Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex

Michael Christopher Keogh, Siavash K. Kurdistani, Stephanie A. Morris, Seong Hoon Ahn, Vladimir Podolny, Sean R. Collins, Maya Schuldiner, Kayu Chin, Thanuja Punna, Natalie J. Thompson, Charles Boone, Andrew Emili, Jonathan S. Weissman, Timothy R. Hughes, Brian D. Strahl, Michael Grunstein, Jack F. Greenblatt, Stephen Buratowski, Nevan J. Krogan

Research output: Contribution to journal › Article

539 Citations (Scopus)

Abstract

The yeast histone deacetylase Rpd3 can be recruited to promoters to repress transcription initiation. Biochemical, genetic, and gene-expression analyses show that Rpd3 exists in two distinct complexes. The smaller complex, Rpd3C(S), shares Sin3 and Ume1 with Rpd3C(L) but contains the unique subunits Rco1 and Eaf3. Rpd3C(S) mutants exhibit phenotypes remarkably similar to those of Set2, a histone methyltransferase associated with elongating RNA polymerase II. Chromatin immunoprecipitation and biochemical experiments indicate that the chromodomain of Eaf3 recruits Rpd3C(S) to nucleosomes methylated by Set2 on histone H3 lysine 36, leading to deacetylation of transcribed regions. This pathway apparently acts to negatively regulate transcription because deleting the genes for Set2 or Rpd3C(S) bypasses the requirement for the positive elongation factor Bur1/Bur2.

Original languageEnglish (US)
Pages (from-to)593-605
Number of pages13
JournalCell
Volume123
Issue number4
DOIs
StatePublished - Nov 18 2005

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Peptide Elongation Factors
Methylation
Histone Deacetylases
Nucleosomes
RNA Polymerase II
Chromatin Immunoprecipitation
Transcription
Histones
Lysine
Molecular Biology
Yeasts
Phenotype
Gene Expression
Gene expression
Yeast
Genes
Chromatin
Experiments
histone methyltransferase

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)

Cite this

Keogh, M. C., Kurdistani, S. K., Morris, S. A., Ahn, S. H., Podolny, V., Collins, S. R., ... Krogan, N. J. (2005). Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex. Cell, 123(4), 593-605. https://doi.org/10.1016/j.cell.2005.10.025

Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex. / Keogh, Michael Christopher; Kurdistani, Siavash K.; Morris, Stephanie A.; Ahn, Seong Hoon; Podolny, Vladimir; Collins, Sean R.; Schuldiner, Maya; Chin, Kayu; Punna, Thanuja; Thompson, Natalie J.; Boone, Charles; Emili, Andrew; Weissman, Jonathan S.; Hughes, Timothy R.; Strahl, Brian D.; Grunstein, Michael; Greenblatt, Jack F.; Buratowski, Stephen; Krogan, Nevan J.

In: Cell, Vol. 123, No. 4, 18.11.2005, p. 593-605.

Research output: Contribution to journal › Article

Keogh, MC, Kurdistani, SK, Morris, SA, Ahn, SH, Podolny, V, Collins, SR, Schuldiner, M, Chin, K, Punna, T, Thompson, NJ, Boone, C, Emili, A, Weissman, JS, Hughes, TR, Strahl, BD, Grunstein, M, Greenblatt, JF, Buratowski, S & Krogan, NJ 2005, 'Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex', Cell, vol. 123, no. 4, pp. 593-605. https://doi.org/10.1016/j.cell.2005.10.025
Keogh MC, Kurdistani SK, Morris SA, Ahn SH, Podolny V, Collins SR et al. Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex. Cell. 2005 Nov 18;123(4):593-605. https://doi.org/10.1016/j.cell.2005.10.025
Keogh, Michael Christopher ; Kurdistani, Siavash K. ; Morris, Stephanie A. ; Ahn, Seong Hoon ; Podolny, Vladimir ; Collins, Sean R. ; Schuldiner, Maya ; Chin, Kayu ; Punna, Thanuja ; Thompson, Natalie J. ; Boone, Charles ; Emili, Andrew ; Weissman, Jonathan S. ; Hughes, Timothy R. ; Strahl, Brian D. ; Grunstein, Michael ; Greenblatt, Jack F. ; Buratowski, Stephen ; Krogan, Nevan J. / Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex. In: Cell. 2005 ; Vol. 123, No. 4. pp. 593-605.
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abstract = "The yeast histone deacetylase Rpd3 can be recruited to promoters to repress transcription initiation. Biochemical, genetic, and gene-expression analyses show that Rpd3 exists in two distinct complexes. The smaller complex, Rpd3C(S), shares Sin3 and Ume1 with Rpd3C(L) but contains the unique subunits Rco1 and Eaf3. Rpd3C(S) mutants exhibit phenotypes remarkably similar to those of Set2, a histone methyltransferase associated with elongating RNA polymerase II. Chromatin immunoprecipitation and biochemical experiments indicate that the chromodomain of Eaf3 recruits Rpd3C(S) to nucleosomes methylated by Set2 on histone H3 lysine 36, leading to deacetylation of transcribed regions. This pathway apparently acts to negatively regulate transcription because deleting the genes for Set2 or Rpd3C(S) bypasses the requirement for the positive elongation factor Bur1/Bur2.",
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AU - Collins, Sean R.

AU - Schuldiner, Maya

AU - Chin, Kayu

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AU - Thompson, Natalie J.

AU - Boone, Charles

AU - Emili, Andrew

AU - Weissman, Jonathan S.

AU - Hughes, Timothy R.

AU - Strahl, Brian D.

AU - Grunstein, Michael

AU - Greenblatt, Jack F.

AU - Buratowski, Stephen

AU - Krogan, Nevan J.

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N2 - The yeast histone deacetylase Rpd3 can be recruited to promoters to repress transcription initiation. Biochemical, genetic, and gene-expression analyses show that Rpd3 exists in two distinct complexes. The smaller complex, Rpd3C(S), shares Sin3 and Ume1 with Rpd3C(L) but contains the unique subunits Rco1 and Eaf3. Rpd3C(S) mutants exhibit phenotypes remarkably similar to those of Set2, a histone methyltransferase associated with elongating RNA polymerase II. Chromatin immunoprecipitation and biochemical experiments indicate that the chromodomain of Eaf3 recruits Rpd3C(S) to nucleosomes methylated by Set2 on histone H3 lysine 36, leading to deacetylation of transcribed regions. This pathway apparently acts to negatively regulate transcription because deleting the genes for Set2 or Rpd3C(S) bypasses the requirement for the positive elongation factor Bur1/Bur2.

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