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PMID: 26807951 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Epigenomic annotation of gene regulatory alterations during evolution of the primate brain.

Nature neuroscience ·Vol. 19 ·No. 3 ·2016-03-00 ·Pages 494-503

Vermunt MW, Tan SC, Castelijns B, Geeven G, Reinink P, de Bruijn E, Kondova I, Persengiev S, Netherlands Brain Bank, Bontrop R, Cuppen E, de Laat W, Creyghton MP

Abstract

Although genome sequencing has identified numerous noncoding alterations between primate species, which of those are regulatory and potentially relevant to the evolution of the human brain is unclear. Here we annotated cis-regulatory elements (CREs) in the human, rhesus macaque and chimpanzee genomes using chromatin immunoprecipitation followed by sequencing (ChIP-seq) in different anatomical regions of the adult brain. We found high similarity in the genomic positioning of rhesus macaque and human CREs, suggesting that the majority of these elements were already present in a common ancestor 25 million years ago. Most of the observed regulatory changes between humans and rhesus macaques occurred before the ancestral separation of humans and chimpanzees, leaving a modest set of regulatory elements with predicted human specificity. Our data refine previous predictions and hypotheses on the consequences of genomic changes between primate species and allow the identification of regulatory alterations relevant to the evolution of the brain.

MeSH Terms
Animals Brain/metabolism Chromatin Immunoprecipitation Epigenesis, Genetic/genetics Epigenomics Evolution, Molecular Humans Macaca mulatta/genetics Pan troglodytes/genetics Regulatory Elements, Transcriptional/genetics
Authors & Affiliations
13 authors, click to expand affiliations / ORCID
Vermunt Marit W
Hubrecht Institute-KNAW and University Medical Center Utrecht, Utrecht, the Netherlands.
Tan Sander C ORCID
Hubrecht Institute-KNAW and University Medical Center Utrecht, Utrecht, the Netherlands.
Castelijns Bas
Hubrecht Institute-KNAW and University Medical Center Utrecht, Utrecht, the Netherlands.
Geeven Geert
Hubrecht Institute-KNAW and University Medical Center Utrecht, Utrecht, the Netherlands.
Reinink Peter
Hubrecht Institute-KNAW and University Medical Center Utrecht, Utrecht, the Netherlands.
de Bruijn Ewart
Hubrecht Institute-KNAW and University Medical Center Utrecht, Utrecht, the Netherlands.
Kondova Ivanela
Biomedical Primate Research Center, Rijswijk, the Netherlands.
Persengiev Stephan
Biomedical Primate Research Center, Rijswijk, the Netherlands.
Netherlands Brain Bank
Bontrop Ronald
Biomedical Primate Research Center, Rijswijk, the Netherlands.
Cuppen Edwin ORCID
Hubrecht Institute-KNAW and University Medical Center Utrecht, Utrecht, the Netherlands.
de Laat Wouter
Hubrecht Institute-KNAW and University Medical Center Utrecht, Utrecht, the Netherlands.
Creyghton Menno P
Hubrecht Institute-KNAW and University Medical Center Utrecht, Utrecht, the Netherlands.
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Article Info
Journal
Nature neuroscience
Abbr.
Nat Neurosci
ISSN
1546-1726
DOI
10.1038/nn.4229
Published
2016-03-00
Epub
2016-00-25
Pages
494-503
Language
English
Region
United States
NLM ID
9809671
Subset
IM
External Links
PubMed source DOI: 10.1038/nn.4229 View journal details
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