Allele-specific histone lysine methylation marks regulatory regions at imprinted mouse genes

EMBO Journal

Volumn 21, Issue 23, 2002, Pages 6560-6570

  Fournier, Cécile ^a   Goto, Yuji ^a   Ballestar, Esteban ^a,b   Delaval, Katia ^a   Hever, Ann M ^a   Esteller, Manel ^a,b   Feil, Robert ^a  

^a CNRS   (France)

^b Centro Nacional de Investigations Oncológicas   (Spain)

Author keywords

Histone methylation; Igf2r; Imprinting Snrpn; U2af1 rs1

Indexed keywords

GENE PRODUCT; HISTONE; HISTONE DEACETYLASE; HISTONE H3; LYSINE;

ACETYLATION; ALLELE; ALLELISM; ANIMAL CELL; ARTICLE; CHROMATIN; CPG ISLAND; GENE EXPRESSION REGULATION; GENE LOCUS; GENOME IMPRINTING; METHYLATION; MOUSE; NONHUMAN; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN PROCESSING;

ANIMALS; AUTOANTIGENS; DNA METHYLATION; GENOMIC IMPRINTING; HISTONES; LYSINE; MICE; MICE, INBRED C57BL; NERVE TISSUE PROTEINS; NUCLEAR PROTEINS; PROTEINS; RIBONUCLEOPROTEINS; RIBONUCLEOPROTEINS, SMALL NUCLEAR;

ANIMALIA; EUKARYOTA; RODENTIA;

EID: 0037011058     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1093/emboj/cdf655     Document Type: Article

References (54)

