An Arabidopsis SET domain protein required for maintenance but not establishment of DNA methylation

EMBO Journal

Volumn 21, Issue 24, 2002, Pages 6842-6852

  Malagnac, Fabienne ^b   Bartee, Lisa ^a   Bender, Judith ^a  

^a JOHNS HOPKINS BLOOMBERG SCHOOL OF PUBLIC HEALTH   (United States)

^b CNRS   (France)

Author keywords

DNA methylation; Epigenetics; Gene silencing; Histone methylation

Indexed keywords

CYTOSINE;

ALLELE; ARABIDOPSIS; ARTICLE; CORRELATION ANALYSIS; DNA METHYLATION; GENE; GENE LOCUS; GENE MUTATION; GENE REARRANGEMENT; GENE SILENCING; GENETIC STABILITY; HETEROCHROMATIN; MAMMAL; NONHUMAN; NUCLEOTIDE SEQUENCE; PAI2 GENE; PRIORITY JOURNAL; PROTEIN DOMAIN; SEQUENCE ANALYSIS;

ALDOSE-KETOSE ISOMERASES; AMINO ACID SEQUENCE; ARABIDOPSIS; ARABIDOPSIS PROTEINS; CLONING, MOLECULAR; CYTOSINE; DNA METHYLATION; DNA MUTATIONAL ANALYSIS; GENE SILENCING; HISTONE-LYSINE N-METHYLTRANSFERASE; HISTONES; MODELS, GENETIC; MOLECULAR SEQUENCE DATA; MUTATION; PHENOTYPE; PROTEIN BINDING; PROTEIN STRUCTURE, TERTIARY; SITE-SPECIFIC DNA METHYLTRANSFERASE (CYTOSINE-SPECIFIC); SULFITES; TRANSGENES;

ARABIDOPSIS; MAMMALIA;

EID: 12244271065     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1093/emboj/cdf687     Document Type: Article

References (41)

