz HP, Bonaventure G, Baldwin IT. 2009. Phenotypic, genetic and genomic consequences of natural and synthetic polyploidization of Nicotiana attenuata and Nicotiana obtusifolia. Annals of Botany 103: 1207-1217.
    • (2009) Annals of Botany , vol.103 , pp. 1207-1217
    • Anssour, S.1    Krugel, T.2    Sharbel, T.F.3    Saluz, H.P.4    Bonaventure, G.5    Baldwin, I.T.6
  • 4
    • 70350227289 scopus 로고    scopus 로고
    • Brassica orthologs from BANYULS belong to a small multigene family, which is involved in procyanidin accumulation in the seed
    • Auger B, Baron C, Lucas M-O, Vautrin S, Bergès H, Chalhoub B, Fautrel A, Renard M, Nesi N. 2009. Brassica orthologs from BANYULS belong to a small multigene family, which is involved in procyanidin accumulation in the seed. Planta 230: 1167-1183.
    • (2009) Planta , vol.230 , pp. 1167-1183
    • Auger, B.1    Baron, C.2    Lucas, M.-O.3    Vautrin, S.4    Bergès, H.5    Chalhoub, B.6    Fautrel, A.7    Renard, M.8    Nesi, N.9
  • 5
    • 80054838610 scopus 로고    scopus 로고
    • Genomic expression dominance in the natural allopolyploid Coffea arabica is massively affected by growth temperature
    • Bardil A, de Almeida JD, Combes MC, Lashermes P, Bertrand B. 2011. Genomic expression dominance in the natural allopolyploid Coffea arabica is massively affected by growth temperature. New Phytologist 192: 760-774.
    • (2011) New Phytologist , vol.192 , pp. 760-774
    • Bardil, A.1    de Almeida, J.D.2    Combes, M.C.3    Lashermes, P.4    Bertrand, B.5
  • 6
    • 33748319356 scopus 로고    scopus 로고
    • Homoeologous gene silencing in hexaploid wheat
    • Bottley A, Xia G, Koebner R. 2006. Homoeologous gene silencing in hexaploid wheat. Plant Journal 47: 897.
    • (2006) Plant Journal , vol.47 , pp. 897
    • Bottley, A.1    Xia, G.2    Koebner, R.3
  • 7
    • 77950946551 scopus 로고    scopus 로고
    • Characterization of duplicate gene evolution in the recent natural allopolyploid Tragopogon miscellus by next-generation sequencing and Sequenom iPLEX MassARRAY genotyping
    • Buggs RJA, Chamala S, Wu WEI, Gao LU, May GD, Schnable PS, Soltis DE, Soltis PS, Barbazuk WB. 2010a. Characterization of duplicate gene evolution in the recent natural allopolyploid Tragopogon miscellus by next-generation sequencing and Sequenom iPLEX MassARRAY genotyping. Molecular Ecology 19: 132-146.
    • (2010) Molecular Ecology , vol.19 , pp. 132-146
    • Buggs, R.J.A.1    Chamala, S.2    Wu, W.E.I.3    Gao, L.U.4    May, G.D.5    Schnable, P.S.6    Soltis, D.E.7    Soltis, P.S.8    Barbazuk, W.B.9
  • 8
    • 77950947915 scopus 로고    scopus 로고
    • Tissue-specific silencing of homoeologs in natural populations of the recent allopolyploid Tragopogon mirus
    • Buggs RJA, Elliott NM, Zhang L, Koh J, Viccini LF, Soltis DE, Soltis PS. 2010b. Tissue-specific silencing of homoeologs in natural populations of the recent allopolyploid Tragopogon mirus. New Phytologist 186: 175-183.
    • (2010) New Phytologist , vol.186 , pp. 175-183
    • Buggs, R.J.A.1    Elliott, N.M.2    Zhang, L.3    Koh, J.4    Viccini, L.F.5    Soltis, D.E.6    Soltis, P.S.7
  • 10
    • 78650334271 scopus 로고    scopus 로고
    • Homoeolog-specific retention and use in allotetraploid Arabidopsis suecica depends on parent of origin and network partners
    • Chang P, Dilkes B, McMahon M, Comai L, Nuzhdin S. 2010. Homoeolog-specific retention and use in allotetraploid Arabidopsis suecica depends on parent of origin and network partners. Genome Biology 11: R125.
