Distinct Factors Control Histone Variant H3.3 Localization at Specific Genomic Regions

The incorporation of histone H3 variants has been implicated in the epigenetic memory of cellular state. Using genome editing with zinc-finger nucleases to tag endogenous H3.3, we report genome-wide profiles of H3 variants in mammalian embryonic stem cells and neuronal precursor cells. Genome-wide p...

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Veröffentlicht in:Cell 2010-03, Vol.140 (5), p.678-691
Hauptverfasser: Goldberg, Aaron D., Banaszynski, Laura A., Noh, Kyung-Min, Lewis, Peter W., Elsaesser, Simon J., Stadler, Sonja, Dewell, Scott, Law, Martin, Guo, Xingyi, Li, Xuan, Wen, Duancheng, Chapgier, Ariane, DeKelver, Russell C., Miller, Jeffrey C., Lee, Ya-Li, Boydston, Elizabeth A., Holmes, Michael C., Gregory, Philip D., Greally, John M., Rafii, Shahin, Yang, Chingwen, Scambler, Peter J., Garrick, David, Gibbons, Richard J., Higgs, Douglas R., Cristea, Ileana M., Urnov, Fyodor D., Zheng, Deyou, Allis, C. David
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container_end_page 691
container_issue 5
container_start_page 678
container_title Cell
container_volume 140
creator Goldberg, Aaron D.
Banaszynski, Laura A.
Noh, Kyung-Min
Lewis, Peter W.
Elsaesser, Simon J.
Stadler, Sonja
Dewell, Scott
Law, Martin
Guo, Xingyi
Li, Xuan
Wen, Duancheng
Chapgier, Ariane
DeKelver, Russell C.
Miller, Jeffrey C.
Lee, Ya-Li
Boydston, Elizabeth A.
Holmes, Michael C.
Gregory, Philip D.
Greally, John M.
Rafii, Shahin
Yang, Chingwen
Scambler, Peter J.
Garrick, David
Gibbons, Richard J.
Higgs, Douglas R.
Cristea, Ileana M.
Urnov, Fyodor D.
Zheng, Deyou
Allis, C. David
description The incorporation of histone H3 variants has been implicated in the epigenetic memory of cellular state. Using genome editing with zinc-finger nucleases to tag endogenous H3.3, we report genome-wide profiles of H3 variants in mammalian embryonic stem cells and neuronal precursor cells. Genome-wide patterns of H3.3 are dependent on amino acid sequence and change with cellular differentiation at developmentally regulated loci. The H3.3 chaperone Hira is required for H3.3 enrichment at active and repressed genes. Strikingly, Hira is not essential for localization of H3.3 at telomeres and many transcription factor binding sites. Immunoaffinity purification and mass spectrometry reveal that the proteins Atrx and Daxx associate with H3.3 in a Hira-independent manner. Atrx is required for Hira-independent localization of H3.3 at telomeres and for the repression of telomeric RNA. Our data demonstrate that multiple and distinct factors are responsible for H3.3 localization at specific genomic locations in mammalian cells. [Display omitted] ► H3.3 localization at specific genes and regulatory regions is cell-type specific ► Hira controls H3.3 localization to genes and some regulatory regions ► H3.3 localization to many regulatory elements and telomeres is Hira independent ► Atrx is required for H3.3 telomeric localization, and for telomeric RNA repression
doi_str_mv 10.1016/j.cell.2010.01.003
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David</creator><creatorcontrib>Goldberg, Aaron D. ; Banaszynski, Laura A. ; Noh, Kyung-Min ; Lewis, Peter W. ; Elsaesser, Simon J. ; Stadler, Sonja ; Dewell, Scott ; Law, Martin ; Guo, Xingyi ; Li, Xuan ; Wen, Duancheng ; Chapgier, Ariane ; DeKelver, Russell C. ; Miller, Jeffrey C. ; Lee, Ya-Li ; Boydston, Elizabeth A. ; Holmes, Michael C. ; Gregory, Philip D. ; Greally, John M. ; Rafii, Shahin ; Yang, Chingwen ; Scambler, Peter J. ; Garrick, David ; Gibbons, Richard J. ; Higgs, Douglas R. ; Cristea, Ileana M. ; Urnov, Fyodor D. ; Zheng, Deyou ; Allis, C. David</creatorcontrib><description>The incorporation of histone H3 variants has been implicated in the epigenetic memory of cellular state. Using genome editing with zinc-finger nucleases to tag endogenous H3.3, we report genome-wide profiles of H3 variants in mammalian embryonic stem cells and neuronal precursor cells. Genome-wide patterns of H3.3 are dependent on amino acid sequence and change with cellular differentiation at developmentally regulated loci. The H3.3 chaperone Hira is required for H3.3 enrichment at active and repressed genes. Strikingly, Hira is not essential for localization of H3.3 at telomeres and many transcription factor binding sites. Immunoaffinity purification and mass spectrometry reveal that the proteins Atrx and Daxx associate with H3.3 in a Hira-independent manner. Atrx is required for Hira-independent localization of H3.3 at telomeres and for the repression of telomeric RNA. Our data demonstrate that multiple and distinct factors are responsible for H3.3 localization at specific genomic locations in mammalian cells. [Display omitted] ► H3.3 localization at specific genes and regulatory regions is cell-type specific ► Hira controls H3.3 localization to genes and some regulatory regions ► H3.3 localization to many regulatory elements and telomeres is Hira independent ► Atrx is required for H3.3 telomeric localization, and for telomeric RNA repression</description><identifier>ISSN: 0092-8674</identifier><identifier>EISSN: 1097-4172</identifier><identifier>DOI: 10.1016/j.cell.2010.01.003</identifier><identifier>PMID: 20211137</identifier><language>eng</language><publisher>United States: Elsevier Inc</publisher><subject>Animals ; Binding Sites ; Cell Cycle Proteins - genetics ; Cell Cycle Proteins - metabolism ; DNA ; Embryonic Stem Cells - metabolism ; Genome ; Histone Chaperones - genetics ; Histone Chaperones - metabolism ; Histones - analysis ; Histones - genetics ; Histones - metabolism ; Mice ; Mice, Inbred C57BL ; PROTEINS ; STEMCELL ; Telomere - chemistry ; Telomere - metabolism ; Transcription Factors - genetics ; Transcription Factors - metabolism ; Transcription Initiation Site</subject><ispartof>Cell, 2010-03, Vol.140 (5), p.678-691</ispartof><rights>2010 Elsevier Inc.