Histone deacetylase directs the dominant silencing of transcription in chromatin: Association with MeCP2 and the Mi-2 chromodomain SWI/SNF ATPase

Cold Spring Harbor Symposia on Quantitative Biology

Volumn 63, Issue , 1998, Pages 435-445

  Wade, P A ^a   Jones, P L ^a   Vermaak, D ^a   Veenstra, G J C ^a   Imhof, A ^a   Sera, T ^a   Tse, C ^b   Ge, H ^a   Shi, Y B ^a   Hansen, J C ^b   Wolffe, A P ^a  

^a EUNICE KENNEDY SHRIVER NATIONAL INSTITUTE OF CHILD HEALTH AND HUMAN DEVELOPMENT   (United States)

^b UNIVERSITY OF TEXAS HEALTH SCIENCE CENTER AT SAN ANTONIO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

HISTONE DEACETYLASE; ADENOSINE TRIPHOSPHATASE; CHROMATIN ASSEMBLY FACTOR 1; HISTONE ACETYLTRANSFERASE PCAF; METHYL CPG BINDING PROTEIN 2; PROTEIN P55; PROTEIN SWI; RETINOBLASTOMA BINDING PROTEIN 4; RETINOBLASTOMA PROTEIN; TRANSCRIPTION FACTOR GAL4; TRANSCRIPTION FACTOR II; TRANSCRIPTION FACTOR SNF;

ACETYLATION; ANIMAL CELL; CHROMATIN STRUCTURE; CONFERENCE PAPER; ENZYME ACTIVITY; GENE EXPRESSION; GENE REPRESSION; GENE SILENCING; NONHUMAN; PRIORITY JOURNAL; TRANSCRIPTION REGULATION; XENOPUS; CHROMATIN; DEACETYLATION; DNA METHYLATION; GENETIC TRANSCRIPTION; HISTONE ACETYLATION; HISTONE MODIFICATION; HUMAN; OLIGOMERIZATION; PROTEIN LOCALIZATION; PROTEIN PROTEIN INTERACTION; WD REPEAT; XENOPUS LAEVIS;

EID: 0032450550     PISSN: 00917451     EISSN: None     Source Type: Book Series    
DOI: 10.1101/sqb.1998.63.435     Document Type: Conference Paper

References (72)