    • (2010) Genome Biology , vol.11
    • Chang, P.1    Dilkes, B.2    McMahon, M.3    Comai, L.4    Nuzhdin, S.5
  • 11
    • 67650888375 scopus 로고    scopus 로고
    • Reciprocal silencing, transcriptional bias and functional divergence of homeologs in polyploid cotton (Gossypium)
    • Chaudhary B, Flagel L, Stupar RM, Udall JA, Verma N, Springer NM, Wendel JF. 2009. Reciprocal silencing, transcriptional bias and functional divergence of homeologs in polyploid cotton (Gossypium). Genetics 182: 503-517.
    • (2009) Genetics , vol.182 , pp. 503-517
    • Chaudhary, B.1    Flagel, L.2    Stupar, R.M.3    Udall, J.A.4    Verma, N.5    Springer, N.M.6    Wendel, J.F.7
  • 12
    • 77950923920 scopus 로고    scopus 로고
    • Transcriptomic changes following recent natural hybridization and allopolyploidy in the salt marsh species Spartina townsendii and Spartina anglica (Poaceae)
    • Chelaifa H, Monnier A, Ainouche M. 2010. Transcriptomic changes following recent natural hybridization and allopolyploidy in the salt marsh species Spartina townsendii and Spartina anglica (Poaceae). New Phytologist 186: 161-174.
    • (2010) New Phytologist , vol.186 , pp. 161-174
    • Chelaifa, H.1    Monnier, A.2    Ainouche, M.3
  • 13
    • 34248328910 scopus 로고    scopus 로고
    • Genetic and epigenetic mechanisms for gene expression and phenotypic variation in plant polyploids
    • Chen ZJ. 2007. Genetic and epigenetic mechanisms for gene expression and phenotypic variation in plant polyploids. Annual Review of Plant Biology 58: 377-406.
    • (2007) Annual Review of Plant Biology , vol.58 , pp. 377-406
    • Chen, Z.J.1
  • 14
    • 0030980947 scopus 로고    scopus 로고
    • Transcriptional analysis of nucleolar dominance in polyploid plants: biased expression/silencing of progenitor rRNA genes is developmentally regulated in Brassica
    • Chen ZJ, Pikaard CS. 1997. Transcriptional analysis of nucleolar dominance in polyploid plants: biased expression/silencing of progenitor rRNA genes is developmentally regulated in Brassica. Proceedings of the National Academy of Sciences, USA 94: 3442-3447.
    • (1997) Proceedings of the National Academy of Sciences, USA , vol.94 , pp. 3442-3447
    • Chen, Z.J.1    Pikaard, C.S.2
  • 15
    • 84860424914 scopus 로고    scopus 로고
    • Biased gene fractionation and dominant gene expression among the subgenomes of Brassica rapa
    • Cheng F, Wu J, Fang L, Sun S, Liu B, Lin K, Bonnema G, Wang X. 2012. Biased gene fractionation and dominant gene expression among the subgenomes of Brassica rapa. PLoS ONE 7: e36442.
    • (2012) PLoS ONE , vol.7
    • Cheng, F.1    Wu, J.2    Fang, L.3    Sun, S.4    Liu, B.5    Lin, K.6    Bonnema, G.7    Wang, X.8
  • 16
    • 33644681986 scopus 로고    scopus 로고
    • The advantages and disadvantages of being polyploid
    • Comai L. 2005. The advantages and disadvantages of being polyploid. Nature Reviews Genetics 6: 836-846.
    • (2005) Nature Reviews Genetics , vol.6 , pp. 836-846
    • Comai, L.1
  • 18
    • 42649126373 scopus 로고    scopus 로고
    • Duplicate gene expression in allopolyploid Gossypium reveals two temporally distinct phases of expression evolution
    • Flagel L, Udall J, Nettleton D, Wendel J. 2008. Duplicate gene expression in allopolyploid Gossypium reveals two temporally distinct phases of expression evolution. BMC Biology 6: 11.
    • (2008) BMC Biology , vol.6 , pp. 11
    • Flagel, L.1    Udall, J.2    Nettleton, D.3    Wendel, J.4
  • 19
    • 77950931393 scopus 로고    scopus 로고
    • Evolutionary rate variation, genomic dominance and duplicate gene expression evolution during allotetraploid cotton speciation
    • Flagel LE, Wendel JF. 2010. Evolutionary rate variation, genomic dominance and duplicate gene expression evolution during allotetraploid cotton speciation. New Phytologist 186: 184-193.
    • (2010) New Phytologist , vol.186 , pp. 184-193
    • Flagel, L.E.1    Wendel, J.F.2
  • 21
    • 37849034684 scopus 로고    scopus 로고
    • Genomic changes in resynthesized Brassica napus and their effect on gene expression and phenotype
    • Gaeta RT, Pires JC, Iniguez-Luy F, Leon E, Osborn TC. 2007. Genomic changes in resynthesized Brassica napus and their effect on gene expression and phenotype. The Plant Cell Online 19: 3403-3417.
