Induced and constitutive DNA methylation in a salinity-tolerant wheat introgression line

Plant and Cell Physiology

Volumn 55, Issue 7, 2014, Pages 1354-1365

  Wang, Meng ^a   Qin, Lumin ^a   Xie, Chao ^a   Li, Wei ^a   Yuan, Jiarui ^a   Kong, Lina ^a   Yu, Wenlong ^a   Xia, Guangmin ^a   Liu, Shuwei ^a  

^a SHANDONG UNIVERSITY   (China)

Author keywords

Epigenetics; Methylation; Salt tolerance; Somatic hybridization; Stress; Wheat

Indexed keywords

SODIUM CHLORIDE;

ADAPTATION; ARABIDOPSIS; DNA METHYLATION; DRUG EFFECTS; GENE EXPRESSION REGULATION; GENETICS; HYBRIDIZATION; LIGHT; PHYSIOLOGICAL STRESS; PHYSIOLOGY; PLANT ROOT; RADIATION RESPONSE; SALINITY; SALT TOLERANCE; SEEDLING; TRANSGENIC PLANT; WHEAT;

ADAPTATION, PHYSIOLOGICAL; ARABIDOPSIS; DNA METHYLATION; GENE EXPRESSION REGULATION, PLANT; HYBRIDIZATION, GENETIC; LIGHT; PLANT ROOTS; PLANTS, GENETICALLY MODIFIED; SALINITY; SALT-TOLERANCE; SEEDLING; SODIUM CHLORIDE; STRESS, PHYSIOLOGICAL; TRITICUM;

EID: 84903955589     PISSN: 00320781     EISSN: 14719053     Source Type: Journal    
DOI: 10.1093/pcp/pcu059     Document Type: Article

References (46)