1. Alland L., Muhle R., Hou H., Jr., Potes J., Chin L., Schreiber-Agus N., and De Pinho R.A. 1997. Role of NCoR and histone deacetylase in Sin3-mediated transcriptional and oncogenic repression. Nature 387: 49.
2. Almouzni G. and Wolffe A.P. 1993. Replication coupled chromatin assembly is required for the repression of basal transcription in vivo. Genes Dev. 7: 2033.
3. Almouzni G., Khochbin S., Dimitrov S., and Wolffe A.P. 1994. Histone acetylation influences both gene expression and development of Xenopus laevis. Dev. Biol. 165: 654.
4. Bauer W.R., Hayes J.J., White J.H., and Wolffe A.P. 1994. Nucleosome structural changes due to acetylation. J. Mol. Biol. 236: 685.
5. Brownell J.E. and Allis C.D. 1996. Special HATs for special occasions: Linking histone acetylation to chromatin assembly and gene activation. Curr. Opin. Genet. Dev. 6: 176.
6. Brownell J.E., Zhou J., Ranalli T., Kobayashi R., Edmondson D.G., Roth S.Y., and Allis C.D. 1996. Tetrahymena histone acetyltransferase A: A homolog to yeast Gcn5p linking histone acetylation to gene activation. Cell 84: 843.
7. Cary P.D., Crane-Robinson C., Bradbury E.M., and Dixon G.H. 1982. Effect of acetylation on the binding of N-terminal peptides of histone H4 to DNA. Eur. J. Biochem. 127: 137.
8. Covault J. and Chalkley R. 1980. The identification of distinct populations of acetylated histone. J. Biol. Chem. 255: 9110.
9. II250 is a bipartite protein kinase that phosphorylates the basal transcription factor RAP74. Cell 84: 781.
10. Edmonson D.G., Smith M.M., and Roth S.Y. 1996. Repression domain of the yeast global repressor Tup1 interacts directly with histones H3 and H4. Genes Dev. 10: 1247.
11. Fernandez J., Andrews L., and Mische S.M. 1994. An improved method for enzymatic digestion of polyvinylidene defluoride-bound proteins for internal sequence analysis. Anal. Biochem. 214: 112.
12. Freeman L., Kurumizaka H., and Wolffe A.P. 1996. Functional assays for assembly of histones H3 and H4 into the chromatin of Xenopus embryos. Proc. Natl. Acad. Sci. 93: 12780.
13. Garcia-Ramirez M., Rocchini C., and Ausio J. 1995. Modulation of chromatin folding by histone acetylation. J. Biol. Chem. 270: 17923.
14. Ge H., Martinez E., Chiang C.-M., and Roeder R.G. 1996. Activator-dependent transcription by mammalian RNA polymerase II: In vitro reconstitution with general transcription factors and cofactors. Methods Enzymol. 274: 57.
15. Grunstein M. 1997. Histone acetylation in chromatin structure and transcription. Nature 389: 349.
16. Gu W. and Roeder R.G. 1997. Activation of p53 sequence-specific DNA binding by acetylation of the p53 C-terminal domain. Cell 90: 595.
17. Hassig C.A., Fleischer T.C., Billin A.N., Schreiber S.L., and Ayer D.E. 1997. Histone deacetylase activity is required for full transcriptional repression by mSin 3A. Cell 89: 341.
18. Hassig C.A., Tong J.K., Fleischer T.C., Owa T., Grable P.G., Ayer D.E., and Schreiber S.L. 1998. A role for histone deacetylase activity in HDAC1-mediated transcriptional repression. Proc. Natl. Acad. Sci. 95: 3519.
19. Hecht A., Laroche T., Strahl-Bolsinger S., Gasser S.M., and Grunstein M. 1995. Histone H3 and H4 N-termini interact with SIRS and SIR4 proteins: A molecular model for the formation of heterochromatin in yeast. Cell 80: 583.
20. Hong L., Schroth G.P., Matthews H.R., Yau P., and Bradbury E.M. 1993. Studies of the DNA binding properties of the histone H4 amino terminus. J. Biol. Chem. 268: 305.
21. Howe L. and Ausio J. 1998. Nucleosome translational position, not histone acetylation, determines TFIIIA binding to nucleosomal Xenopus laevis 5S rRNA genes. Mol. Cell. Biol. 18: 1156.
22. Imhof A., Yang, X.J., Ogryzko, V.V., Nakatani, Y., Wolffe, A.P., and Ge, H. 1997. Acetylation of general transcription factors by histone acetyltransferases: Identification of a major site of acetylation in TFIIEβ. Curr. Biol. 7: 689.
23. Jones P.L., Wade P.A., Vermaak D., and Wolffe A.P. 1998a. Purification of MeCP2 containing deacetylases. Methods Mol. Biol. (in press).
24. Jones P.L., Veenstra G.J.C., Wade P.A., Vermaak D., Kass S.U., Landsberger N., Strouboulis J., and Wolffe A.P. 1998b. Methylated DNA and MeCP2 recruit histone deacetylase to repress transcription. Nat. Genet. 19: 187.