    • (2007) The Plant Cell Online , vol.19 , pp. 3403-3417
    • Gaeta, R.T.1    Pires, J.C.2    Iniguez-Luy, F.3    Leon, E.4    Osborn, T.C.5
  • 22
    • 23344449410 scopus 로고    scopus 로고
    • Rapid and repeatable elimination of a parental genome-specific DNA repeat (pGc1R-1a) in newly synthesized wheat allopolyploids
    • Han F, Fedak G, Guo W, Liu B. 2005. Rapid and repeatable elimination of a parental genome-specific DNA repeat (pGc1R-1a) in newly synthesized wheat allopolyploids. Genetics 170: 1239-1245.
    • (2005) Genetics , vol.170 , pp. 1239-1245
    • Han, F.1    Fedak, G.2    Guo, W.3    Liu, B.4
  • 26
    • 0037226595 scopus 로고    scopus 로고
    • Transcriptional activation of retrotransposons alters the expression of adjacent genes in wheat
    • Kashkush K, Feldman M, Levy AA. 2003. Transcriptional activation of retrotransposons alters the expression of adjacent genes in wheat. Nature Genetics 33: 102-106.
    • (2003) Nature Genetics , vol.33 , pp. 102-106
    • Kashkush, K.1    Feldman, M.2    Levy, A.A.3
  • 27
    • 77649138562 scopus 로고    scopus 로고
    • Homeolog loss and expression changes in natural populations of the recently and repeatedly formed allotetraploid Tragopogon mirus (Asteraceae)
    • Koh J, Soltis PS, Soltis DE. 2010. Homeolog loss and expression changes in natural populations of the recently and repeatedly formed allotetraploid Tragopogon mirus (Asteraceae). BMC Genomics 11: 97.
    • (2010) BMC Genomics , vol.11 , pp. 97
    • Koh, J.1    Soltis, P.S.2    Soltis, D.E.3
  • 28
    • 48849101871 scopus 로고    scopus 로고
    • Evolution of rDNA in Nicotiana allopolyploids: a potential link between rDNA homogenization and epigenetics
    • Kovarik A, Dadejova M, Lim YK, Chase MW, Clarkson JJ, Knapp S, Leitch AR. 2008a. Evolution of rDNA in Nicotiana allopolyploids: a potential link between rDNA homogenization and epigenetics. Annals of Botany 101: 815-823.
    • (2008) Annals of Botany , vol.101 , pp. 815-823
    • Kovarik, A.1    Dadejova, M.2    Lim, Y.K.3    Chase, M.W.4    Clarkson, J.J.5    Knapp, S.6    Leitch, A.R.7
  • 29
    • 48849101871 scopus 로고    scopus 로고
    • Evolution of rDNA in Nicotiana allopolyploids: a potential link between rDNA homogenization and epigenetics
    • Kovarik A, Dadejova M, Lim YK, Chase MW, Clarkson JJ, Knapp S, Leitch AR. 2008b. Evolution of rDNA in Nicotiana allopolyploids: a potential link between rDNA homogenization and epigenetics. Annals of Botany 101: 815-823.
    • (2008) Annals of Botany , vol.101 , pp. 815-823
    • Kovarik, A.1    Dadejova, M.2    Lim, Y.K.3    Chase, M.W.4    Clarkson, J.J.5    Knapp, S.6    Leitch, A.R.7
  • 30
    • 78951489213 scopus 로고    scopus 로고
    • Genetic and epigenetic dynamics of a retrotransposon after allopolyploidization of wheat
    • Kraitshtein Z, Yaakov B, Khasdan V, Kashkush K. 2010. Genetic and epigenetic dynamics of a retrotransposon after allopolyploidization of wheat. Genetics 186: 801-812.
    • (2010) Genetics , vol.186 , pp. 801-812
    • Kraitshtein, Z.1    Yaakov, B.2    Khasdan, V.3    Kashkush, K.4
  • 31
    • 42549129942 scopus 로고    scopus 로고
    • Genomic plasticity and the diversity of polyploid plants
    • Leitch AR, Leitch IJ. 2008. Genomic plasticity and the diversity of polyploid plants. Science 320: 481-483.
    • (2008) Science , vol.320 , pp. 481-483
    • Leitch, A.R.1    Leitch, I.J.2
  • 32
    • 0035984262 scopus 로고    scopus 로고
    • Remodeling of DNA methylation and phenotypic and transcriptional changes in synthetic Arabidopsis allotetraploids
    • Madlung A, Masuelli RW, Watson B, Reynolds SH, Davison J, Comai L. 2002. Remodeling of DNA methylation and phenotypic and transcriptional changes in synthetic Arabidopsis allotetraploids. Plant Physiology 129: 733-746.
