Coordinated and fine-scale control of homoeologous gene expression in allotetraploid cotton

Journal of Heredity

Volumn 100, Issue 4, 2009, Pages 487-490

  Flagel, Lex E ^a   Chen, Liping ^a   Chaudhary, Bhupendra ^a   Wendel, Jonathan F ^a  

^a IOWA STATE UNIVERSITY   (United States)

Author keywords

Cotton; Duplicate gene expression; Gossypium hirsutum; Linkage; Polyploidy

Indexed keywords

ALCOHOL DEHYDROGENASE; CELLULOSE SYNTHASE; SYNTHETASE; UNCLASSIFIED DRUG;

ARTICLE; CHROMOSOMAL LOCALIZATION; COTTON; GENE DUPLICATION; GENE EXPRESSION; GENETIC LINKAGE; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYPLOIDY; PRIORITY JOURNAL; SINGLE NUCLEOTIDE POLYMORPHISM;

ALCOHOL DEHYDROGENASE; GENE EXPRESSION REGULATION, PLANT; GENES, PLANT; GENOME, PLANT; GLUCOSYLTRANSFERASES; GOSSYPIUM; POLYPLOIDY;

GOSSYPIUM HIRSUTUM;

EID: 67650317473     PISSN: 00221503     EISSN: 14657333     Source Type: Journal    
DOI: 10.1093/jhered/esp003     Document Type: Article

References (23)

1. Adams KL, Cronn R, Percifield R, Wendel JF. 2003. Genes duplicated by polyploidy show unequal contributions to the transcriptome and organ-specific reciprocal silencing. Proc Natl Acad Sci USA. 100:4649-4654.
2. Bottley A, Xia GM, Koebner RMD. 2006. Homoeologous gene silencing in hexaploid wheat. Plant J. 47:897-906.
3. Chen ZJ. 2007. Genetic and epigenetic mechanisms for gene expression and phenotypic variation in plant polyploids. Annu Rev Plant Biol. 58:377-406.
4. Flagel L, Udall JA, Nettleton D, Wendel JF. 2008. Duplicate gene expression in allopolyploid Gossypium reveals two temporally distinct phases of expression evolution. BMC Biol. 6:16.
5. 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. Plant Cell. 19:3403-3417.
6. Grover CE, Kim H, Wing RA, Paterson AH, Wendel JF. 2004. Incongruent patterns of local and global genome size evolution in cotton. Genome Res. 14:1474-1482.
7. Grover CE, Kim H, Wing RA, Paterson AH, Wendel JF. 2007. Microcolinearity and genome evolution in the AdhA region of diploid and polyploid cotton (Gossypium). Plant J. 50:995-1006.
8. Hovav R, Udall JA, Chaudhary B, Flagel L, Rapp R, Wendel JF. 2008. Partitioned expression of duplicated genes during development and evolution of a single cell in a polyploid plant. Proc Natl Acad Sci USA. 105: 6191-6195.
9. Kashkush K, Feldman M, Levy AA. 2002. Gene loss, silencing and activation in a newly synthesized wheat allotetraploid. Genetics. 160:1651-1659.
10. Lee H-S, Chen ZJ. 2001. Protein-coding genes are epigenetically regulated in Arabidopsis polyploids. Proc Natl Acad Sci USA. 98:6753-6758.
11. 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. Mol Genet Genomics. 270:371-377.
12. Osborn TC, Chris Pires J, Birchler JA, Auger DL, Chen ZJ, Lee HS, Comai L, Madlung A, Doerge RW, Colot V, et al. 2003. Understanding mechanisms of novel gene expression in polyploids. Trends Genet. 19: 141-147.
13. Ozkan H, Levy AA, Feldman M. 2001. Allopolyploidy-induced rapid genome evolution in the wheat (Aegilops-Triticum) group. Plant Cell. 13:1735-1747.
14. Quesada T, Li Z, Dervinis C, Li Y, Bocock PN, Tuskan GA, Casella G, Davis JM, Kirst M. 2008. Comparative analysis of the transcriptomes of Populus trichocarpa and Arabidopsis thaliana suggests extensive evolution of gene expression regulation in angiosperms. New Phytol. 180:408-420.
15. Ren X-Y, Fiers MWEJ, Stiekema WJ, Nap J-P. 2005. Local coexpression domains of two to four genes in the genome of Arabidopsis. Plant Physiol. 138:923-934.
16. Ren X-Y, Stiekema W, Nap J-P. 2007. Local coexpression domains in the genome of rice show no microsynteny with Arabidopsis domains. Plant Mol Biol. 65:205-217.
17. Senchina DS, Alvarez I, Cronn RC, Liu B, Rong J, Noyes RD, Paterson AH, Wing RA, Wilkins TA, Wendel JF. 2003. Rate variation among nuclear genes and the age of polyploidy in Gossypium. Mol Biol Evol. 20:633-643.
18. Udall JA, Quijada PA, Osborn TC. 2005. Detection of chromosomal rearrangements derived from homeologous recombination in four mapping populations of Brassica napus L. Genetics. 169:967-979.
19. Wendel JF. 2000. Genome evolution in polyploids. Plant Mol Biol. 42:225-249.
20. Wendel JF, Cronn R. 2003. Polyploidy and the evolutionary history of cotton. Adv Agron. 78:139-186.
21. Wendel JF, Doyle JJ. 2005. Polyploidy and evolution in plants. In: Henry RJ, editor. Plant diversity and evolution. Wallingford (UK): CABI Publishing. p. 97-117.
22. Williams EJB, Bowles DJ. 2004. Coexpression of neighboring genes in the genome of Arabidopsis thaliana. Genome Res. 14:1060-1067.
23. Zhan S, Horrocks J, Lukens LN. 2006. Islands of co-expressed neighbouring genes in Arabidopsis thaliana suggest higher-order chromosome domains. Plant J. 45:347-357.