Fig. 2: Totipotency-regulating genes exhibit increased expression levels and CHH hypermethylation during LEC2-induced somatic embryogenesis. | Nature Communications

Fig. 2: Totipotency-regulating genes exhibit increased expression levels and CHH hypermethylation during LEC2-induced somatic embryogenesis.

From: LEC2 induces somatic cell reprogramming through epigenetic activation of plant cell totipotency regulators

Fig. 2

a The average cytosine methylation levels across whole genes with 5 kb flanking regions in CG, CHG, and CHH contexts. TSS, transcription start site; TTS, transcription termination site. b The number of differentially methylated regions (DMRs) in CG, CHG, and CHH methylation contexts was determined for the indicated comparisons. c Genomic features overlapping with the DRM1/2-dependent CHH hyper-DMRs that are hypermethylated in pER8-LEC2 vs. Mock and hypomethylated in pER8-LEC2 drm1/2 vs. pER8-LEC2. d Venn diagram showing genes with DRM1/2-dependent CHH DMR between the indicated treatment and genotypes. P-value indicates statistical significance by hypergeometric tests. e GO term analysis of the 678 upregulated genes with CHH hypermethylation. The selected 10 enriched GO biological processes are indicated. The -log10(P-value) is given. P-values were calculated using hypergeometric tests in the clusterProfiler package. f Upper panel: heatmap showing the expression levels of totipotency-regulating genes in Mock and pER8-LEC2 at 72, 84, and 96 HAI. Lower panel: heatmap showing the CHH methylation levels of DMRs at totipotency-regulating genes in Mock, pER8-LEC2, and pER8-LEC2 drm1/2 at 96 HAI.

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