Fig. 2

Genome-wide DNA methylation profiling during the early stages of seed development in ‘HZ’ and ‘NMC’. A pie chart indicating the the proportion of mCG, mCHG and mCHH in all methylcytosines (mCs) at 5 DAP in 'HZ' (A) and 'NMC' (B). The DNA methylation levels within the gene body and ± 2 kb regions of genes are shown for different sequence contexts in gene sets that are expressed at different levels at 5 DAP in 'HZ' (C) and 'NMC' (D). The expression levels are categorized as high (FPKM > 100), middle (10 < FPKM ≤ 100), low (1 < FPKM ≤ 10), and none (FPKM ≤ 1). The terms TSS and TTS represent the transcription starting site and transcription terminal site, respectively. A chromosome heat map illustrating gene density, transposable elements density, DNA methylation levels in different sequence contexts, and gene expression levels of seeds at 5 DAP in 'HZ' (E) and 'NMC' (F). The bin size used for this visualization is 100 kb. The outer ring displays the chromosome names and scale