1. Aina, R., Sgorbati, S., Santagostino, A., Labra, M., Ghiani, A. and Citterio, S. (2004) Specific hypomethylation of DNA is induced by heavy metals in white clover and industrial hemp. Physiol. Plant. 121: 472-480.
2. Angers, B., Castonguay, E. and Massicotte, R. (2010) Environmentally induced phenotypes and DNA methylation: how to deal with unpredictable conditions until the next generation and after. Mol. Ecol. 19: 1283-1295.
3. Bender, J. (2004) DNA methylation and epigenetics. Annu. Rev. Plant Biol. 55: 41-68.
4. Bird, A. (2002) DNA methylation patterns and epigenetic memory. Genes Dev. 16: 6-21.
5. Bock, C., Reither, S., Mikeska, T., Paulsen, M., Walter, J. and Lengauer, T. (2005) BiQ Analyzer: visualization and quality control for DNA methylation data from bisulfite sequencing. Bioinformatics 21: 4067-4068.
6. Boyes, J. and Bird, A. (1991) DNA methylation inhibits transcription indirectly via a methyl-CpG binding protein. Cell 64: 1123-1134.
7. Boyko, A., Kathiria, P., Zemp, F.J., Yao, Y., Pogribny, I. and Kovalchuk, I. (2007) Transgenerational changes in the genome stability and methylation in pathogen-infected plants: (virus-induced plant genome instability). Nucleic Acids Res. 35: 1714-1725.
8. Cao, X.F. and Jacobsen, S.E. (2002) Locus-specific control of asymmetric and CpNpG methylation by the DRM and CMT3 methyltransferase genes. Proc. Natl Acad. Sci. USA 99: 16491-16498.
9. Choi, C.S. and Sano, H. (2007) Abiotic-stress induces demethylation and transcriptional activation of a gene encoding a glycerophosphodiesterase-like protein in tobacco plants. Mol. Genet. Genomics 277: 589-600.
10. Clough, S.J. and Bent, A.F. (1998) Floral dip: a simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana. Plant J. 16: 735-743.
11. Comai, L., Tyagi, A.P., Winter, K., Holmes-Davis, R., Reynolds, S.H., Stevens, Y. et al. (2000) Phenotypic instability and rapid gene silencing in newly formed Arabidopsis allotetraploids. Plant Cell 12: 1551-1567.
12. Demeulemeester, M.A.C., Van Stallen, N. and De Proft, M.P. (1999) Degree of DNA methylation in chicory (Cichorium intybus L.): influence of plant age and vernalization. Plant Sci. 142: 101-108.
13. Doyle, J.J. and Doyle, J.L. (1987) A rapid DNA isolation procedure from small quantities of fresh leaf tissues. Phytochem. Bull. 19: 11-15.
14. Dyachenko, O.V., Zakharchenko, N.S., Shevchuk, T.V., Bohnert, H.J., Cushman, J.C. and Buryanov, Y.I. (2006) Effect of hypermethylation of CCWGG sequences in DNA of Mesembryanthemum crystallinum plants on their adaptation to salt stress. Biochemistry (Moscow) 71: 461-465.
15. Fuks, F. (2005) DNA methylation and histone modifications: teaming up to silence genes. Curr. Opin. Genet. Dev. 15: 490-495.
16. Gehring, M. and Henikoff, S. (2008) DNA methylation and demethylation in Arabidopsis. The Arabidopsis Book 6: e0102.
17. Goll, M.G. and Bestor, T.H. (2005) Eukaryotic cytosine methyltransferases. Annu. Rev. Biochem. 74: 481-514.
18. Henderson, I.R. and Jacobsen, S.E. (2007) Epigenetic inheritance in plants. Nature 447: 418-424.
19. Hoagland, D.R. and Arnon, D.I. (1950) The water-culture method for growing plants without soil. California Agricultural Experiment Station Circular.
20. Jones, P.L., Veenstra, G.J.C., Wade, P.A., Vermaak, D., Kass, S.U., Landsberger, N. et al. (1998) Methylated DNA and MeCP2 recruit histone deacetylase to repress transcription. Nat. Genet. 19: 187-191.
21. Kashkush, K., Feldman, M. and Levy, A.A. (2002) Gene loss, silencing and activation in a newly synthesized wheat allotetraploid. Genetics 160: 1651-1659.
22. Labra, M., Ghiani, A., Citterio, S., Sgorbati, S., Sala, F., Vannini, C. et al. (2002) Analysis of cytosine methylation pattern in response to water deficit in pea root tips. Plant Biol. 4: 694-699.
23. Li, L.C. and Dahiya, R. (2002) Meth Primer: designing primers for methylation PCRs. Bioinformatics 18: 1427-1431.
24. Li, X.Y., Wang, X.F., He, K., Ma, Y.Q., Su, N., He, H. et al. (2008) High-resolution mapping of epigenetic modifications of the rice genome uncovers interplay between DNA methylation, histone methylation, and gene expression. Plant Cell 20: 259-276.
