Dimethylation of histone H3 lysine 9 is a critical mark for DNA methylation and gene silencing in Arabidopsis thaliana

James P Jackson, Lianna Johnson, Zuzana Jasencakova, Xing Zhang, Laura PerezBurgos, Prim B Singh, Xiaodong Cheng, Ingo Schubert, Thomas Jenuwein, Steven E Jacobsen

Research output: Contribution to journalArticlepeer-review

226 Citations (Scopus)


The Arabidopsis KRYPTONITE gene encodes a member of the Su(var)3-9 family of histone methyltransferases. Mutations of kryptonite cause a reduction of methylated histone H3 lysine 9, a loss of DNA methylation, and reduced gene silencing. Lysine residues of histones can be either monomethylated, dimethylated or trimethylated and recent evidence suggests that different methylation states are found in different chromatin domains. Here we show that bulk Arabidopsis histones contain high levels of monomethylated and dimethylated, but not trimethylated histone H3 lysine 9. Using both immunostaining of nuclei and chromatin immunoprecipitation assays, we show that monomethyl and dimethyl histone H3 lysine 9 are concentrated in heterochromatin. In kryptonite mutants, dimethyl histone H3 lysine 9 is nearly completely lost, but monomethyl histone H3 lysine 9 levels are only slightly reduced. Recombinant KRYPTONITE can add one or two, but not three, methyl groups to the lysine 9 position of histone H3. Further, we identify a KRYPTONITE-related protein, SUVH6, which displays histone H3 lysine 9 methylation activity with a spectrum similar to that of KRYPTONITE. Our results suggest that multiple Su(var)3-9 family members are active in Arabidopsis and that dimethylation of histone H3 lysine 9 is the critical mark for gene silencing and DNA methylation.

Original languageEnglish
Pages (from-to)308-15
Number of pages8
Issue number6
Publication statusPublished - Mar 2004


  • Arabidopsis
  • Cell Nucleus
  • Chromatin
  • DNA Methylation
  • Gene Silencing
  • Histone-Lysine N-Methyltransferase
  • Histones
  • Lysine
  • Precipitin Tests
  • Journal Article
  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, P.H.S.

Fingerprint Dive into the research topics of 'Dimethylation of histone H3 lysine 9 is a critical mark for DNA methylation and gene silencing in Arabidopsis thaliana'. Together they form a unique fingerprint.

Cite this