Fig. 3

Chromatin state analysis for differential histone modification deposition between the kaku4-2 mutant and WT. A Chromatin state analysis for the regions with higher deposition of H3K4me3, H3K27me3, and H3K9me2 in kaku4-2 mutant and WT plants. The upper plot X-axis represents the 36 chromatin states, and the Y-axis represents the proportion of chromatin states enriched in the regions with higher H3K4me3, H3K27me3, and H3K9me2 deposition in the kaku4-2 mutant and WT plants; red bars represent higher deposition of H3K4me3, H3K27me3, and H3K9me2 in kaku4-2 mutant; the blue bars represent higher deposition of H3K4me3, H3K27me3, and H3K9me2 in the WT. ***P < 0.001, **P < 0.01, *P < 0.05. The lower panels represent a heatmap of the enriched epigenetic marks in each chromatin state. Color-filled indicates preferential epigenetic marks, while no color fill represents the absence or low signal of the indicated epigenetic mark. B Enrichment profiles of H3K4me3/H3K27me3/H3K9me2 deposition in PLADs. A profile was generated using the normalized sequencing density of H3K4me3/H3K27me3/H3K9me2 in kaku4-2 mutant and WT. PLADs of different lengths are standardized to 3 kb. The 2 kb upstream and downstream regions of the PLAD are included