Cytosine methylation changes in the ice plant Ppc1 promoter during transition from C3 to Crassulacean acid metabolism

Plant Science

Volumn 178, Issue 1, 2010, Pages 41-46

  Huang, Nu Chuan ^a   Li, Chang Hua ^a   Lee, Jun Yi ^a   Yen, Hungchen Emilie ^a  

^a NATIONAL CHUNG HSING UNIVERSITY   (Taiwan)

Author keywords

CAM induction; DNA methylation; Mesembryanthemum crystallinum; Phosphoenolpyruvate carboxylase

Indexed keywords

CRASSULACEAE; MESEMBRYANTHEMUM; MESEMBRYANTHEMUM CRYSTALLINUM;

EID: 70449530597     PISSN: 01689452     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.plantsci.2009.10.005     Document Type: Article

References (36)

1. Cushman J.C., and Borland A.M. Induction of Crassulacean acid metabolism by water limitation. Plant Cell Environ. 25 (2002) 295-310
2. Brulfert J., Guerrier D., and Queiroz O. Photoperiodism and Crassulacean acid metabolism. Planta 154 (1982) 332-338
3. Brulfert J., Kluge M., Guclu S., and Queiroz O. Interaction of photoperiod and drought as CAM inducing factors in Kalanchoe blossfeldiana Poelln. cv. Tom Thumb. J. Plant Physiol. 133 (1988) 222-227
4. 2 exchange and control of the expression of Crassulacean acid metabolism in Mesembryanthemum crystallinum. Plant Physiol. 143 (2007) 98-107
5. Wanek W., Huber W., Arndt S.K., and Popp M. Mode of photosynthesis during different life stages of hemiepiphytic Clusia species. Funct. Plant Biol. 29 (2002) 725-732
6. 3 photosynthesis and Crassulacean acid metabolism during development and during water stress. Plant Cell Environ. 31 (2008) 484-491
7. 3 photosynthetic characteristics or performing Crassulacean acid metabolism. Plant Physiol. 69 (1982) 300-307
8. Cushman J.C., Meyer G., Michalowski C.B., Schmitt J.M., and Bohnert H.J. Salt stress leads to differential expression of two isogenes of phosphoenolpyruvate carboxylase during Crassulacean acid metabolism induction in the common ice plant. Plant Cell 1 (1989) 715-725
9. Schaeffer H.J., Forsthoefel N.R., and Cushman J.C. Identification of enhancer and silencer regions involved in salt-responsive expression of Crassulacean acid metabolism (CAM) genes in the facultative halophyte Mesembryanthemum crystallinum. Plant Mol. Biol. 28 (1995) 205-218
10. Cushman J.C., and Bohnert H.J. Salt stress alters A/T-rich DNA-binding factor interactions within the phosphoenolpyruvate carboxylase promoter from Mesembryanthemum crystallinum. Plant Mol. Biol. 20 (1992) 411-424
11. Henderson I.R., and Jacobsen S.E. Epigenetic inheritance in plants. Nature 447 (2007) 418-424
12. Jullien P.E., Kinoshita T., Ohad N., and Berger F. Maintenance of DNA methylation during the Arabidopsis life cycle is essential for parental imprinting. Plant Cell 18 (2006) 1360-1372
13. Vaillant I., Tutois S., Jasencakova Z., Douet J., Schubert I., and Tourmente S. Hypomethylation and hypermethylation of the tandem repetitive 5S rRNA genes in Arabidopsis. Plant J. 54 (2008) 299-309
14. Cokus S.J., Feng S., Zhang X., Chen Z., Merriman B., Haudenschild C.D., Pradhan S., Nelson S.F., Pellegrini M., and Jacobsen S.E. Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning. Nature 452 (2008) 215-219
15. Lister R., O'Malley R.C., Tonti-Filippini J., Gregory B.D., Berry C.C., Millar A.H., and Ecker J.R. Highly integrated single-base resolution maps of the epigenome in Arabidopsis. Cell 133 (2008) 523-536
16. Tran R.K., Henikoff J.G., Zilberman D., Ditt R.F., Jacobsen S.E., and Henikoff S. DNA methylation profiling identifies CG methylation clusters in Arabidopsis genes. Curr. Biol. 15 (2005) 154-159
17. Zhang X., Yazaki J., Sundaresan A., Cokus S., Chan S.W., Chen H., Henderson I.R., Shinn P., Pellegrini M., Jacobsen S.E., and Ecker J.R. Genome-wide high-resolution mapping and functional analysis of DNA methylation in Arabidopsis. Cell 126 (2006) 1189-1201
