Phosphorylation of RNA polymerase II CTD regulates H3 methylation in yeast

Genes and Development

Volumn 17, Issue 5, 2003, Pages 654-663

  Xiao, Tiaojiang ^a   Hall, Hana ^a   Kizer, Kelby O ^a   Shibata, Yoichiro ^a   Hall, Mark C ^a   Borchers, Christoph H ^a   Strahl, Brian D ^a  

^a UNIVERSITY OF NORTH CAROLINA SCHOOL OF MEDICINE   (United States)

Author keywords

CTD; Histone H3; Lys 36; Methylation; RNA polymerase II; SET2

Indexed keywords

HISTONE; RNA POLYMERASE II;

ARTICLE; CHROMATIN; ENZYME SUBUNIT; GENE CONTROL; GENETIC TRANSCRIPTION; IMMUNOPRECIPITATION; METHYLATION; NONHUMAN; PHOSPHORYLATION; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN INTERACTION; SACCHAROMYCES CEREVISIAE; YEAST;

DNA METHYLATION; GENE EXPRESSION REGULATION, FUNGAL; HISTONES; METHYLTRANSFERASES; PEPTIDES; PHOSPHORYLATION; PROTEIN KINASES; PROTEIN STRUCTURE, TERTIARY; RNA POLYMERASE II; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS;

SACCHAROMYCES CEREVISIAE;

EID: 0037336041     PISSN: 08909369     EISSN: None     Source Type: Journal    
DOI: 10.1101/gad.1055503     Document Type: Article

References (46)