25. Kass S.U., Landsberger N., and Wolffe A.P. 1997a. DNA methylation directs a time-dependent repression of transcription initiation. Curr. Biol. 7: 157.
26. Kass S.U., Pruss D., and Wolffe A.P. 1997b. How does DNA methylation repress transcription? Trends Genet. 13: 444.
27. Krajewski W.A. and Becker P.B. 1998. Reconstitution of hy-peracetylated, DNase I-sensitive chromatin chracterized by high conformational flexibility of nucleosomal DNA. Proc. Natl. Acad. Sci. 95: 1540.
28. Kuo M.-H., Zhou J., Jambeck P., Churchill M.E.A., and Allis C.D. 1998. Histone acetyltransferase activity of yeast Gcn5p is required for the activation of target genes in vivo. Genes Dev. 12: 627.
29. Landsberger N. and Wolffe A.P. 1995. The role of chromatin and Xenopus heat shock transcription factor (XHSF1) in the regulation of the Xenopus hsp70 promoter in vivo. Mol. Cell. Biol. 15: 6013.
30. Lee D.Y., Hayes J.J., Pruss D., and Wolffe A.P. 1993. A positive role for histone acetylation in transcription factor binding to nucleosomal DNA. Cell 72: 73.
31. Luger K., Mader A.W., Richmond R.K., Sargent D.F., and Richmond T.J. 1997. X-ray structure of the nucleosome core particle at 2.8Å resolution. Nature 389: 251.
32. Lutter L.C., Judis L., and Paretti R.F. 1992. The effects of histone acetylation on chromatin topology in vivo. Mol. Cell. Biol. 12: 5004.
33. McGhee J.D., Nickol J.M., Felsenfeld G., and Rau D.C. 1983. Histone acetylation has little effect on the higher order following of chromatin. Nucleic Acids Res. 11: 4065.
34. Martinez-Balbas M.A., Tsukiyama T., Gdula D., and Wu C. 1998. Drosophila NURF-55, a WD repeat protein involved in histone metabolism. Proc. Natl. Acad. Sci. 95: 132.
35. Nagy L., Kao H.Y., Chakravarti D., Lin R.J., Hassig C.A., Ayer D.E., Schreiber S.L., and Evans R.M. 1997. Nuclear receptor repression mediated by a complex containing SMRT, mSin3A, and histone deacetylase. Cell 89: 373.
36. Nan X., Meehan R.R., and Bird A.P. 1993. Dissection of the methyl-CpG binding domain from the chromosomal protein MeCP2. Nucleic Acids Res. 21: 4886.
37. Neer E.J. and Smith T.F. 1996. G protein heterodimers: New structures propel new questions. Cell 84: 175.
38. Nightingale K.P., Wellinger R.E., Sogo J.M., and Becker P.B. 1998. Histone acetylation facilitates RNA polymerase II transcription of the Drosophila hsp26 gene in chromatin. EMBO J. 17: 2865.
39. Nilasena D.S., Trieu E.P., and Targoff I.N. 1995. Analysis of the Mi-2 autoantigen of dermatomyositis. Arthritis Rheum. 38: 123.
40. Norton V.G., Imai B.S., Yau P., and Bradbury E.M. 1989. Histone acetylation reduces nucleosome core particle linking number change. Cell 57: 449.
41. Ogryzko V.V., Schiltz R.L., Russanova V., Howard B.H., and Nakatani Y. 1996. The transcriptional coactivators p300 and CBP are histone acetyltransferases. Cell 87: 953.
42. Parthun M.R., Widom J., and Gottschling D.E. 1996. The major cytoplasmic histone acetyltransferase in yeast: Links to chromatin assembly and histone metabolism. Cell 87: 85.
43. Perry M. and Chalkley R. 1982. Histone acetylation increases the solubility of chromatin and occurs sequentially over most of the chromatin. J. Biol. Chem. 257: 7336.
44. Puig O.M., Belles E., Lopez-Rodas G., Sendra R., and Tordera V. 1998. Interaction between N-terminal domain of H4 and DNA is regulated by the acetylation degree. Biochim. Biophys. Acta 1397: 79.
45. Qian Y.W. and Lee E.Y-H.P. 1995. Dual retinoblastoma-binding proteins with properties related to a negative regulator of Ras in yeast. J. Biol. Chem. 270: 25507.
46. Qian Y.W., Wang Y.-C., Hollingsworth R.E.J., Jones D., Ling N., and Lee E.Y.-H.P. 1993. A retinoblastoma-binding protein related to a negative regulator of Ras in yeast. Nature 364: 648.
47. Rundlett S.E., Carmen A.A., Suka N., Turner B.M., and Grunstein M. 1998. Transcriptional repression by UME6 involves deacetylation of lysine 5 of histone H4 by RPD3. Nature 392: 831.
48. Seelig H.P., Moosbrugger I., Ehrfeld H., Fink T., Renz M., and Genth E. 1995. The major dermatomyositis-specific Mi-2 autoantigen is a presumed helicase involved in transcription activation. Arthritis Rheum. 38: 1389.