</rights><rights>(c) 2010 Elsevier Inc. 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David</creatorcontrib><title>Distinct Factors Control Histone Variant H3.3 Localization at Specific Genomic Regions</title><title>Cell</title><addtitle>Cell</addtitle><description>The incorporation of histone H3 variants has been implicated in the epigenetic memory of cellular state. Using genome editing with zinc-finger nucleases to tag endogenous H3.3, we report genome-wide profiles of H3 variants in mammalian embryonic stem cells and neuronal precursor cells. Genome-wide patterns of H3.3 are dependent on amino acid sequence and change with cellular differentiation at developmentally regulated loci. The H3.3 chaperone Hira is required for H3.3 enrichment at active and repressed genes. Strikingly, Hira is not essential for localization of H3.3 at telomeres and many transcription factor binding sites. Immunoaffinity purification and mass spectrometry reveal that the proteins Atrx and Daxx associate with H3.3 in a Hira-independent manner. Atrx is required for Hira-independent localization of H3.3 at telomeres and for the repression of telomeric RNA. Our data demonstrate that multiple and distinct factors are responsible for H3.3 localization at specific genomic locations in mammalian cells. 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David</creatorcontrib><collection>ScienceDirect Open Access Titles</collection><collection>Elsevier:ScienceDirect:Open Access</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>Nucleic Acids Abstracts</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Cell</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Goldberg, Aaron D.</au><au>Banaszynski, Laura A.</au><au>Noh, Kyung-Min</au><au>Lewis, Peter W.</au><au>Elsaesser, Simon J.</au><au>Stadler, Sonja</au><au>Dewell, Scott</au><au>Law, Martin</au><au>Guo, Xingyi</au><au>Li, Xuan</au><au>Wen, Duancheng</au><au>Chapgier, Ariane</au><au>DeKelver, Russell C.</au><au>Miller, Jeffrey C.</au><au>Lee, Ya-Li</au><au>Boydston, Elizabeth A.</au><au>Holmes, Michael C.</au><au>Gregory, Philip D.</au><au>Greally, John M.</au><au>Rafii, Shahin</au><au>Yang, Chingwen</au><au>Scambler, Peter J.</au><au>Garrick, David</au><au>Gibbons, Richard J.</au><au>Higgs, Douglas R.</au><au>Cristea, Ileana M.</au><au>Urnov, Fyodor D.</au><au>Zheng, Deyou</au><au>Allis, C. David</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Distinct Factors Control Histone Variant H3.3 Localization at Specific Genomic Regions</atitle><jtitle>Cell</jtitle><addtitle>Cell</addtitle><date>2010-03-05</date><risdate>2010</risdate><volume>140</volume><issue>5</issue><spage>678</spage><epage>691</epage><pages>678-691</pages><issn>0092-8674</issn><eissn>1097-4172</eissn><abstract>The incorporation of histone H3 variants has been implicated in the epigenetic memory of cellular state. Using genome editing with zinc-finger nucleases to tag endogenous H3.3, we report genome-wide profiles of H3 variants in mammalian embryonic stem cells and neuronal precursor cells. Genome-wide patterns of H3.3 are dependent on amino acid sequence and change with cellular differentiation at developmentally regulated loci. The H3.3 chaperone Hira is required for H3.3 enrichment at active and repressed genes. 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[Display omitted] ► H3.3 localization at specific genes and regulatory regions is cell-type specific ► Hira controls H3.3 localization to genes and some regulatory regions ► H3.3 localization to many regulatory elements and telomeres is Hira independent ► Atrx is required for H3.3 telomeric localization, and for telomeric RNA repression</abstract><cop>United States</cop><pub>Elsevier Inc</pub><pmid>20211137</pmid><doi>10.1016/j.cell.2010.01.003</doi><tpages>14</tpages><oa>free_for_read</oa></addata></record>
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subjects Animals
Binding Sites
Cell Cycle Proteins - genetics
Cell Cycle Proteins - metabolism
DNA
Embryonic Stem Cells - metabolism
Genome
Histone Chaperones - genetics
Histone Chaperones - metabolism
Histones - analysis
Histones - genetics
Histones - metabolism
Mice
Mice, Inbred C57BL
PROTEINS
STEMCELL
Telomere - chemistry
Telomere - metabolism
Transcription Factors - genetics
Transcription Factors - metabolism
Transcription Initiation Site
title Distinct Factors Control Histone Variant H3.3 Localization at Specific Genomic Regions
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