1. Arney, K.L, Bao, S., Bannister, A.J., Kouzarides, T. and Surani, M.A. (2002) Histone methylation defines epigenetic asymmetry in the mouse zygote. Int. J. Dev. Biol., 46, 317-320.
2. Ballestar, E. and Wolffe, A.P. (2001) Methyl-CpG-binding proteins. Targeting specific gene repression. Eur. J. Biochem., 268, 1-6.
3. Bannister, A.J., Schneider, R. and Kouzarides, T. (2002) Histone methylation. Dynamic or static? Cell, 109, 801-806.
4. Bernstein, B.E., Humphrey, E.L., Erlich, R.L., Schneider, R., Bouman, P., Liu, J.S., Kouzarides, T. and Schreiber, S.L. (2002) Methylation of histone H3 Lys 4 in coding regions of active genes. Proc. Natl. Acad. Sci. USA, 99, 8695-8700.
5. Bielinska, B, Blaydes, S.M., Buiting, K., Yang, T., Krajewska-Walasek, M., Horsthemke, B. and Brannan, C.I. (2000) De novo deletions of SNRPN exon 1 in early human and mouse embryos result in a paternal to maternal imprint switch. Nat. Genet., 25, 74-78.
6. Bird, A. (2002) DNA methylation patterns and epigenetic memory. Genes Dev., 16, 6-21.
7. Bird, A.P. and Wolffe, A.P. (1999) Methylation-induced repression - Belts, braces and chromatin. Cell, 99, 451-454.
8. Boggs, B.A., Chueng, P., Heard, E., Spector, D.L., Chinault, A.C. and Allis, C.D. (2001) Differentially methylated forms of histone H3 show unique association patterns with inactive human X chromosome. Nat. Genet., 30, 73-80.
9. Cowell, I.G. et al. (2002) Heterochromatin, HP1 and methylation at lysine 9 of histone H3 in animals. Chromosoma, 111, 22-36.
10. Drewell, R.A., Goddard, C.J., Thomas, J.O. and Surani, M.A. (2002) Methylation-dependent silencing at the H19 imprinting control centre by MeCP2. Nucleic Acids Res., 30, 1139-1144.
11. Feil, R. and Khosla, S. (1999) Genomic imprinting in mammals, an interplay between chromatin and DNA methylation? Trends Genet., 15, 431-435.
12. Feil, R., Boyano, M.D., Allen, N.D. and Kelsey, G. (1997) Parental chromosome-specific chromatin conformation in the imprinted U2af1-rs1 gene in the mouse. J. Biol. Chem., 272, 20893-20900.
13. Feng, Q. and Zhang, Y. (2001) The MeCP1 complex represses transcription through preferential binding, remodeling and deacetylating methylated nucleosomes. Genes Dev., 15, 827-832.
14. Fuks, F., Burgers, W.A., Brehm, A., Hughes-Davies, L. and Kouzarides, T. (2000) DNA methyltransferase Dnmtl associates with histone deacetylase activity. Nat. Genet., 24, 88-91.
15. Gendrel, A.V., Lippman, Z., Yordan, C., Colot, V. and Martienssens, R. (2002) Dependence of heterochromatic histone H3 methylation patterns on the Arabidopsis gene DDM1. Science, 20, 20.
16. Grandjean, V., O'Neill, L., Sado, T., Turner, B. and Ferguson-Smith, A. (2001) Relationship between DNA methylation, histone H4 acetylation and gene expression in the mouse imprinted Igf2-H19 domain. FEBS Lett., 488, 165-169.
17. Gregory, R.I., Randall, T.E., Johnson, C.A., Khosla, S., Hatada, I., O'Neill, L.P., Turner, B.M. and Feil, R. (2001) DNA methylation is linked to deacetylation of histone H3, but not H4, on the imprinted genes Snrpn and U2af1-rs1. Mol. Cell. Biol., 21, 5426-5436.
18. Gregory, R.I., O'Neill, L.P., Randall, T.E., Fournier, C., Khosla, S., Turner, B.M. and Feil, R. (2002) Inhibition of histone deacetylases alters chromatin conformation at the imprinted mouse U2af1-rs1 locus in mouse embryonic stem cells. J. Biol. Chem., 277, 11728-11734.
19. Heard, E., Rougeulle, C., Amaud, D., Avner, P., Allis, C.D. and Spector, D.L. (2001) Methylation of histone H3 at lys-9 is an early mark on the X chromosome during X inactivation. Cell, 107, 727-738.
20. Hendrich, B. and Bird, A.P. (1998) Identification and characterization of a family of mammalian methyl-CpG binding proteins. Mol. Cell. Biol., 18, 6538-6547.
21. Hendrich, B., Guy, J., Ramsahoye, B., Wilson, V.A. and Bird, A. (2001) Closely related proteins MBD2 and MBD3 play distinctive but interactive roles in mouse development. Genes Dev., 15, 710-723.
22. Hu, J.F., Balaguru, K.A., Ivaturu, R.D., Oruganti, H., Li, T., Nguyen, B.T., Vu, T.H. and Hoffman, A.R. (1999) Lack of reciprocal genomic imprinting of sense and antisense RNA of mouse insulin-like growth factor II receptor in the central nervous system. Biochem. Biophys. Res. Commun., 257, 604-608.
23. Hu, J.-F., Pham, J., Dey, I., Li, T., Vu, T.H. and Hoffman, A.R. (2000) Allele-specific histone acetylation accompanies genomic imprinting of the insulin-like growth factor II receptor gene. Endocrinology, 141, 4428-4435.
24. Jenuwein, T. and Allis, C.D. (2001) Translating the histone code. Science, 293, 1074-1079.
25. Jones, P.L., Veenstra, G.J., Wade, P.A., Vermaak, D., Kass, S.U., Landsberger, N., Strouboulis, J. and Wolffe, A.P. (1998) Methylated DNA and MeCP2 recruit histone deacetylase to repress transcription. Nat. Genet., 19, 187-191.
26. Lachner, M., O'Carroll, D., Rea, S., Mechtler, K. and Jenuwein, T. (2001). Methylation of histone H3 lysine-9 creates a binding site for HP1 protein. Nature, 410, 116-120.
27. Litt, M.D., Simpson, M., Gaszner, M., Allis, C.D. and Felsenfeld, G. (2001) Correlation between histone lysine methylation and developmental changes at the chicken β-globin locus. Science, 293, 2453-2455.
