Extended self-renewal and accelerated reprogramming in the absence of Kdm5b

Mol Cell Biol. 2013 Dec;33(24):4793-810. doi: 10.1128/MCB.00692-13. Epub 2013 Oct 7.


Embryonic stem (ES) cell pluripotency is thought to be regulated in part by H3K4 methylation. However, it is unclear how H3K4 demethylation contributes to ES cell function and participates in induced pluripotent stem (iPS) cell reprogramming. Here, we show that KDM5B, which demethylates H3K4, is important for ES cell differentiation and presents a barrier to the reprogramming process. Depletion of Kdm5b leads to an extension in the self-renewal of ES cells in the absence of LIF. Transcriptome analysis revealed the persistent expression of pluripotency genes and underexpression of developmental genes during differentiation in the absence of Kdm5b, suggesting that KDM5B plays a key role in cellular fate changes. We also observed accelerated reprogramming of differentiated cells in the absence of Kdm5b, demonstrating that KDM5B is a barrier to the reprogramming process. Expression analysis revealed that mesenchymal master regulators associated with the epithelial-to-mesenchymal transition (EMT) are downregulated during reprogramming in the absence of Kdm5b. Moreover, global analysis of H3K4me3/2 revealed that enhancers of fibroblast genes are rapidly deactivated in the absence of Kdm5b, and genes associated with EMT lose H3K4me3/2 during the early reprogramming process. These findings provide functional insight into the role for KDM5B in regulating ES cell differentiation and as a barrier to the reprogramming process.

MeSH terms

  • Animals
  • Cell Differentiation
  • Cell Proliferation*
  • Cells, Cultured
  • Cellular Reprogramming*
  • Coculture Techniques
  • DNA-Binding Proteins / deficiency*
  • DNA-Binding Proteins / genetics
  • Embryoid Bodies / cytology
  • Embryoid Bodies / physiology*
  • Gene Expression
  • Gene Knockdown Techniques
  • Histones / metabolism
  • Induced Pluripotent Stem Cells / physiology
  • Jumonji Domain-Containing Histone Demethylases / deficiency*
  • Jumonji Domain-Containing Histone Demethylases / genetics
  • Kruppel-Like Factor 4
  • Kruppel-Like Transcription Factors / genetics
  • Kruppel-Like Transcription Factors / metabolism
  • Methylation
  • Mice
  • Mice, Inbred C57BL
  • Octamer Transcription Factor-3 / genetics
  • Octamer Transcription Factor-3 / metabolism
  • Promoter Regions, Genetic
  • Protein Processing, Post-Translational
  • Proto-Oncogene Proteins c-myc / genetics
  • Proto-Oncogene Proteins c-myc / metabolism
  • RNA, Small Interfering / genetics
  • SOXB1 Transcription Factors / genetics
  • SOXB1 Transcription Factors / metabolism


  • DNA-Binding Proteins
  • Histones
  • Kruppel-Like Factor 4
  • Kruppel-Like Transcription Factors
  • Myc protein, mouse
  • Octamer Transcription Factor-3
  • Pou5f1 protein, mouse
  • Proto-Oncogene Proteins c-myc
  • RNA, Small Interfering
  • SOXB1 Transcription Factors
  • Sox2 protein, mouse
  • Jumonji Domain-Containing Histone Demethylases
  • Kdm5b protein, mouse

Associated data

  • GEO/GSE46893