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Enhancer regions show high histone H3.3 turnover that changes during differentiation

2016-06-15Journal article Open access
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dc.contributor.authorDeaton, Aimee M
dc.contributor.authorGómez-Rodríguez, Mariluz
dc.contributor.authorMieczkowski, Jakub
dc.contributor.authorTolstorukov, Michael Y
dc.contributor.authorKundu, Sharmistha
dc.contributor.authorSadreyev, Ruslan I
dc.contributor.authorJansen, Lars ET
dc.contributor.authorKingston, Robert E
dc.date.accessioned2017-04-10T17:22:05Z
dc.date.available2017-04-10T17:22:05Z
dc.date.issued2016-06-15
dc.descriptionData availability - High throughput sequencing data has been deposited in GEO and is accessible using the following links: Time-ChIP: GSE78876 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE78876 ChIP-seq: GSE78899 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE78899 MNase titration and RNA-seq: GSE78984 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE78984pt_PT
dc.description.abstractThe organization of DNA into chromatin is dynamic; nucleosomes are frequently displaced to facilitate the ability of regulatory proteins to access specific DNA elements. To gain insight into nucleosome dynamics, and to follow how dynamics change during differentiation, we used a technique called time-ChIP to quantitatively assess histone H3.3 turnover genome-wide during differentiation of mouse ESCs. We found that, without prior assumptions, high turnover could be used to identify regions involved in gene regulation. High turnover was seen at enhancers, as observed previously, with particularly high turnover at super-enhancers. In contrast, regions associated with the repressive Polycomb-Group showed low turnover in ESCs. Turnover correlated with DNA accessibility. Upon differentiation, numerous changes in H3.3 turnover rates were observed, the majority of which occurred at enhancers. Thus, time-ChIP measurement of histone turnover shows that active enhancers are unusually dynamic in ESCs and changes in highly dynamic nucleosomes predominate at enhancers during differentiation.pt_PT
dc.description.sponsorshipNational Institutes of Health grant: (NIH R01 GM48405); European Molecular Biology Organization grant: (installation grant 1818); European Research Council.pt_PT
dc.description.versioninfo:eu-repo/semantics/publishedVersionpt_PT
dc.identifier.citationeLife 2016;5:e15316pt_PT
dc.identifier.doi10.7554/eLife.15316pt_PT
dc.identifier.urihttp://hdl.handle.net/10400.7/747
dc.language.isoengpt_PT
dc.peerreviewedyespt_PT
dc.publishereLife Sciences Publicationspt_PT
dc.relationMechanisms of Chromatin-based Epigenetic Inheritance
dc.relation.publisherversionhttps://elifesciences.org/content/5/e15316pt_PT
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/pt_PT
dc.subjectgenes and chromosomespt_PT
dc.subjectchromatinpt_PT
dc.subjectdifferentiationpt_PT
dc.subjecthistone H3.3pt_PT
dc.subjectMousept_PT
dc.subjectstem cellspt_PT
dc.subjectturnoverpt_PT
dc.titleEnhancer regions show high histone H3.3 turnover that changes during differentiationpt_PT
dc.typejournal article
dspace.entity.typePublication
oaire.awardTitleMechanisms of Chromatin-based Epigenetic Inheritance
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/3599-PPCDT/PTDC%2FBIA-PRO%2F100537%2F2008/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/SFRH/SFRH%2FBD%2F33567%2F2008/PT
oaire.awardURIinfo:eu-repo/grantAgreement/EC/FP7/615638/EU
oaire.citation.endPage24pt_PT
oaire.citation.startPage1pt_PT
oaire.citation.titleeLifept_PT
oaire.citation.volume5pt_PT
oaire.fundingStream3599-PPCDT
oaire.fundingStreamSFRH
oaire.fundingStreamFP7
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.identifierhttp://doi.org/10.13039/501100008530
project.funder.nameFundação para a Ciência e a Tecnologia
project.funder.nameFundação para a Ciência e a Tecnologia
project.funder.nameEuropean Commission
rcaap.rightsopenAccesspt_PT
rcaap.typearticlept_PT
relation.isProjectOfPublication335e7483-9cd3-449a-b37a-bea73b224517
relation.isProjectOfPublication9973cdf9-500b-4133-b285-bf19b07b6d5e
relation.isProjectOfPublicationfc0420ff-72cc-4e0d-8521-76c288c7a6a5
relation.isProjectOfPublication.latestForDiscovery9973cdf9-500b-4133-b285-bf19b07b6d5e

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