49. Tan S., Aso T., Conaway R.C., and Conaway J.W. 1994. Roles for both the RAP30 and RAP74 subunits of transcription factor IIP in transcription initiation and elongation by RNA poly-merase II. J. Biol. Chem. 269: 25684.
50. Taunton J., Hassig C.A., and Schreiber S.L. 1996. A mammalian histone deacetylase related to a yeast transcriptional regulator Rpd3. Science 272: 408.
51. Tse C. and Hansen J.C. 1997. Hybrid trypsinized nucleosomal arrays: Identification of multiple functional roles of the H2A/H2B and H3/H4 N-termini in chromatin fiber compaction. Biochemistry 36: 11381.
52. Tse C., Sera T., Wolffe A.P, and Hansen J.C. 1998. Disruption of higher order folding by core histone acetylation dramatically enhances transcription of nucleosomal arrays by RNA polymerase III. Mol. Cell. Biol. 18: 4629.
53. Turner B.M. 1993. Decoding the nucleosome. Cell 75: 5.
54. Tyler J.K., Bulger M., Kamakaka R.T., Kobayashi R., and Kadonaga, J.T. 1996. The p55 subunit of Drosophila chromatin assembly factor 1 is homologous to a histone deacetylase-associated protein. Mol. Cell. Biol. 16: 6149.
55. Ura K., Kurumizaka H., Dimitrov S., Almouzni G., and Wolffe A.P. 1997. Histone acetylation: Influence on transcription by RNA polymerase, nucleosome mobility and positioning, and linker histone dependent transcriptional repression. EMBO J. 16: 2096.
56. Verreault A., Kaufman P.D., Kobayashi R., and Stillman, B. 1996. Nucleosome assembly by a complex of CAF-1 and acetylated histones H3/H4. Cell 87: 95.
57. _. 1997. Nucleosomal DNA regulates the core-histone binding subunit of the human hatl acetyltransferase. Curr. Biol. 8: 96.
58. Vettese-Dadey M., Walter P., Chen H., Juan L-J., and Workman J.L. 1994. Role of the histone amino termini in facilitated binding of a transcription factor, GAL4-AH to nucleosome cores. Mol. Cell. Biol. 14: 970.
59. Vettese-Dadey M., Grant P.A., Hebbes T.R., Crane-Robinson C., Allis C.D., and Workman J.L. 1996. Acetylation of histone H4 plays a primary role in enhancing transcription factor binding to nucleosomal DNA in vitro. EMBO J. 15: 2508.
60. Wade P.A., Pruss D., and Wolffe A.P. 1997. Histone acetylation: Chromatin in action. Trends Biochem. Sci. 22: 128.
61. Wade P.A., Jones P.L., Vermaak D., and Wolffe A.P. 1998a. Purification of a histone deacetylase complex from Xenopus laevis: Preparation of substrates and assay procedures. Methods Enzymol. (in press).
62. _. 1998b. A multiple subunit histone deacetylase from Xenopus laevis contains a Snf2 superfamily ATPase. Curr. Biol. 8: 843.
63. Wolffe A.P. 1996. Histone deacetylase: A regulator of transcription. Science 272: 371.
64. _. 1997. Sinful repression. Nature 387: 16.
65. Wolffe A.P. and Pruss D. 1996. Targeting chromatin disruption: Transcription regulators that acetylate histones. Cell 84: 817.
66. Wolffe A.P., Almouzni G., Ura K., Pruss D., and Hayes J.J. 1993. Transcription factor access to DNA in the nucleosome. Cold Spring Harbor Symp. Quant. Biol. 58: 225.
67. Wong J., Patterton D., Imhof A., Shi Y.-B., and Wolffe A.P. 1998. Distinct requirements for chromatin assembly in transcriptional repression by thyroid hormone receptor and histone deacetylase. EMBO J. 17: 520.
68. Woodage T., Basrai M.A., Baxevanis A.D., Hieter P., and Collins F.S. 1997. Characterization of the CHD family of proteins. Proc. Natl. Acad. Sci. 94: 11472.
69. Yang X.-J., Ogryzko V.V., Nishikawa J.-I., Howard B., and Nakatani Y. 1996. A p300/CBP-associated factor that competes with the adenoviral E1A oncoprotein. Nature 382: 319.
70. Zhang D.-E. and Nelson D.A. 1988. Histone acetylation in chicken erythrocytes. Rates of acetylation and evidence that histones in both active and potentially active chromatin are rapidly modified. Biochem. J. 250: 233.
71. Zhang W., Bone J.R., Edmondson D.G., Turner B.M., and Roth, S.Y. 1998. Essential and redundant functions of histone acetylation revealed by mutation of target lysines and loss of the Gcn5p acetyltransferase. EMBO J. 17: 3155.
72. Zhang Y., Iratni R., Erdjument-Bromage H., Tempst P., and Reinberg D. 1997. Histone deacetylases and SAP18, a novel polypeptide, are components of a human Sin3 complex. Cell 89: 357.