DSIF and RNA Polymerase II CTD Phosphorylation Coordinate the Recruitment of Rpd3S to Actively Transcribed Genes

Drouin, Simon; Laramée, Louise; Jacques, Pierre-Étienne; Forest, Audrey; Bergeron, Maxime; Robert, François

doi:10.1371/journal.pgen.1001173

Cited by 130 publications

(144 citation statements)

References 77 publications

(89 reference statements)

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“…It is possible that the modifications directly recruit HDACs at certain subsets of genes, and that Phospho-Pol II is required for recruitment to others, as suggested by the genome-wide study of Rpd3C(S) occupancy mentioned above. 15 Such an observation would explain the discrepancy between our results in bre1Δ mutant cells and those of an earlier study.…”

Section: Hdacs Are Recruited To Coding Regions By Elongating Rna Polycontrasting

confidence: 88%

“…Recent studies providing evidence for crosstalk between modifications, such as ubiquitination and methylation, 12,13 and for combinatorial mechanisms distinguishing recruitment from function, 4,14,15 reveal a far more complex code. In this article, we will focus on the application of one such combinatorial mechanism to the modulation of histone occupancy by co-transcriptionally recruited histone modifying and chromatin-remodeling complexes during transcription elongation.…”

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confidence: 99%

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A role for phosphorylated Pol II CTD in modulating transcription coupled histone dynamics

Spain

Govind

2011

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Histone acetylation modulates histone occupancy both at promoters and in coding sequences. Based on our recent observation that HDACs in the budding yeast, Saccharomyces cerevisiae, are co-transcriptionally recruited to coding regions by elongating polymerases, we propose a model in which Pol II facilitates recruitment of chromatin remodeling complexes as well as other factors required for productive elongation.

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Section: Hdacs Are Recruited To Coding Regions By Elongating Rna Polycontrasting

confidence: 88%

mentioning

confidence: 99%

A role for phosphorylated Pol II CTD in modulating transcription coupled histone dynamics

Spain

Govind

2011

Transcription

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“…This result may be considered relative to distinct roles of the Rpd3L and S complexes. Rpd3L is targeted to specific promoter regions (Carrozza et al 2005a), whereas Rpd3S activity is more localized to coding regions by the H3K36-methyl mark from Set2 (Carrozza et al 2005b;Drouin et al 2010;Govind et al 2010). The esa1Δ sds3Δ strains Figure 2 Mutation of histone residues enhanced esa1Δ sds3Δ fitness.…”

Section: Resultsmentioning

confidence: 99%

Bypassing the Requirement for an Essential MYST Acetyltransferase

Torres-Machorro

Pillus

2014

Genetics

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Histone acetylation is a key regulatory feature for chromatin that is established by opposing enzymatic activities of lysine acetyltransferases (KATs/HATs) and deacetylases (KDACs/HDACs). Esa1, like its human homolog Tip60, is an essential MYST family enzyme that acetylates histones H4 and H2A and other nonhistone substrates. Here we report that the essential requirement for ESA1 in Saccharomyces cerevisiae can be bypassed upon loss of Sds3, a noncatalytic subunit of the Rpd3L deacetylase complex. By studying the esa1Δ sds3Δ strain, we conclude that the essential function of Esa1 is in promoting the cellular balance of acetylation. We demonstrate this by fine-tuning acetylation through modulation of HDACs and the histone tails themselves. Functional interactions between Esa1 and HDACs of class I, class II, and the Sirtuin family define specific roles of these opposing activities in cellular viability, fitness, and response to stress. The fact that both increased and decreased expression of the ESA1 homolog TIP60 has cancer associations in humans underscores just how important the balance of its activity is likely to be for human well-being.T HE genetic information of DNA is packed into chromatin, which is predominantly composed of the H3, H4, H2A, and H2B core histone proteins that together with DNA form nucleosomes, the basic subunits of the genome (Kornberg and Lorch 1999). Chromatin structure regulates many cellular processes including gene expression, DNA replication, DNA damage repair, and recombination (Felsenfeld and Groudine 2003). Nucleosomes themselves are tightly regulated by mobilization and positioning that are mediated by ATP-dependent chromatin-remodeling machines (Rando and Winston 2012) and by multiple types of histone posttranslational modifications that include acetylation and many other marks (Campos and Reinberg 2009).Nucleosome acetylation is a highly dynamic modification that is promoted by HATs and removed by HDACs. HATs are classified by sequence into different families (Allis et al. 2007). ESA1/KAT5 belongs to the widely conserved MYST HAT family, named for its founding members (MOZ-YBF2/ SAS3-SAS2-TIP60) (Lafon et al. 2007). Esa1 is an essential HAT in yeast (Smith et al. 1998;Clarke et al. 1999) and the catalytic subunit of two distinct multi-protein complexes: NuA4 and Piccolo (Boudreault et al. 2003). Notably, the human homolog of Esa1 is Tip60, which is also essential in vertebrates and has been linked to multiple human diseases (Squatrito et al. 2006;Avvakumov and Côté 2007;Lafon et al. 2007), thus increasing the relevance of gaining a deeper understanding of essential HAT functions.Esa1 primarily acetylates H4 and H2A in vivo (Clarke et al. 1999;Lin et al. 2008) and regulates the expression of active protein-encoding genes (Reid et al. 2000;Lin et al. 2008). It plays a crucial role in cell cycle progression and ribosomal DNA (rDNA) silencing (Clarke et al. 1999(Clarke et al. , 2006 and is recruited to DNA double-strand breaks (DSBs) to promote damage repair by acetylati...

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“…H3K36me3 is not required for elongation, but rather is required to activate the histone deacetylase complex Rpd3S along transcribed chromatin, in turn leading to deacetylation of actively transcribed templates (Carrozza et al 2005;Joshi and Struhl 2005;Keogh et al 2005;Pokholok et al 2005;Drouin et al 2010;Govind et al 2010). set2 mutants are fully viable and grow well; however, the level of histone acetylation is higher than normal across transcribed regions.…”

Section: Histone Methylation During Transcriptionmentioning

confidence: 99%

Chromatin and Transcription in Yeast

2012

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Understanding the mechanisms by which chromatin structure controls eukaryotic transcription has been an intense area of investigation for the past 25 years. Many of the key discoveries that created the foundation for this field came from studies of Saccharomyces cerevisiae, including the discovery of the role of chromatin in transcriptional silencing, as well as the discovery of chromatin-remodeling factors and histone modification activities. Since that time, studies in yeast have continued to contribute in leading ways. This review article summarizes the large body of yeast studies in this field.

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DSIF and RNA Polymerase II CTD Phosphorylation Coordinate the Recruitment of Rpd3S to Actively Transcribed Genes

Cited by 130 publications

References 77 publications

A role for phosphorylated Pol II CTD in modulating transcription coupled histone dynamics

A role for phosphorylated Pol II CTD in modulating transcription coupled histone dynamics

Bypassing the Requirement for an Essential MYST Acetyltransferase

Chromatin and Transcription in Yeast

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