Nonadditive regulation of FRI and FLC loci mediates flowering-time variation in Arabidopsis allopolyploids

Genetics

Volumn 173, Issue 2, 2006, Pages 965-974

  Wang, Jianlin ^a,c   Tian, Lu ^a,b   Lee, Hyeon Se ^a   Chen, Z Jeffrey ^a,b  

^a TEXAS A AND M UNIVERSITY   (United States)

^b UNIVERSITY OF TEXAS AT AUSTIN   (United States)

^c RiceTec Inc   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

PROTEIN FLC; PROTEIN FRI; UNCLASSIFIED DRUG; VEGETABLE PROTEIN;

ALLOPOLYPLOIDY; ARABIDOPSIS; ARTICLE; CONTROLLED STUDY; GENE CONTROL; GENE EXPRESSION; GENE SEQUENCE; GENETIC VARIABILITY; GENOME; NONHUMAN; NUCLEOTIDE SEQUENCE; PLANT GENETICS; PRIORITY JOURNAL; SEQUENCE ANALYSIS;

ACETYLATION; ARABIDOPSIS; ARABIDOPSIS PROTEINS; BASE SEQUENCE; DNA, PLANT; EPIGENESIS, GENETIC; EVOLUTION, MOLECULAR; FLOWERS; GENE DUPLICATION; GENE EXPRESSION REGULATION, PLANT; GENE SILENCING; GENES, PLANT; GENETIC COMPLEMENTATION TEST; HISTONES; LYSINE; MADS DOMAIN PROTEINS; METHYLATION; MOLECULAR SEQUENCE DATA; PHYLOGENY; POLYPLOIDY; SPECIES SPECIFICITY; TRANS-ACTIVATION (GENETICS); UP-REGULATION; VARIATION (GENETICS);

ANIMALIA; ARABIDOPSIS; ARABIDOPSIS ARENOSA; ARABIDOPSIS THALIANA;

EID: 33745402347     PISSN: 00166731     EISSN: 00166731     Source Type: Journal    
DOI: 10.1534/genetics.106.056580     Document Type: Article

References (47)

