RNA Helicase DDX5 Inhibits Reprogramming to Pluripotency by miRNA-Based Repression of RYBP and its PRC1-Dependent and -Independent Functions

Cell Stem Cell. 2017 Apr 6;20(4):462-477.e6. doi: 10.1016/j.stem.2016.12.002. Epub 2017 Jan 19.

Abstract

RNA-binding proteins (RBPs), in addition to their functions in cellular homeostasis, play important roles in lineage specification and maintaining cellular identity. Despite their diverse and essential functions, which touch on nearly all aspects of RNA metabolism, the roles of RBPs in somatic cell reprogramming are poorly understood. Here we show that the DEAD-box RBP DDX5 inhibits reprogramming by repressing the expression and function of the non-canonical polycomb complex 1 (PRC1) subunit RYBP. Disrupting Ddx5 expression improves the efficiency of iPSC generation and impedes processing of miR-125b, leading to Rybp upregulation and suppression of lineage-specific genes via RYBP-dependent ubiquitination of H2AK119. Furthermore, RYBP is required for PRC1-independent recruitment of OCT4 to the promoter of Kdm2b, a histone demethylase gene that promotes reprogramming by reactivating endogenous pluripotency genes. Together, these results reveal important functions of DDX5 in regulating reprogramming and highlight the importance of a Ddx5-miR125b-Rybp axis in controlling cell fate.

Keywords: DDX5; H2AK119ub1; RNA binding protein; RYBP; microRNA-125b; pluripotency; polycomb repressor complex 1; somatic cell reprogramming.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • 3' Untranslated Regions / genetics
  • Animals
  • Base Sequence
  • Cell Lineage / genetics
  • Cellular Reprogramming / genetics*
  • DEAD-box RNA Helicases / genetics
  • DEAD-box RNA Helicases / metabolism*
  • Down-Regulation / genetics
  • F-Box Proteins / genetics
  • Fibroblasts / cytology
  • Fibroblasts / metabolism
  • Gene Expression Regulation, Developmental
  • Genetic Loci
  • Histones / metabolism
  • Humans
  • Jumonji Domain-Containing Histone Demethylases / genetics
  • Mice
  • Mice, Inbred C57BL
  • MicroRNAs / genetics
  • MicroRNAs / metabolism*
  • Mouse Embryonic Stem Cells / cytology
  • Mouse Embryonic Stem Cells / metabolism
  • Octamer Transcription Factor-3 / metabolism
  • Pluripotent Stem Cells / cytology
  • Pluripotent Stem Cells / metabolism
  • Polycomb Repressive Complex 1 / metabolism*
  • Protein Binding
  • Repressor Proteins / genetics*
  • Repressor Proteins / metabolism
  • Up-Regulation

Substances

  • 3' Untranslated Regions
  • F-Box Proteins
  • Histones
  • MicroRNAs
  • Mirn125 microRNA, mouse
  • Octamer Transcription Factor-3
  • Pou5f1 protein, mouse
  • Repressor Proteins
  • Rybp protein, mouse
  • Jumonji Domain-Containing Histone Demethylases
  • Kdm2b protein, mouse
  • Polycomb Repressive Complex 1
  • Ddx5 protein, mouse
  • DEAD-box RNA Helicases