25. Liu, C., Li, S., Wang, M.C. and Xia, G.M. (2012) A transcriptomic analysis reveals the nature of salinity tolerance of a wheat introgression line. Plant Mol. Biol. 78: 159-169.
26. Liu, S.W., Zhao, S.Y., Chen, F.G. and Xia, G.M. (2007) Generation of novel high quality HMW-GS genes in two introgression lines of Triticum aestivum/Agropyron elongatum. BMC Evol. Biol. 7: 76.
27. Lukens, L.N., Pires, J.C., Leon, E., Vogelzang, R., Oslach, L. and Osborn, T. (2006) Patterns of sequence loss and cytosine methylation within a population of newly resynthesized Brassica napus allopolyploids. Plant Physiol. 140: 336-348.
28. McClintock, B. (1984) The significance of responses of the genome to challenge. Science 226: 792-801.
29. Meyer, P., Niedenhof, I. and Lohuis, M.T. (1994) Evidence for cytosine methylation of non-symmetrical sequences in transgenic Petunia hybrida. EMBO J. 13: 2084-2088.
30. Nan, X., Ng, H.H., Johnson, C.A., Laherty, C.D., Turner, B.M., Eisenman, R.N. et al. (1998) Transcriptional repression by the methyl-CpG binding protein MeCP2 involves a histone deacetylase complex. Nature 393: 386-389.
31. Ng, H.H., Zhang, Y., Hendrich, B., Johnson, C.A., Turner, B.M., Erdjument-Bromage, H. et al. (1999) MBD2 is a transcriptional repressor belonging to the MeCP1 histone deacetylase complex. Nat. Genet. 23: 58-61.
32. Peng, Z.Y., Wang, M.C., Li, F., Lv, H.J., Li, C.L. and Xia, G.M. (2009) A proteomic study of the response to salinity and drought stress in an introgression strain of bread wheat. Mol. Cell. Proteomics 8: 2676-2686.
33. Shaked, H., Kashkush, K., Ozkan, H., Feldman, M. and Levy, 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.
34. Shan, L., Li, C.L., Chen, F., Zhao, S.Y. and Xia, G.M. (2008) A Bowman-Birk type protease inhibitor is involved in the tolerance to salt stress in wheat. Plant Cell Environ. 31: 1128-1137.
35. Siegfried, Z., Eden, S., Mendelsohn, M., Feng, X., Tsuberi, B.Z. and Cedar, H. (1999) DNA methylation represses transcription in vivo. Nat. Genet. 22: 203-206.
36. Steward, N., Ito, M., Yamakuchi, Y., Koizumi, N. and Sano, H. (2002) Periodic DNA methylation in maize nucleosomes and demethylation by environmental stress. J. Biol. Chem. 277: 37741-37746.
37. Wada, Y., Miyamoto, K., Kusano, H. and Sano, H. (2004) Association between up-regulation of stress-responsive genes and hypomethylation of genomic DNA in tobacco plants. Mol. Genet. Genomics 271: 658-666.
38. Wang, J., Xiang, F.N., Xia, G.M. and Chen, H.M. (2004) Transfer of small chromosome fragments of Agropyron elongatum to wheat chromosome via asymmetric somatic hybridization. Sci. China Ser. C 47: 434-441.
39. Watt, F. and Molloy, P.L. (1988) Cytosine methylation prevents binding to DNA of a HeLa cell transcription factor required for optimal expression of the adenovirus major late promoter. Genes Dev. 2: 1136-1143.
40. Weimberg, R. and Shannon, M.C. (1988) Vigor and salt tolerance in 3 lines of tall wheatgrass. Physiol. Plant. 73: 232-237.
41. Winkel-Shirley, B. (2002) Biosynthesis of flavonoids and effects of stress. Curr. Opin. Plant Biol. 5: 218-223.
42. Xia, G.M. (2009) Progress of chromosome engineering mediated by asymmetric somatic hybridization. J. Genet. Genomics 36: 547-556.
43. Xu, C.H., Wang, M., Zhou, L., Quan, T.Y. and Xia, G.M. (2013) Heterologous expression of the wheat aquaporin gene TaTIP2;2 compromises the abiotic stress tolerance of Arabidopsis thaliana. PLoS One 8: e63033.
44. Zhang, X.Y., Yazaki, J., Sundaresan, A., Cokus, S., Chan, S.W., Henderson, I.R. et al. (2006) Genome-wide high-resolution mapping and functional analysis of DNA methylation in Arabidopsis. Cell 126: 1189-1201.
45. Zhang, Y., Ng, H.H., Erdjument-Bromage, H., Tempst, P., Bird, A. and Reinberg, D. (1999) Analysis of the NuRD subunits reveals a histone deacetylase core complex and a connection with DNA methylation. Genes Dev. 13: 1924-1935.
46. Zilberman, D., Gehring, M., Tran, R.K., Ballinger, T. and Henikoff, S. (2007) Genome-wide analysis of Arabidopsis thaliana DNA methylation uncovers an interdependence between methylation and transcription. Nat. Genet. 39: 61-69.