1. ADAMS, K. L., R. CRONN, R. PERCIFIELD and J. F. WENDEL, 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. BASTOW, R., J. S. MYLNE, C. LISTER, Z. LIPPMAN, R. A. MARTIENSSEN et al., 2004 Vernalization requires epigenetic silencing of FLC by histone methylation. Nature 427: 164-167.
3. BIRCHLER, J. A., 2001 Dosage-dependent gene regulation in multicellular eukaryotes: implications for dosage compensation, aneuploid syndromes, and quantitative traits. Dev. Biol. 234: 275-288.
4. BLANC, G., and K. H. WOLFE, 2004 Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes. Plant Cell 16: 1667-1678.
5. CHEN, Z. J., and Z. NI, 2006 Mechanisms of genomic rearrangements and gene expression changes in plant polyploids. BioEssays 28: 240-252.
6. COMAI, L., 2005 The advantages and disadvantages of being polyploid. Nat. Rev. Genet. 6: 836-846.
7. FINNEGAN, J. E., K. A. KOVAC, E. JALIGOT, C. C. SHELDON, W. JAMES PEACOCK et al., 2005 The downregulation of FLOWERING LOCUS C (FLC) expression in plants with low levels of DNA methylation and by vernalization occurs by distinct mechanisms. Plant J. 44: 420-432.
8. GAZZANI, S., A. R. GENDALL, C. LISTER and C. DEAN, 2003 Analysis of the molecular basis of flowering time variation in Arabidopsis accessions. Plant Physiol. 132: 1107-1114.
9. GENDALL, A. R., Y. Y. LEVY, A. WILSON and C. DEAN, 2001 The VERNALIZATION 2 gene mediates the epigenetic regulation of vernalization in Arabidopsis. Cell 107: 525-535.
10. GRANT, V., 1981 Plant Speciation. Columbia University Press, New York.
11. HE, Y., and R. M. AMASINO, 2005 Role of chromatin modification in flowering-time control. Trends Plant Sci. 10: 30-35.
12. HE, Y., S. D. MICHAELS and R. M. AMASINO, 2003 Regulation of flowering time by histone acetylation in Arabidopsis. Science 302: 1751-1754.
13. HE, Y., M. R. DOYLE and R. M. AMASINO, 2004 PAF1-complex-mediated histone methylation of FLOWERING LOCUS C chromatin is required for the vernalization-responsive, winter-annual habit in Arabidopsis. Genes Dev. 18: 2774-2784.
14. JOHANSON, U., J. WEST, C. LISTER, S. MICHAELS, R. AMASINO et al., 2000 Molecular analysis of FRIGIDA, a major determinant of natural variation in Arabidopsis flowering time. Science 290: 344-347.
15. JOHNSON, L., X. CAO and S. JACOBSEN, 2002 Interplay between two epigenetic marks. DNA methylation and histone H3 lysine 9 methylation. Curr. Biol. 12: 1360-1367.
16. KOCH, M. A., B. HAUBOLD and T. MITCHELL-OLDS, 2000 Comparative evolutionary analysis of chalcone synthase and alcohol dehydrogenase loci in Arabidopsis, Arabis, and related genera (Brassicaceae). Mol. Biol. Evol. 17: 1483-1498.
17. LEE, I., A. BLEECKER and R. AMASINO, 1993 Analysis of naturally occurring late flowering in Arabidopsis thaliana. Mol. Gen. Genet. 237: 171-176.
18. LEMPE, J., S. BALASUBRAMANIAN, S. SURESHKUMAR, A. SINGH, M. SCHMID et al., 2005 Diversity of flowering responses in wild Arabidopsis thaliana strains. PLoS Genet. 1: 109-118.
19. LEVIN, D. A., 1983 Polyploidy and novelity in flowering plants. Amer. Nat. 122: 1-25.
20. LEVY, A. A., and M. FELDMAN, 2002 The impact of polyploidy on grass genome evolution. Plant Physiol. 130: 1587-1593.
21. LEVY, Y. Y., and C. DEAN, 1998 The transition to flowering. Plant Cell 10: 1973-1990.
22. LIU, J., Y. HE, R. AMASINO and X. CHEN, 2004 siRNAs targeting an intronic transposon in the regulation of natural flowering behavior in Arabidopsis. Genes Dev. 18: 2873-2878.
23. LYNCH, M., and A. FORCE, 2000 The probability of duplicate gene preservation by subfunctionalization. Genetics 154: 459-473.
24. MASTERSON, J., 1994 Stomatal size in fossil plants: evidence for polyploidy in majority of angiosperms. Science 264: 421-424.
25. MATZKE, M. A., O. M. SCHEID and A. J. MATZKE, 1999 Rapid structural and epigenetic changes in polyploid and aneuploid genomes. BioEssays 21: 761-767.
