Chromatin Dynamics and the RNA Exosome Function in Concert to Regulate Transcriptional Homeostasis
The histone variant H2A.Z is a hallmark of nucleosomes flanking promoters of protein-coding genes and is often found in nucleosomes that carry lysine 56-acetylated histone H3 (H3-K56Ac), a mark that promotes replication-independent nucleosome turnover. Here, we find that H3-K56Ac promotes RNA polyme...
| Main Authors: | , , , , , , , , , , |
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| Format: | Article |
| Language: | en_US |
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Elsevier
2016
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| Online Access: | http://hdl.handle.net/1721.1/101704 https://orcid.org/0000-0003-3491-4962 |
| _version_ | 1826203071131156480 |
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| author | Rege, Mayuri Subramanian, Vidya Zhu, Chenchen Hsieh, Tsung-Han S. Weiner, Assaf Friedman, Nir Steinmetz, Lars M. Rando, Oliver J. Peterson, Craig L. Clauder-Munster, Sandra Boyer, Laurie Ann |
| author2 | Massachusetts Institute of Technology. Department of Biological Engineering |
| author_facet | Massachusetts Institute of Technology. Department of Biological Engineering Rege, Mayuri Subramanian, Vidya Zhu, Chenchen Hsieh, Tsung-Han S. Weiner, Assaf Friedman, Nir Steinmetz, Lars M. Rando, Oliver J. Peterson, Craig L. Clauder-Munster, Sandra Boyer, Laurie Ann |
| author_sort | Rege, Mayuri |
| collection | MIT |
| description | The histone variant H2A.Z is a hallmark of nucleosomes flanking promoters of protein-coding genes and is often found in nucleosomes that carry lysine 56-acetylated histone H3 (H3-K56Ac), a mark that promotes replication-independent nucleosome turnover. Here, we find that H3-K56Ac promotes RNA polymerase II occupancy at many protein-coding and noncoding loci, yet neither H3-K56Ac nor H2A.Z has a significant impact on steady-state mRNA levels in yeast. Instead, broad effects of H3-K56Ac or H2A.Z on RNA levels are revealed only in the absence of the nuclear RNA exosome. H2A.Z is also necessary for the expression of divergent, promoter-proximal noncoding RNAs (ncRNAs) in mouse embryonic stem cells. Finally, we show that H2A.Z functions with H3-K56Ac to facilitate formation of chromosome interaction domains (CIDs). Our study suggests that H2A.Z and H3-K56Ac work in concert with the RNA exosome to control mRNA and ncRNA expression, perhaps in part by regulating higher-order chromatin structures. |
| first_indexed | 2024-09-23T12:30:53Z |
| format | Article |
| id | mit-1721.1/101704 |
| institution | Massachusetts Institute of Technology |
| language | en_US |
| last_indexed | 2024-09-23T12:30:53Z |
| publishDate | 2016 |
| publisher | Elsevier |
| record_format | dspace |
| spelling | mit-1721.1/1017042022-09-28T08:15:22Z Chromatin Dynamics and the RNA Exosome Function in Concert to Regulate Transcriptional Homeostasis Rege, Mayuri Subramanian, Vidya Zhu, Chenchen Hsieh, Tsung-Han S. Weiner, Assaf Friedman, Nir Steinmetz, Lars M. Rando, Oliver J. Peterson, Craig L. Clauder-Munster, Sandra Boyer, Laurie Ann Massachusetts Institute of Technology. Department of Biological Engineering Massachusetts Institute of Technology. Department of Biology Subramanian, Vidya Boyer, Laurie The histone variant H2A.Z is a hallmark of nucleosomes flanking promoters of protein-coding genes and is often found in nucleosomes that carry lysine 56-acetylated histone H3 (H3-K56Ac), a mark that promotes replication-independent nucleosome turnover. Here, we find that H3-K56Ac promotes RNA polymerase II occupancy at many protein-coding and noncoding loci, yet neither H3-K56Ac nor H2A.Z has a significant impact on steady-state mRNA levels in yeast. Instead, broad effects of H3-K56Ac or H2A.Z on RNA levels are revealed only in the absence of the nuclear RNA exosome. H2A.Z is also necessary for the expression of divergent, promoter-proximal noncoding RNAs (ncRNAs) in mouse embryonic stem cells. Finally, we show that H2A.Z functions with H3-K56Ac to facilitate formation of chromosome interaction domains (CIDs). Our study suggests that H2A.Z and H3-K56Ac work in concert with the RNA exosome to control mRNA and ncRNA expression, perhaps in part by regulating higher-order chromatin structures. 2016-03-15T00:14:43Z 2016-03-15T00:14:43Z 2015-11 2015-09 Article http://purl.org/eprint/type/JournalArticle 22111247 http://hdl.handle.net/1721.1/101704 Rege, Mayuri, Vidya Subramanian, Chenchen Zhu, Tsung-Han S. Hsieh, Assaf Weiner, Nir Friedman, Sandra Clauder-Munster, et al. “Chromatin Dynamics and the RNA Exosome Function in Concert to Regulate Transcriptional Homeostasis.” Cell Reports 13, no. 8 (November 2015): 1610–1622. https://orcid.org/0000-0003-3491-4962 en_US http://dx.doi.org/10.1016/j.celrep.2015.10.030 Cell Reports Creative Commons Attribution http://creativecommons.org/licenses/by/4.0/ application/pdf Elsevier Elsevier |
| spellingShingle | Rege, Mayuri Subramanian, Vidya Zhu, Chenchen Hsieh, Tsung-Han S. Weiner, Assaf Friedman, Nir Steinmetz, Lars M. Rando, Oliver J. Peterson, Craig L. Clauder-Munster, Sandra Boyer, Laurie Ann Chromatin Dynamics and the RNA Exosome Function in Concert to Regulate Transcriptional Homeostasis |
| title | Chromatin Dynamics and the RNA Exosome Function in Concert to Regulate Transcriptional Homeostasis |
| title_full | Chromatin Dynamics and the RNA Exosome Function in Concert to Regulate Transcriptional Homeostasis |
| title_fullStr | Chromatin Dynamics and the RNA Exosome Function in Concert to Regulate Transcriptional Homeostasis |
| title_full_unstemmed | Chromatin Dynamics and the RNA Exosome Function in Concert to Regulate Transcriptional Homeostasis |
| title_short | Chromatin Dynamics and the RNA Exosome Function in Concert to Regulate Transcriptional Homeostasis |
| title_sort | chromatin dynamics and the rna exosome function in concert to regulate transcriptional homeostasis |
| url | http://hdl.handle.net/1721.1/101704 https://orcid.org/0000-0003-3491-4962 |
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