18. Zhang X., Shiu S., Cal A., and Borevitz J.O. Global analysis of genetic, epigenetic and transcriptional polymorphisms in Arabidopsis thaliana using whole genome tiling arrays. PLoS Genet. 4 (2008) 1-12
19. Burn J.E., Bagnall D.J., Metzger J.M., Dennis E.S., and Peacock W.J. DNA methylation, vernalization, and the initiation of flowering. Proc. Natl. Acad. Sci. U.S.A. 90 (1993) 287-291
20. Steward N., Ito M., Yamaguchi Y., Koizumi N., and Sano H. Periodic DNA methylation in maize nucleosomes and demethylation by environmental stress. J. Biol. Chem. 277 (2002) 37741-37746
21. Dyachenko O.V., Zakharchenko N.S., Shevchuk T.V., Bohnert H.J., Cushman J.C., and Buryanov Ya.I. Effect of hypermethylation of CCWGG sequences in DNA of Mesembryanthemum crystallinum plants on their adaptation to salt stress. Biochemistry (Moscow) 71 (2006) 461-465
22. Frommer M., McDonald L.E., Millar D.S., Collis C.M., Watt F., Grigg G.W., Molloy P.L., and Paul C.L. A genomic sequencing protocol that yields a positive display of 5-methylcytosine residues in individual DNA strands. Proc. Natl. Acad. Sci. U.S.A. 89 (1992) 1827-1831
23. Herman J.G., Graff J.R., Myöhänen S., Nelkin B.D., and Baylin S.B. Methylation-specific PCR: a novel PCR assay for methylation status of CpG islands. Proc. Natl. Acad. Sci. U.S.A. 93 (1996) 9821-9826
24. Li L.-C., and Dahiya R. MethPrimer: designing primers for methylation PCRs. Bioinformatics 18 (2002) 1427-1431
25. Ruiz-Garcia L., Cervera M.T., and Martinez-Zapater J.M. DNA methylation increases throughout Arabidopsis development. Planta 222 (2005) 301-306
26. Foster J.G., Edwards G.E., and Winter K. Changes in levels of phosphoenolpyruvate carboxylase with induction of Crassulacean acid metabolism in Mesembryanthemum crystallinum L. Plant Cell Physiol. 23 (1982) 585-594
27. Michalowski C.B., Olson S.W., Pipenbrock P., Schmitt J.M., and Bohnert H.J. Time course of mRNA induction elicited by salt stress in the common ice plant (Mesembryanthemum crystallinum). Plant Physiol. 89 (1989) 811-816
28. Chu C., Dai Z., Ku M.S.B., and Edwards G.E. Induction of Crassulacean acid metabolism in the facultative halophyte Mesembryanthemum crystallinum by abscisic acid. Plant Physiol. 93 (1990) 1253-1260
29. Yen S.-K., Chung M.-C., Chen P.-C., and Yen H.E. Environmental and developmental regulation of a wound-induced cell wall protein WI12 in halophyte Mesembryanthemum crystallinum. Plant Physiol. 127 (2001) 517-528
30. Choi C.-S., and Sano H. Abiotic-stress induces demethylation and transcriptional activation of a gene encoding a glycerophosphodiesterase-like protein in tobacco plants. Mol. Genet. Genomics 277 (2007) 589-600
31. Rombauts S., Florquin K., Lescot M., Marchal K., Rouze P., and van de Peer Y. Computational approaches to identify promoters and cis regulatory elements in plant genomes. Plant Physiol. 132 (2003) 1162-1176
32. Cao X., and Jacobsen S.E. Locus-specific control of asymmetric and CpNpG methylation by the DRM and CMT3 methyltransferase genes. Proc. Natl. Acad. Sci. U.S.A. 99 Suppl. 4 (2002) 16491-16498
33. Saze H., Scheid O.M., and Paszkowski J. Maintenance of CpG methylation is essential for epigenetic inheritance during plant gametogenesis. Nat. Genet. 34 (2003) 65-69
34. Kitazawa R., and Kitazawa S. Methylation status of a single CpG locus 3 bases upstream of TATA-box of receptor activator of nuclear factor-kappaB ligand (RANKL) gene promoter modulates cell- and tissue-specific RANKL expression and osteoclastogenesis. Mol. Endocrinol. 21 (2007) 148-158
35. Clark S.J., Harrison J., Paul C.L., and Frommer M. High sensitivity mapping of methylated cytosines. Nucleic Acids Res. 22 (1994) 2990-2997
36. Harrison J., Stirzaker C., and Clark S.J. Cytosines adjacent to methylated CpG sites can be partially resistant to conversion in genomic bisulfite sequencing leading to methylation artifacts. Anal. Biochem. 264 (1998) 129-132