28. Lorincz, M.C., Schübeler, D. and Groudine, M. (2001) Methylation-mediated proviral silencing is associated with MeCP2 recruitment and localized histone H3 deacetylation. Mol. Cell. Biol., 21, 7913-7922.
29. Maison, C., Bailey, D., Peters, A.H., Quivy, J.P. Roche, D., Taddei, A., Lachner, M., Jenuwein, T. and Almouzni, G. (2002) Higher-order structure in pericentric heterochromatin involves a distinct pattern of histone modification and an RNA component. Nat. Genet., 19, 329-334.
30. Nakayama, J., Rice, J.C., Strahl, B.D., Allis, C.D. and Grewal, S.I. (2001). Role of histone H3 lysine 9 methylation in epigenetic control of heterochromatin assembly. Science, 292, 110-113.
31. Nan, X., Ng, H.-H., Johnson, C.A., Laherty, C.D., Turner, B.M., Eisenman, R.N. and Bird, A. (1998) Transcriptional repression by the methyl CpG binding protein MeCP2 involves a histone deacetylase complex. Nature. 393, 386-389.
32. Ng, H.-H., Zhang, Y., Hendrich, B., Johnson, C.A., Turner, B.M., Erdjument-Bromage, H., Tempst, P., Reinberg, D. and Bird, A. (1999) MBD2 is a transcriptional repressor belonging to the MeCP1 histone deacetylase complex. Nat. Genet., 23, 58-61.
33. Ng, H.-H., Jeppesen, P. and Bird, A. (2000) Active repression of methylated genes by the chromosomal protein MBD1. Mol. Cell. Biol., 20, 1394-1406.
34. Nicholls, R.D., Saitoh, S. and Horsthemke, B. (1998) Imprinting in Prader-Willi and Angelman syndromes. Trends Genet., 14, 194-200.
35. Nishioka, K., Chuikov, S., Sarma, K., Erdjument-Bromage, H., Allis, D., Tempst, P. and Reinberg, D. (2002) Set9, a novel histone H3 methyltransferase that facilitates transcription by precluding histone tail modifications required for heterochromatin formation. Genes Dev., 16, 479-489.
36. Noma, K-I., Allis, C.D. and Grewal, S.I.S. (2001) Transitions in distinct histone H3 methylation patterns at the heterochromatin domain boundaries. Science, 293, 1150-1155.
37. Peters, A.H. et al. (2001a) Loss of Suv39h histone methyltransferases impairs mammalian heterochromatin and genome stability. Cell, 107, 323-337.
38. Peters, A.H., Mermoud, J.E., O'Carroll, D., Pagani, M., Schweizer, D., Brockdorff, N. and Jenuwein, T. (2001b) Histone H3 methylation is an epigenetic imprint of facultative heterochromatin. Nat. Genet., 30, 77-80.
39. Reik, W. and Walter, J. (2001) Genomic imprinting: Parental influence on the genome. Nat. Rev. Genet., 2, 21-32.
40. Saito, M. and Ishikawa, F. (2002) The mCpG-binding domain of human MBD3 does not bind to mCpG but interacts with NuRD/Mi2 components HDACl and MTA2. J. Biol. Chem., 277, 35434-35439.
41. Shemer, R., Birger, Y., Riggs, A.D. and Razin, A. (1997) Structure of the imprinted mouse Snrpn gene and establishment of its parental-specific methylation pattern. Proc. Natl. Acad. Sci. USA, 94, 10267-10272.
42. Shemer, R., Hersko, A.Y., Perk, J., Mostoslavsky, R., Tsuberi, B.Z., Cedar, H., Buiting, K. and Razin, A. (2000) The imprinting box of the Prader-Willi/Angelman syndrome domain. Nat. Genet., 26, 440-443.
43. Shibata, H. et al. (1997) An oocyte-specific methylation imprint center in the mouse U2afbp-rs/U2af1-rs1 gene marks the establishment of allele-specific methylation during preimplantation development. Genomics, 44, 171-178.
44. Sleutels, F., Zwart, R. and Barlow, D.P. (2002) The non-coding Air RNA is required for silencing autosomal imprinted genes. Nature, 415, 810-813.
45. Stöger, R., Kibicka, P., Liu, C.G., Kafri, T., Razin, A., Cedar, H. and Barlow, D. (1993) Maternal-specific methylation of the imprinted mouse Igf2r locus identifies the expressed allele as carrying the imprinting signal. Cell, 73, 61-71.
46. Strahl, B.D. and Allis, C.D. (2000) The language of covalent histone modifications. Nature, 403, 41-45.
47. Surani, M.A. (1998) Imprinting and the initiation of gene silencing in the germ line. Cell, 93, 309-312.
48. Tachibana, M. et al. (2002) G9a histone methyltransferase plays a dominant role in euchromatic histone H3 lysine 9 methylation and is essential for early embryogenesis. Genes Dev., 16, 1779-1791.
49. Tamaru, H. and Selker, E.U. (2001) A histone H3 methyltransferase controls DNA methylation in Neurospora crassa. Nature, 414, 277-283.
50. Wade, P.A., Gegonne, A., Jones, P.L., Ballestar, E., Aubry, F. and Wolffe, A.P. (1999) Mi-2 complex couples DNA methylation to chromatin remodelling and histone deacetylation. Nat. Genet., 23, 62-66.
51. Wutz, A., Smrka, O.W., Schweifer, N., Schellander, K., Wagner, E.F. and Barlow, D.P. (1997) Imprinted expression of the Igf2r gene depends on an intronic CpG island, Nature, 389, 745-749.
52. Xin, Z., Allis, C.D. and Wagstaff, J. (2001) Parent-specific complementary patterns of histone H3 lysine 9 and H3 lysine 4 methylation at the Prader-Willi syndrome imprinting center. Am. J. Hum. Genet., 69, 1389-1394.
53. Zegerman, P., Canas, B., Pappin, D. and Kouzarides, T. (2002) Histone H3 lysine 4 methylation disrupts the binding of the nucleosome remodelling and deacetylase (NuRD) repressor complex. J. Biol. Chem., 277, 11621-11624.
54. 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.