Comprehensive analysis of silencing mutants reveals complex regulation of the Arabidopsis methylome

Cell. 2013 Jan 17;152(1-2):352-64. doi: 10.1016/j.cell.2012.10.054. Epub 2013 Jan 11.


Cytosine methylation is involved in various biological processes such as silencing of transposable elements (TEs) and imprinting. Multiple pathways regulate DNA methylation in different sequence contexts, but the factors that regulate DNA methylation at a given site in the genome largely remain unknown. Here we have surveyed the methylomes of a comprehensive list of 86 Arabidopsis gene silencing mutants by generating single-nucleotide resolution maps of DNA methylation. We find that DNA methylation is site specifically regulated by different factors. Furthermore, we have identified additional regulators of DNA methylation. These data and analyses will serve as a comprehensive community resource for further understanding the control of DNA methylation patterning.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Arabidopsis / genetics*
  • Arabidopsis Proteins / metabolism
  • CpG Islands
  • DNA Methylation*
  • Gene Silencing
  • Genome, Plant*
  • Genome-Wide Association Study
  • Histones / metabolism
  • RNA Interference
  • RNA Polymerase II / metabolism
  • RNA Splicing Factors


  • Arabidopsis Proteins
  • At2g20020 protein, Arabidopsis
  • Histones
  • RNA Splicing Factors
  • RNA Polymerase II

Associated data

  • GEO/GSE38286
  • GEO/GSE39901