H3K4 methylation by SETD1A/BOD1L facilitates RIF1-dependent NHEJ

Mol Cell. 2022 May 19;82(10):1924-1939.e10. doi: 10.1016/j.molcel.2022.03.030. Epub 2022 Apr 18.

Abstract

The 53BP1-RIF1-shieldin pathway maintains genome stability by suppressing nucleolytic degradation of DNA ends at double-strand breaks (DSBs). Although RIF1 interacts with damaged chromatin via phospho-53BP1 and facilitates recruitment of the shieldin complex to DSBs, it is unclear whether other regulatory cues contribute to this response. Here, we implicate methylation of histone H3 at lysine 4 by SETD1A-BOD1L in the recruitment of RIF1 to DSBs. Compromising SETD1A or BOD1L expression or deregulating H3K4 methylation allows uncontrolled resection of DNA ends, impairs end-joining of dysfunctional telomeres, and abrogates class switch recombination. Moreover, defects in RIF1 localization to DSBs are evident in patient cells bearing loss-of-function mutations in SETD1A. Loss of SETD1A-dependent RIF1 recruitment in BRCA1-deficient cells restores homologous recombination and leads to resistance to poly(ADP-ribose)polymerase inhibition, reinforcing the clinical relevance of these observations. Mechanistically, RIF1 binds directly to methylated H3K4, facilitating its recruitment to, or stabilization at, DSBs.

Keywords: 53BP1; BOD1L; H3K4 methylation; PARP inhibitors; RIF1; SETD1A; class switch recombination; double-strand break repair; shieldin.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • BRCA1 Protein / genetics
  • DNA / metabolism
  • DNA Breaks, Double-Stranded*
  • DNA End-Joining Repair
  • DNA Repair
  • Histone-Lysine N-Methyltransferase / genetics
  • Histone-Lysine N-Methyltransferase / metabolism
  • Humans
  • Methylation
  • Telomere-Binding Proteins* / genetics
  • Telomere-Binding Proteins* / metabolism
  • Tumor Suppressor p53-Binding Protein 1 / genetics
  • Tumor Suppressor p53-Binding Protein 1 / metabolism

Substances

  • BRCA1 Protein
  • Rif1 protein, human
  • Telomere-Binding Proteins
  • Tumor Suppressor p53-Binding Protein 1
  • DNA
  • Histone-Lysine N-Methyltransferase
  • Setd1A protein, human