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. 2015 Apr 22;11(4):e1005154. doi: 10.1371/journal.pgen.1005154

Fig 3. Change of non-CG methylation during self-pollination of ddm1 mutants.

Fig 3

(A, B) Effects of 1G and 9G ddm1 mutation on CHG methylation (A) and CHH methylation (B). The format is as shown for CG sites in Fig 2A. Comparison of the 9G ddm1 plants to independently self-pollinated 9G DDM1 plants is shown in S3 Fig. (C) The number of genes that gained non-CG methylation in ddm1 mutant (methylation level < 0.1 in WT and ≥ 0.1 in ddm1). Results for the four 1G and four 9G of ddm1 mutants are shown for CHG and CHH sites. (D) Coordinated hypermethylation of CG, CHG and CHH sites. “Genes CHG-hypermethylated in 9G ddm1” are those with methylation level < 0.1 in 1G ddm1 and ≥ 0.1 in 9G ddm1. DNA methylation levels for three contexts are shown for WT, 1G ddm1, and 9G ddm1. On the right, total genes are shown as controls. Although CHG hypermethylated genes tend to have more CG methylation in wild type, the body methylation is not an absolute requirement; even genes without CG methylation occasionally non-CG hypermethylated in 9G ddm1 (S4 Fig). Pattern of CG methylation change from 1G ddm1 to 9G ddm1 is further characterized in S5 Fig.