Epigenetic priming by Dppa2 and 4 in pluripotency facilitates multi-lineage commitment

Nat Struct Mol Biol. 2020 Aug;27(8):696-705. doi: 10.1038/s41594-020-0443-3. Epub 2020 Jun 22.

Abstract

How the epigenetic landscape is established in development is still being elucidated. Here, we uncover developmental pluripotency associated 2 and 4 (DPPA2/4) as epigenetic priming factors that establish a permissive epigenetic landscape at a subset of developmentally important bivalent promoters characterized by low expression and poised RNA-polymerase. Differentiation assays reveal that Dppa2/4 double knockout mouse embryonic stem cells fail to exit pluripotency and differentiate efficiently. DPPA2/4 bind both H3K4me3-marked and bivalent gene promoters and associate with COMPASS- and Polycomb-bound chromatin. Comparing knockout and inducible knockdown systems, we find that acute depletion of DPPA2/4 results in rapid loss of H3K4me3 from key bivalent genes, while H3K27me3 is initially more stable but lost following extended culture. Consequently, upon DPPA2/4 depletion, these promoters gain DNA methylation and are unable to be activated upon differentiation. Our findings uncover a novel epigenetic priming mechanism at developmental promoters, poising them for future lineage-specific activation.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Cell Differentiation
  • Cell Line
  • Chromatin / genetics
  • Chromatin / metabolism
  • DNA Methylation
  • Dipeptidyl Peptidase 4 / genetics*
  • Dipeptidyl Peptidase 4 / metabolism
  • Epigenesis, Genetic*
  • Gene Expression Regulation, Developmental
  • Gene Knockout Techniques
  • Histones / genetics
  • Histones / metabolism
  • Mice
  • Mouse Embryonic Stem Cells / cytology*
  • Mouse Embryonic Stem Cells / metabolism
  • Transcription Factors / genetics*
  • Transcription Factors / metabolism

Substances

  • Chromatin
  • Dppa2 protein, mouse
  • Histones
  • Transcription Factors
  • histone H3 trimethyl Lys4
  • Dipeptidyl Peptidase 4
  • Dpp4 protein, mouse