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. 2016 Jul 5;113(29):E4248–E4256. doi: 10.1073/pnas.1607851113

Fig. 5.

Fig. 5.

Characterization of TCM DMRs, TCdM DMRs, and TCM SMRs in Arabidopsis mutants with dysfunctional Pol IV and Pol V. (A) Methylation levels of TCdM DMRs, TCM DMRs, and TCM SMRs in nrpd1nrpe1 (Col), nrpd1nrpe1 (C24), and nrpd1nrpe1 F1 hybrids. Compared with Figs. 2A and 3B, the change of methylation level in F1 hybrids relative to the PAVs diminishes in the absence of Pol IV and Pol V. (B) For TCdM DMRs, TCM DMRs, and TCM SMRs, the distribution of log2FC(F1/PAV) for mCG, mCHG, and mCHH is shown for WT and nrpd1nrpe1. A peak at “0” corresponds to no methylation interaction. (C) Levels of siRNAs and mCHH at TCdM DMRs, TCM DMRs, and TCM SMRs in Col, nrpd1, nrpe1, and nrpd1nrpe1. Only regions with siRNAs in Col are used. *P ≤ 0.01 indicates statistical significance (two-tailed t test). (D) Abundance of siRNAs for each indicated group of regions. (Left) Targets of Pol IV and Pol V have higher siRNA accumulation than regions that are not targets of Pol IV and Pol V. (Right) Among targets of Pol IV and Pol V, regions with methylation interactions in F1 have higher siRNA levels than other target regions of Pol IV and Pol V. P values < 0.001 indicate statistical significance (two-tailed t test). (E) Distribution of methylation interaction regions in four groups of Pol IV/Pol V targets that are ranked by siRNA levels. Regions with higher siRNA levels are enriched for methylation interactions. The pie chart indicates the proportions of different siRNA quartiles in methylation interaction regions that contain siRNAs.