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Heart enhancers with deeply conserved regulatory activity are established early in development

Xuefei Yuan, Mengyi Song, Patrick Devine, View ORCID ProfileBenoit G. Bruneau, View ORCID ProfileIan C. Scott, View ORCID ProfileMichael D. Wilson
doi: https://doi.org/10.1101/312611
Xuefei Yuan
1Program in Genetics and Genome Biology, The Hospital for Sick Children, Toronto, Canada
2Program in Developmental and Stem Cell Biology, The Hospital for Sick Children, Toronto, Canada
3Department of Molecular Genetics, University of Toronto, Toronto, Canada
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Mengyi Song
1Program in Genetics and Genome Biology, The Hospital for Sick Children, Toronto, Canada
2Program in Developmental and Stem Cell Biology, The Hospital for Sick Children, Toronto, Canada
3Department of Molecular Genetics, University of Toronto, Toronto, Canada
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Patrick Devine
4Gladstone Institutes, San Francisco, CA
5Department of Pathology, University of California, San Francisco, San Francisco, CA
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Benoit G. Bruneau
4Gladstone Institutes, San Francisco, CA
6Department of Pediatrics and Cardiovascular Research Institute, University of California, San Francisco, San Francisco, CA
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  • ORCID record for Benoit G. Bruneau
Ian C. Scott
2Program in Developmental and Stem Cell Biology, The Hospital for Sick Children, Toronto, Canada
3Department of Molecular Genetics, University of Toronto, Toronto, Canada
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Michael D. Wilson
1Program in Genetics and Genome Biology, The Hospital for Sick Children, Toronto, Canada
3Department of Molecular Genetics, University of Toronto, Toronto, Canada
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  • ORCID record for Michael D. Wilson
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Abstract

During the phylotypic period embryos from different genera show similar gene expression patterns, implying common regulatory mechanisms. To identify enhancers involved in the initial events of cardiogenesis, which occurs during the phylotypic period, we isolated early cardiac progenitor cells from zebrafish embryos and characterized 3838 open chromatin regions specific to this cell population. Of these regions, 162 overlapped with conserved non-coding elements (CNEs) that also mapped to open chromatin regions in human. Most of the zebrafish conserved open chromatin elements tested drove gene expression in the developing heart. Despite modest sequence identity, human orthologous open chromatin regions could recapitulate the spatial temporal expression patterns of the zebrafish sequence, potentially providing a basis for phylotypic gene expression patterns. Genome-wide, we discovered 5598 zebrafish-human conserved open chromatin regions, suggesting that a diverse repertoire of ancient enhancers is established prior to organogenesis and the phylotypic period.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted May 04, 2018.
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Heart enhancers with deeply conserved regulatory activity are established early in development
Xuefei Yuan, Mengyi Song, Patrick Devine, Benoit G. Bruneau, Ian C. Scott, Michael D. Wilson
bioRxiv 312611; doi: https://doi.org/10.1101/312611
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Heart enhancers with deeply conserved regulatory activity are established early in development
Xuefei Yuan, Mengyi Song, Patrick Devine, Benoit G. Bruneau, Ian C. Scott, Michael D. Wilson
bioRxiv 312611; doi: https://doi.org/10.1101/312611

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