26. MICHAELS, S. D., and R. M. AMASINO, 1999 FLOWERING LOCUS C encodes a novel MADS domain protein that acts as a repressor of flowering. Plant Cell 11: 949-956.
27. MICHAELS, S. D., Y. HE, K. C. SCORTECCI and R. M. AMASINO, 2003 Attenuation of FLOWERING LOCUS C activity as a mechanism for the evolution of summer-annual flowering behavior in Arabidopsis. Proc. Natl. Acad. Sci. USA 100: 10102-10107.
28. MICHAELS, S. D., I. C. BEZERRA and R. M. AMASINO, 2004 FRIGIDA-related genes are required for the winter-annual habit in Arabidopsis. Proc. Natl. Acad. Sci. USA 101: 3281-3285.
29. O'KANE, S., B. SCHAAL and I. AL-SHEHBAZ, 1995 The origins of Arabidopsis suecica (Brassicaceae), as indicated by nuclear rDNA sequences, and implications for rDNA evolution. Syst. Bot. 21: 559-566.
30. OHNO, S., 1970 Evolution by Gene Duplication. Springer-Verlag, New York.
31. OSBORN, T. C., J. C. PIRES, J. A. BIRCHLER, D. L. AUGER, Z. J. CHEN et al., 2003 Understanding mechanisms of novel gene expression in polyploids. Trends Genet. 19: 141-147.
32. RAMSEY, J., and D. W. SCHEMSKE, 1998 Pathways, mechanisms, and rates of polyploid formation in flowering plants. Ann. Rev. Ecol. Syst. 29: 467-501.
33. RATCLIFFE, O. J., G. C. NADZAN, T. L. REUBER and J. L. RIECHMANN, 2001 Regulation of flowering in Arabidopsis by an FLC homologue. Plant Physiol. 126: 122-132.
34. SALL, T., M. JAKOBSSON, C. LIND-HALLDEN and C. HALLDEN, 2003 Chloroplast DNA indicates a single origin of the allotetraploid Arabidopsis suecica. J. Evol. Biol. 16: 1019-1029.
35. SCHMITZ, R. J., L. HONG, S. MICHAELS and R. M. AMASINO, 2005 FRIGIDA-ESSENTIAL 1 interacts genetically with FRIGIDA and FRIGIDA-LIKE 1 to promote the winter-annual habit of Arabidopsis thaliana. Development 132: 5471-5478.
36. SCORTECCI, K. C., S. D. MICHAELS and R. M. AMASINO, 2001 Identification of a MADS-box gene, FLOWERING LOCUS M, that represses flowering. Plant J. 26: 229-236.
37. SHELDON, C. C., A. B. CONN, E. S. DENNIS and W. J. PEACOCK, 2002 Different regulatory regions are required for the vernalization-induced repression of FLOWERING LOCUS C and for the epigenetic maintenance of repression. Plant Cell 14: 2527-2537.
38. SHINDO, C., M. J. ARANZANA, C. LISTER, C. BAXTER, C. NICHOLLS et al., 2005 Role of FRIGIDA and FLOWERING LOCUS C in determining variation in flowering time of Arabidopsis. Plant Physiol. 138: 1163-1173.
39. SIMPSON, G. G., and C. DEAN, 2002 Arabidopsis, the Rosetta stone of flowering time? Science 296: 285-289.
40. SIMPSON, G. G., V. QUESADA, I. R. HENDERSON, P. P. DIJKWEL, R. MACKNIGHT et al., 2004 RNA processing and Arabidopsis flowering time control. Biochem. Soc. Trans. 32: 565-566.
41. SUNG, S., and R. M. AMASINO, 2004 Vernalization in Arabidopsis thaliana is mediated by the PHD finger protein VIN3. Nature 427: 159-164.
42. SWOFFORD, D. L., 2003 PAUP: Phylogenetics Analysis Using Parsimony, Version 4.0. Sinauer Associates, Sunderland, MA.
43. TIAN, L., M. P. FONG, J. J. WANG, N. E. WEI, H. JIANG et al., 2005 Reversible histone acetylation and deacetylation mediate genome-wide, promoter-dependent and locus-specific changes in gene expression during plant development. Genetics 169: 337-345.
44. WANG, J., L. TIAN, A. MADLUNG, H. S. LEE, M. CHEN et al., 2004 Stochastic and epigenetic changes of gene expression in Arabidopsis polyploids. Genetics 167: 1961-1973.
45. WANG, J., L. TIAN, H. S. LEE, N. E. WEI, H. JIANG et al., 2006 Genome-wide nonadditive gene regulation in Arabidopsis allotetraploids. Genetics 172: 507-517.
46. WENDEL, J. F., 2000 Genome evolution in polyploids. Plant Mol. Biol. 42: 225-249.
47. WITTKOPP, P. J., B. K. HAERUM and A. G. CLARK, 2004 Evolutionary changes in cis and trans gene regulation. Nature 430: 85-88.