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Type: Journal article
Title: Epigenetic conservation at gene regulatory elements revealed by non-methylated DNA profiling in seven vertebrates
Author: Long, H.
Sims, D.
Heger, A.
Blackledge, N.
Kutter, C.
Wright, M.
Grutzner, F.
Odom, D.
Patient, R.
Ponting, C.
Klose, R.
Citation: eLife, 2013; 2013(2):e00348-1-e00348-19
Publisher: eLife Sciences Publications Ltd
Issue Date: 2013
ISSN: 2050-084X
Statement of
Hannah K Long, David Sims, Andreas Heger, Neil P Blackledge, Claudia Kutter, Megan L Wright, Frank Grützner, Duncan T Odom, Roger Patient, Chris P Ponting, Robert J Klose
Abstract: Two-thirds of gene promoters in mammals are associated with regions of non-methylated DNA, called CpG islands (CGIs), which counteract the repressive effects of DNA methylation on chromatin. In cold-blooded vertebrates, computational CGI predictions often reside away from gene promoters, suggesting a major divergence in gene promoter architecture across vertebrates. By experimentally identifying non-methylated DNA in the genomes of seven diverse vertebrates, we instead reveal that non-methylated islands (NMIs) of DNA are a central feature of vertebrate gene promoters. Furthermore, NMIs are present at orthologous genes across vast evolutionary distances, revealing a surprising level of conservation in this epigenetic feature. By profiling NMIs in different tissues and developmental stages we uncover a unifying set of features that are central to the function of NMIs in vertebrates. Together these findings demonstrate an ancient logic for NMI usage at gene promoters and reveal an unprecedented level of epigenetic conservation across vertebrate evolution.
Keywords: Animals; Xenopus; Chickens; Zebrafish; Platypus; Humans; Mice; Lizards; Gene Expression Profiling; Chromatin Assembly and Disassembly; Species Specificity; DNA Methylation; Epigenesis, Genetic; Base Sequence; CpG Islands; Conserved Sequence; Databases, Genetic; Promoter Regions, Genetic; Biological Evolution
Rights: Copyright Long et al. This article is distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use and redistribution provided that the original author and source are credited.
RMID: 0020128972
DOI: 10.7554/eLife.00348#sthash.otVB3Ndl.dpuf
Appears in Collections:Microbiology and Immunology publications
Environment Institute Leaders publications

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