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A bipartite element with allele-specific functions safeguards DNA methylation imprints at the Dlk1-Dio3 locus.
Aronson, Boaz E Scourzic, Laurianne Shah, Veevek Swanzey, Emily Kloetgen, Andreas Polyzos, Alexander Sinha, Abhishek Azziz, Annabel Caspi, Inbal Li, Jiexi
Aronson, Boaz E
Scourzic, Laurianne
Shah, Veevek
Swanzey, Emily
Kloetgen, Andreas
Polyzos, Alexander
Sinha, Abhishek
Azziz, Annabel
Caspi, Inbal
Li, Jiexi
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2021-10-27
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Abstract
Loss of imprinting (LOI) results in severe developmental defects, but the mechanisms preventing LOI remain incompletely understood. Here, we dissect the functional components of the imprinting control region of the essential Dlk1-Dio3 locus (called IG-DMR) in pluripotent stem cells. We demonstrate that the IG-DMR consists of two antagonistic elements: a paternally methylated CpG island that prevents recruitment of TET dioxygenases and a maternally unmethylated non-canonical enhancer that ensures expression of the Gtl2 lncRNA by counteracting de novo DNA methyltransferases. Genetic or epigenetic editing of these elements leads to distinct LOI phenotypes with characteristic alternations of allele-specific gene expression, DNA methylation, and 3D chromatin topology. Although repression of the Gtl2 promoter results in dysregulated imprinting, the stability of LOI phenotypes depends on the IG-DMR, suggesting a functional hierarchy. These findings establish the IG-DMR as a bipartite control element that maintains imprinting by allele-specific restriction of the DNA (de)methylation machinery.
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jDev Cell. 2021 Nov 22;56(22):3052-3065.e5. doi: 10.1016/j.devcel.2021.10.004. Epub 2021 Oct 27.
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en
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1878-1551
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Attribution-NonCommercial-NoDerivatives 4.0 International