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dc.contributor.authorVillar, Diegoen
dc.contributor.authorBerthelot, Camilleen
dc.contributor.authorAldridge, Sarahen
dc.contributor.authorRayner, Tim Fen
dc.contributor.authorLukk, Margusen
dc.contributor.authorPignatelli, Miguelen
dc.contributor.authorPark, Thomas Jen
dc.contributor.authorDeaville, Roberten
dc.contributor.authorErichsen, Jonathan Ten
dc.contributor.authorJasinska, Anna Jen
dc.contributor.authorTurner, James MAen
dc.contributor.authorBertelsen, Mads Fen
dc.contributor.authorMurchison, Elizabethen
dc.contributor.authorFlicek, Paulen
dc.contributor.authorOdom, Duncanen
dc.date.accessioned2015-02-16T09:50:28Z
dc.date.available2015-02-16T09:50:28Z
dc.date.issued2014-12-15en
dc.identifier.citationEnhancer Evolution across 20 Mammalian Species Villar, Diego et al. Cell , Volume 160 , Issue 3 , 554 - 566 , DOI: 10.1016/j.cell.2015.01.006en
dc.identifier.issn0092-8674
dc.identifier.urihttps://www.repository.cam.ac.uk/handle/1810/246777
dc.description.abstractThe mammalian radiation has corresponded with rapid changes in noncoding regions of the genome, but we lack a comprehensive understanding of regulatory evolution in mammals. Here, we track the evolution of promoters and enhancers active in liver across 20 mammalian species from six diverse orders by profiling genomic enrichment of H3K27 acetylation and H3K4 trimethylation. We report that rapid evolution of enhancers is a universal feature of mammalian genomes. Most of the recently evolved enhancers arise from ancestral DNA exaptation, rather than lineage-specific expansions of repeat elements. In contrast, almost all liver promoters are partially or fully conserved across these species. Our data further reveal that recently evolved enhancers can be associated with genes under positive selection, demonstrating the power of this approach for annotating regulatory adaptations in genomic sequences. These results provide important insight into the functional genetics underpinning mammalian regulatory evolution.
dc.description.sponsorshipWe thank Stephen Watt, Frances Connor, the CRUK-CI Genomics and Bioinformatics cores, Biological Resources Unit (Matthew Clayton), Margaret Brown (West Yorkshire bat hospital), Julie E. Horvath (North Carolina Central University), and Chris Dillingham (University of Cardiff) for technical assistance; Matthieu Muffato for assistance with whole-genome alignments; Claudia Kutter, Gordon Brown, Christine Feig, and Christina Ernst for useful comments and discussions, and the EBI systems team for management of computational resources. This research was supported by Cancer Research UK (D.V., D.T.O.), the European Molecular Biology Laboratory (C.B., P.F.), the Wellcome Trust (WT095908) (P.F.) and (WT098051) (P.F., D.T.O.), the European Research Council, EMBO Young Investigator Programme (D.T.O.), the National Science Foundation (0744979) (T.J.P.), NIH (P40 OD010965, R01 OD010980, R37 MH060233) (A.J.J.) and MRC (U117588498) (J.M.A.T.). Cetacean samples were collected by the UK Cetacean Strandings Investigation Programme, funded by Defra and the Governments of Scotland and Wales.
dc.languageEnglishen
dc.language.isoenen
dc.publisherElsevier
dc.rightsAttribution 2.0 UK: England & Wales*
dc.rights.urihttp://creativecommons.org/licenses/by/2.0/uk/*
dc.titleEnhancer evolution across twenty mammalsen
dc.typeArticle
dc.description.versionThis is the final version. It originally appeared at http://www.sciencedirect.com/science/article/pii/S0092867415000070.en
prism.endingPage566
prism.publicationDate2014en
prism.publicationNameCellen
prism.startingPage554
prism.volume160en
dc.rioxxterms.funderCRUK
dc.rioxxterms.funderERC
dc.rioxxterms.funderNIH
dc.rioxxterms.funderWellcome Trust
dc.rioxxterms.funderEMBO
dc.rioxxterms.projectidWT095908
dc.rioxxterms.projectidWT098051
dc.rioxxterms.projectid0744979
dc.rioxxterms.projectidP40 OD010965
dc.rioxxterms.projectidR01 OD010980
dc.rioxxterms.projectidR37 MH060233
dc.rioxxterms.projectidU117588498
dcterms.dateAccepted2014-12-15en
rioxxterms.versionofrecord10.1016/j.cell.2015.01.006en
rioxxterms.licenseref.urihttp://www.rioxx.net/licenses/all-rights-reserveden
rioxxterms.licenseref.startdate2014-12-15en
dc.contributor.orcidMurchison, Elizabeth [0000-0001-7462-8907]
dc.contributor.orcidOdom, Duncan [0000-0001-6201-5599]
dc.identifier.eissn1097-4172
rioxxterms.typeJournal Article/Reviewen
pubs.funder-project-idCancer Research UK (C14303_do not transfer)


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Attribution 2.0 UK: England & Wales
Except where otherwise noted, this item's licence is described as Attribution 2.0 UK: England & Wales