    • (2002) Plant Physiology , vol.129 , pp. 733-746
    • Madlung, A.1    Masuelli, R.W.2    Watson, B.3    Reynolds, S.H.4    Davison, J.5    Comai, L.6
  • 33
    • 0346373740 scopus 로고    scopus 로고
    • Discrimination of homoeologous gene expression in hexaploid wheat by SNP analysis of contigs grouped from a large number of expressed sequence tags
    • Mochida K, Yamazaki Y, Ogihara Y. 2003. Discrimination of homoeologous gene expression in hexaploid wheat by SNP analysis of contigs grouped from a large number of expressed sequence tags. Molecular Genetics and Genomics 270: 371.
    • (2003) Molecular Genetics and Genomics , vol.270 , pp. 371
    • Mochida, K.1    Yamazaki, Y.2    Ogihara, Y.3
  • 34
    • 58249105076 scopus 로고    scopus 로고
    • Altered circadian rhythms regulate growth vigour in hybrids and allopolyploids
    • Ni Z, Kim ED, Ha M, Lackey E, Liu J, Zhang Y, Sun Q, Chen ZJ. 2009. Altered circadian rhythms regulate growth vigour in hybrids and allopolyploids. Nature 457: 327-331.
    • (2009) Nature , vol.457 , 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
  • 35
    • 84861335726 scopus 로고    scopus 로고
    • Non-random distribution of extensive chromosome rearrangements in Brassica napus depends on genome organization
    • Nicolas SD, Monod H, Eber F, Chèvre A-M, Jenczewski E. 2012. Non-random distribution of extensive chromosome rearrangements in Brassica napus depends on genome organization. The Plant Journal 70: 691-703.
    • (2012) The Plant Journal , vol.70 , pp. 691-703
    • Nicolas, S.D.1    Monod, H.2    Eber, F.3    Chèvre, A.-M.4    Jenczewski, E.5
  • 36
    • 0009673698 scopus 로고    scopus 로고
    • Undermethylation associated with retroelement activation and chromosome remodelling in an interspecific mammalian hybrid
    • O'Neill RJ, O'Neill MJ, Graves JA. 1998. Undermethylation associated with retroelement activation and chromosome remodelling in an interspecific mammalian hybrid. Nature 393: 68-72.
    • (1998) Nature , vol.393 , pp. 68-72
    • O'Neill, R.J.1    O'Neill, M.J.2    Graves, J.A.3
  • 37
    • 0038338886 scopus 로고    scopus 로고
    • Nonadditive changes in genome size during allopolyploidization in the wheat (Aegilops-Triticum) group
    • Ozkan H, Tuna M, Arumuganathan K. 2003. Nonadditive changes in genome size during allopolyploidization in the wheat (Aegilops-Triticum) group. Journal of Heredity 94: 260-264.
    • (2003) Journal of Heredity , vol.94 , pp. 260-264
    • Ozkan, H.1    Tuna, M.2    Arumuganathan, K.3
  • 38
    • 84862820384 scopus 로고    scopus 로고
    • Global transgenerational gene expression dynamics in two newly synthesized allohexaploid wheat (Triticum aestivum) lines
    • Qi B, Huang W, Zhu B, Zhong X, Guo J, Zhao N, Xu C, Zhang H, Pang J, Han F et al. 2012. Global transgenerational gene expression dynamics in two newly synthesized allohexaploid wheat (Triticum aestivum) lines. BMC Biology 10: 3.
    • (2012) BMC Biology , vol.10 , pp. 3
    • Qi, B.1    Huang, W.2    Zhu, B.3    Zhong, X.4    Guo, J.5    Zhao, N.6    Xu, C.7    Zhang, H.8    Pang, J.9    Han, F.10
  • 39
    • 66149174929 scopus 로고    scopus 로고
    • Genomic expression dominance in allopolyploids
    • Rapp R, Udall J, Wendel J. 2009. Genomic expression dominance in allopolyploids. BMC Biology 7: 18.
    • (2009) BMC Biology , vol.7 , pp. 18
    • Rapp, R.1    Udall, J.2    Wendel, J.3
  • 40
    • 29644435144 scopus 로고    scopus 로고
    • Epigenetics and plant evolution
    • Rapp R, Wendel J. 2005. Epigenetics and plant evolution. New Phytologist 168: 81.