1. Berger, S.L. 2002. Histone modifications in transcriptional regulation. Curr. Opin. Genet. Dev. 12: 142-148.
2. 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. 99: 8695-8700.
3. Briggs, S.D., Bryk, M., Strahl, B.D., Cheung, W.L., Davie, J.K., Dent, S.Y., Winston, F., and Allis, C.D. 2001. Histone H3 lysine 4 methylation is mediated by SetI and required for cell growth and rDNA silencing in Saccharomyces cerevisiae. Genes & Dev. 15: 3286-3295.
4. Briggs, S.D., Xiao, T., Sun, Z.W., Caldwell, J.A., Shabanowitz, J., Hunt, D.F., Allis, C.D., and Strahl, B.D. 2002. Gene silencing: Trans-histone regulatory pathway in chromatin. Nature 418: 498.
5. Cho, EJ., Kobor, M.S., Kim, M., Greenblatt, J., and Buratowski, S. 2001. Opposing effects of Ctkl kinase and Fepl phosphatase at Ser 2 of the RNA polymerase II C-terminal domain. Genes & Dev. 15: 3319-3329.
6. Dover, J., Schneider, J., Tawiah-Boateng, M.A., Wood, A., Dean, K., Johnston, M., and Shilatifard, A. 2002. Methylation of histone H3 by COMPASS requires ubiquitination of histone H2B by Rad6. J. Biol. Chem. 277: 28368-28371.
7. Edmondson, 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: 1247-1259.
8. Filetici, P., Ornaghi, P., and Ballario, P. 2001. The bromodomain: A chromatin browser? Front. Biosci. 6: D866-D876.
9. Gavin, A.C., Bosche, M., Krause, R., Grandi, P., Marzioch, M., Bauer, A., Schultz, J., Rick, J.M., Michon, A.M., Cruciat, C.M., et al. 2002. Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature 415: 141-147.
10. Gelbart, M.E., Rechsteiner, T., Richmond, T.J., and Tsukiyama, T. 2001. Interactions of Isw2 chromatin remodeling complex with nucleosomal arrays: Analyses using recombinant yeast histones and immobilized templates. Mol. Cell. Biol. 21: 2098-2106.
11. Gerton, J.L., DeRisi, J., Shroff, R., Lichten, M., Brown, P.O., and Petes, T.D. 2000. Inaugural article: Global mapping of meiotic recombination hotspots and coldspots in the yeast Saccharomyces cerevisiae. Proc. Natl. Acad. Sci. 97: 11383-11390.
12. Grant, P.A. 2001. A tale of histone modifications. Genome Biol. 2: 1-6.
13. Hartzog, G., Speer, J., and Lindstrom, D. 2002. Transcript elongation on a nucleoprotein template. Biochim. Biophys. Acta 1577: 276.
14. Hautbergue, G. and Goguel, V. 2001. Activation of the cyclindependent kinase CTDK-I requires the heterodimerization of two unstable subunits. J. Biol. Chem. 276: 8005-8013.
15. Henry, K.W. and Berger, S.L. 2002. Trans-tail histone modifications: Wedge or bridge? Nat. Struct. Biol. 9: 565-566.
16. Jenuwein, T. and Allis, C.D. 2001. Translating the histone code. Science 293: 1074-1080.
17. Khan, A.U. and Hampsey, M. 2002. Connecting the DOTs: Covalent histone modifications and the formation of silent chromatin. Trends Genet. 18: 387-389.
18. Kobor, M. and Greenblatt, J. 2002. Regulation of transcription elongation by phosphorylation. Biochim. Biophys. Acta 1577: 261-275.
19. Komarnitsky, P., Cho, E.J., and Buratowski, S. 2000. Different phosphorylated forms of RNA polymerase II and associated mRNA processing factors during transcription. Genes & Dev. 14: 2452-2460.
20. Kouzarides, T. 2002. Histone methylation in transcriptional control. Curr. Opin. Genet. Dev. 12: 198-209.
21. Kuo, M.H. and Allis, C.D. 1999. In vivo cross-linking and immunoprecipitation for studying dynamic Protein:DNA associations in a chromatin environment. Methods 19: 425-433.
22. Lachner, M. and Jenuwein, J. 2002. The many faces of histone lysine methylation. Curr. Opin. Cell. Biol. 14: 286-298.
23. Lee, J.M. and Greenleaf, A.L. 1991. CTD kinase large subunit is encoded by CTK1, a gene required for normal growth of Saccharomyces cerevisiae. Gene Expr. 1: 149-167.
24. Li, B., Howe, L., Anderson, S., Yates III, J.R., and Workman, J.L. 2003. The Set2 histone methyltransferase functions through the phosphorylated CTD of RNA polymerase II. J. Biol. Chem. (In press). Published online ahead of print at http:// www.jbc.org/cgi/content/abstract/M212I34200v1.
25. Li, J., Moazed, D., and Gygi, S.P. 2002. Association of the histone methyltransferase Set2 with RNA polymerase II plays a role in transcription elongation. J. Biol. Chem. 277: 49383-49388
26. Morris, D.P. and Greenleaf, A.L. 2000. The splicing factor, Prp40, binds the phosphorylated carboxyl-terminal domain of RNA polymerase II. J. Biol. Chem. 275: 39935-39943.
27. Morris, D.P., Phatnani, H.P., and Greenleaf, A.L. 1999. Phospho-carboxyl-terminal domain binding and the role of a prolyl isomerase in pre-mRNA 3′-End formation. J. Biol. Chem. 274: 31583-31587.
28. Ng, H.H., Xu, R.M., Zhang, Y., and Struhl, K. 2002. Ubiquitination of histone, H2B by Rad6 is required for efficient Dot1-mediated methylation of histone H3 lysine 79. J. Biol. Chem. 277: 34655-34657.
29. Nonet, M., Sweetser, D., and Young, R.A. 1987. Functional redundancy and structural polymorphism in the large subunit of RNA polymerase II. Cell 50: 909-915.
30. Orphanides, G. and Reinberg, D. 2000. RNA polymerase II elongation through chromatin. Nature 407: 471-475.
31. -. 2002. A unified theory of gene expression. Cell 108: 439-451.
32. Patturajan, M., Schulte, R.J., Sefton, B.M., Berezney, R., Vincent, M., Bensaude, O., Warren, S.L., and Corden, J.L. 1998. Growth-related changes in phosphorylation of yeast RNA polymerase II. J. Biol. Chem. 273:4689-4694.
33. Patturajan, M., Conrad, N.K., Bregman, D.B., and Corden, J.L. 1999. Yeast carboxyl-terminal domain kinase I positively and negatively regulates RNA polymerase II carboxyl-terminal domain phosphorylation. J. Biol. Chem. 274: 27823-27828.
34. Pokholok, D.K., Hannett, N.M., and Young, R.A. 2002. Exchange of RNA polymerase II initiation and elongation factors during gene expression in vivo. Mol. Cell 9: 799-809.
35. Prelich, G. 2002. RNA polymerase II carboxy-terminal domain kinases: Emerging clues to their function. Eukaryotic Cell 1: 153-162.
36. Santos-Rosa, H., Schneider, R., Bannister, A.J., Sherriff, J., Bernstein, B.E., Emre, N.C., Schreiber, S.L., Mellor, J., and Kouzarides, T. 2002. Active genes are tri-methylated at K4 of histone H3. Nature 419: 407-411.
37. Sterner, D.E., Lee, J.M., Hardin, S.E., and Greenleaf, A.L. 1995. The yeast carboxyl-terminal repeat domain kinase CTDK-I is a divergent cyclin-cyclin-dependent kinase complex. Mol. Cell. Biol. 15: 5716-5724.
38. Strahl, B.D. and Allis, C.D. 2000. The language of covalent histone modifications. Nature 403: 41-45.
39. Strahl, B.D., Ohba, R., Cook, R.G., and Allis, C.D. 1999. Methylation of histone H3 at lysine 4 is highly conserved and correlates with transcriptionally active nuclei in Tetrahymena. Proc. Natl. Acad. Sci. 96: 14967-14972.
40. Strahl, B.D, Grant, P.A., Briggs, S.D., Sun, Z.W., Bone, J.R., Caldwell, J.A., Mollah, S., Cook, R.G., Shabanowitz, J., Hunt, D.F., et al. 2002. Set2 is a nucleosomal histone H3-selective methyltransferase that mediates transcriptional repression. Mol. Cell. Biol. 22: 1298-1306.
41. Sun, Z.W. and Allis, C.D. 2002. Ubiquitination of histone H2B regulates H3 methylation and gene silencing in yeast. Nature 418: 104-108.
42. Svejstrup, J.Q. 2002. Chromatin elongation factors. Curr. Opin. Genet. Dev. 12: 156-161.
43. Turner, B.M. 2000. Histone acetylation and an epigenetic code. BioEssays 22: 836-845.
44. van Holde, K.E. 1989. Histone modifications. pp. 111-148. Springer, New York.
45. von Holt, C., Brandt, W.F., Greyling, H.J., Lindsey, G.G., Retief, J.D., Rodrigues, J.D., Schwager, S., and Sewell, B.T. 1989. Isolation and characterization of histones. Methods Enzymol. 170: 431-523.
46. Zhang, Y. and Reinberg, D. 2001. Transcriptional regulation by histone methylation:interplay between different covalent modifications of the core histone tails. Genes & Dev. 15: 2343-2360.