1. Bartee, L. and Bender, J. (2001) Two Arabidopsis methylation-deficiency mutations confer only partial effects on a methylated endogenous gene family. Nucleic Acids Res., 29, 2127-2134.
2. Bartee, L., Malagnac, F. and Bender, J. (2001) Arabidopsis cmt3 chromomethylase mutations block non-CG methylation and silencing of an endogenous gene. Genes Dev., 15, 1753-1758.
3. Baumbusch, L.O., Thorstensen, T., Krauss, V., Fischer, A., Naumann, K., Assalkhou, R., Schulz, I., Reuter, G. and Aalen, R.B. (2001) The Arabidopsis thaliana genome contains at least 29 active genes encoding SET domain proteins that can be assigned to four evolutionarily conserved classes. Nucleic Acids Res., 29, 4319-4333.
4. Bell, C.J. and Ecker, J.R. (1994) Assignment of 30 microsatellite loci to the linkage map of Arabidopsis. Genomics, 19, 137-144.
5. Bender, J. (2001) A vicious cycle: RNA silencing and DNA methylation in plants. Cell, 106, 129-132.
6. Bender, J. and Fink, G.R. (1995) Epigenetic control of an endogenous gene family is revealed by a novel blue fluorescent mutant of Arabidopsis. Cell, 83, 725-734.
7. Bender, J. and Fink, G.R. (1998) A Myb homologue, ATR1, activates tryptophan gene expression in Arabidopsis. Proc. Natl. Acad. Sci. USA, 95, 5655-5660.
8. Bevan, M. (1984) Binary Agrobacterium vectors for plant transformation. Nucleic Acids Res., 12, 8711-8721.
9. Cao, X. and Jacobsen, S.E. (2002) Role of the Arabidopsis DRM methyltransferases in de novo DNA methylation and gene silencing. Curr. Biol., 12, 1138-1144.
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. Dennis, K., Fan, T., Geiman, T., Yan, Q. and Muegge, K. (2001) Lsh, a member of the SNF2 family, is required for genome-wide methylation. Genes Dev., 15, 2940-2944.
12. Finnegan, E.J., Peacock, W.J. and Dennis, E.S. (1996) Reduced DNA methylation in Arabidopsis thaliana results in abnormal plant development. Proc. Natl. Acad. Sci. USA, 93, 8449-8454.
13. Frommer, M., McDonald, L.E., Millar, D.S., Collis, C.M., Watt, F., Grigg, G.W., Molloy, P.L. and Paul, C.L. (1992) A genomic sequencing protocol that yields a positive display of 5-methylcytosine residues in individual DNA strands. Proc. Natl. Acad. Sci. USA, 89, 1827-1831.
14. Gaudin, V., Libault, M., Pouteau, S., Juul, T., Zhao, G., Lefebvre, D. and Grandjean, O. (2001) Mutations in like heterochromatin protein 1 affect flowering time and plant architecture in Arabidopsis. Development, 128, 4847-4858.
15. Gendrel, A.V., Lippman, Z., Yordan, C., Colot, V. and Martienssen, R. (2002) Dependence of heterochromatic histone H3 methylation patterns on the Arabidopsis gene DDM1. Science, 297, 1871-1873.
16. Jackson, J.P., Lindroth, A.M., Cao, X. and Jacobsen, S.E. (2002) Control of CpNpG DNA methylation by the KRYPTONITE histone H3 methyltransferase. Nature, 416, 556-560.
17. Jeddeloh, J.A., Bender, J. and Richards, E.J. (1998) The DNA methylation locus DDM1 is required for maintenance of gene silencing in Arabidopsis. Genes Dev., 12, 1714-1725.
18. Jeddeloh, J.A., Stokes, T.L. and Richards, E.J. (1999) Maintenance of genomic methylation requires a SWI2/SNF2-like protein. Nat. Genet., 22, 94-97.
19. Jenuwein, T. and Allis, C.D. (2001) Translating the histone code. Science, 293, 1074-1080.
20. Johnson, L.M., Cao, X. and Jacobsen, S.E. (2002) Interplay between two epigenetic marks: DNA methylation and histone H3 lysine 9 methylation. Curt. Biol., 12, 1360-1367.
21. Konieczny, A. and Ausubel, F.M. (1993) A procedure for mapping Arabidopsis mutations using co-dominant ecotype-specific PCR-based markers. Plant J., 4, 403-410.
22. Kouzminova, E. and Selker, E.U. (2001) dim-2 encodes a DNA methyltransferase responsible for all known cytosine methylation in Neurospora. EMBO J., 20, 4309-4323.
23. Li, E., Bestor, T.H. and Jaenisch, R. (1992) Targeted mutation of the DNA methyltransferase gene results in embryonic lethality. Cell, 69, 915-926.
24. Lindroth, A.M., Cao, X., Jackson, J.P., Zilberman, D., McCallum, C.M., Henikoff, S. and Jacobsen, S.E. (2001) Requirement of Chromomethylase3 is required for maintenance of CpXpG methylation. Science, 292, 2077-2080.
25. Luff, B., Pawlowski, L. and Bender, J. (1999) An inverted repeat triggers cytosine methylation of identical sequences in Arabidopsis. Mol. Cell, 3, 505-511.
26. Martienssen, R.A. and Colot, V. (2001) DNA methylation and epigenetic inheritance in plants and filamentous fungi. Science, 293, 1070-1074.
27. Matzke, M., Matzke, A.J.M. and Kooter, J.M. (2001) RNA: Guiding gene silencing. Science, 293, 1080-1083.
28. Melquist, S., Luff, B. and Bender, J. (1999) Arabidopsis PA1 gene arrangements, cytosine methylation and expression. Genetics, 153, 401-413.
29. Nakayama, J., Rice, J.C., Strahl, B.D., Allis, C.D. and Grewal, S.I.S. (2001) Role of histone H3 lysine 9 methylation in epigenetic control of heterochromatin assembly. Science, 292, 110-113.
30. Noma, K., Allis, C.D. and Grewal, S. (2001) Transitions in distinct histone H3 methylation patterns at the heterochromatin domain boundaries. Science, 293, 1150-1155.
31. Okano, M., Bell, D.W., Haber, D.A. and Li, E. (1999) DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development. Cell, 99, 247-257.
32. Papa, C.M., Springer, N.M., Muszynski, M.G., Meeley, R. and Kaeppler, S.M. (2001) Maize chromomethylase Zea methyltransferase2 is required for CpNpG methylation. Plant Cell, 13, 1919-1928.
33. Peters, A.H.F.M. et al. (2001) Loss of the Suv39h histone methyltransferases impairs mammalian heterochromatin and genome stability. Cell, 107, 323-337.
34. Rea, S. et al. (2000) Regulation of chromatin structure by site-specific histone H3 methyltransferases. Nature, 406, 593-599.
35. Richards, E.J. and Elgin, S.C.R. (2002) Epigenetic codes for heterochromatin formation and silencing: Rounding up the usual suspects. Cell, 108, 489-500.
36. Ronemus, M.J., Galbiati, M., Ticknor, C., Chen, J. and Dellaporta, S.L. (1996) Demethylation-induced developmental pleiotropy in Arabidopsis. Science, 273, 654-657.
37. Tamaru, H. and Selker, E.U. (2001) A histone H3 methyltransferase controls DNA methylation in Neurospora crassa. Nature, 414, 277-283.
38. Tompa, R., McCallum, C. M., Delrow, J., Henikoff, J.G., van Steensel, B. and Henikoff, S. (2002) Genome-wide profiling of DNA methylation reveals transposon targets of Chromomethylase3. Curr. Biol., 12, 65-68.
39. Vongs, A., Kakutani, T., Martienssen, R.A. and Richards, E.J. (1993) Arabidopsis thaliana DNA methylation mutants. Science, 260, 1926-1928.
40. Yoder, J.A., Walsh, C.P. and Bestor, T.H. (1997) Cytosine methylation and the ecology of intragenomic parasites. Trends Genet., 13, 335-340.
41. Wassenegger, M. (2000) RNA-directed DNA methylation. Plant Mol. Biol., 43, 203-220.