    • (2005) New Phytologist , vol.168 , pp. 81
    • Rapp, R.1    Wendel, J.2
  • 42
    • 79952495788 scopus 로고    scopus 로고
    • Genes identified by visible mutant phenotypes show increased bias toward one of two subgenomes of maize
    • Schnable JC, Freeling M. 2011. Genes identified by visible mutant phenotypes show increased bias toward one of two subgenomes of maize. PLoS ONE 6: e17855.
    • (2011) PLoS ONE , vol.6
    • Schnable, J.C.1    Freeling, M.2
  • 44
    • 84868533902 scopus 로고    scopus 로고
    • Escape from preferential retention following repeated whole genome duplication in plants
    • Schnable JC, Wang X, Pires JC, Freeling M. 2012. Escape from preferential retention following repeated whole genome duplication in plants. Frontiers in Plant Science 3: 94.
    • (2012) Frontiers in Plant Science , vol.3 , pp. 94
    • Schnable, J.C.1    Wang, X.2    Pires, J.C.3    Freeling, M.4
  • 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, Levy AA. 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
    • 84864834178 scopus 로고    scopus 로고
    • Cis- and trans-regulatory divergence between progenitor species determines gene-expression novelty in Arabidopsis allopolyploids
    • Shi X, Ng DWK, Zhang C, Comai L, Ye W, Jeffrey ChenZ. 2012. Cis- and trans-regulatory divergence between progenitor species determines gene-expression novelty in Arabidopsis allopolyploids. Nature Communications 3: 950.
    • (2012) Nature Communications , vol.3 , pp. 950
    • Shi, X.1    Ng, D.W.K.2    Zhang, C.3    Comai, L.4    Ye, W.5    Jeffrey, C.6
  • 47
    • 15944409560 scopus 로고    scopus 로고
    • Preferential elimination of repeated DNA sequences from the paternal, Nicotiana tomentosiformis genome donor of a synthetic, allotetraploid tobacco
    • Skalicka K, Lim KY, Matyasek R, Matzke M, Leitch AR, Kovarik A. 2005. Preferential elimination of repeated DNA sequences from the paternal, Nicotiana tomentosiformis genome donor of a synthetic, allotetraploid tobacco. New Phytologist 166: 291-303.
    • (2005) New Phytologist , vol.166 , pp. 291-303
    • Skalicka, K.1    Lim, K.Y.2    Matyasek, R.3    Matzke, M.4    Leitch, A.R.5    Kovarik, A.6
  • 53
    • 67651176366 scopus 로고    scopus 로고
    • On the road to diploidization? Homoeolog loss in independently formed populations of the allopolyploid Tragopogon miscellus (Asteraceae)
    • Tate JA, Joshi P, Soltis KA, Soltis PS, Soltis DE. 2009. On the road to diploidization? Homoeolog loss in independently formed populations of the allopolyploid Tragopogon miscellus (Asteraceae) BMC Plant Biology 9: 80.
    • (2009) BMC Plant Biology , vol.9 , pp. 80
    • Tate, J.A.1    Joshi, P.2    Soltis, K.A.3    Soltis, P.S.4    Soltis, D.E.5
  • 56
    • 0033974956 scopus 로고    scopus 로고
    • Genome evolution in polyploids
    • Wendel JF. 2000. Genome evolution in polyploids. Plant Molecular Biology 42: 225-249.
    • (2000) Plant Molecular Biology , vol.42 , pp. 225-249
    • Wendel, J.F.1
  • 57
    • 33747037492 scopus 로고    scopus 로고
    • Accumulation of genome-specific transcripts, transcription factors and phytohormonal regulators during early stages of fiber cell development in allotetraploid cotton
    • Yang SS, Cheung F, Lee JJ, Ha M, Wei NE, Sze S-H, Stelly DM, Thaxton P, Triplett B, Town CD et al. 2006. Accumulation of genome-specific transcripts, transcription factors and phytohormonal regulators during early stages of fiber cell development in allotetraploid cotton. The Plant Journal 47: 761-775.
    • (2006) The Plant Journal , vol.47 , pp. 761-775
    • Yang, S.S.1    Cheung, F.2    Lee, J.J.3    Ha, M.4    Wei, N.E.5    Sze, S.-H.6    Stelly, D.M.7    Thaxton, P.8    Triplett, B.9    Town, C.D.10
  • 58
    • 84877333214 scopus 로고    scopus 로고
    • Homoeolog expression bias and expression state dominance in allopolyploid cotton
    • in press. ., in press.
    • Yoo M, Szadkowski E, Wendel J. in press. Homoeolog expression bias and expression state dominance in allopolyploid cotton. Heredity, in press.
    • Heredity
    • Yoo, M.1    Szadkowski, E.2    Wendel, J.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.