Fig. 5: Epigenetic footprint and 3D genomic feature of L. regale. | Nature Communications

Fig. 5: Epigenetic footprint and 3D genomic feature of L. regale.

From: Genomic and epigenomic insight into giga-chromosome architecture and adaptive evolution of royal lily (Lilium regale)

Fig. 5: Epigenetic footprint and 3D genomic feature of L. regale.

a The 3D model of each whole chromosome in the L. regale. haplotype. Each color represents one chromosome. b The H3K4Me3, H3K9Me2 and H3K27Me3 enrichment on TAD boundaries, upstream and downstream. c Gene, LINE and SINE density between TAD boundaries upstream and downstream. d The H3K4Me3, H3K9Me2 and H3K27Me3 enrichment on genes, LINEs and SINEs on TAD boundaries. e The DNA methylation level (CG, red; CHG, yellow; CHH, blue; methylation level represents the proportion of 5mC at the given site) between upstream and downstream of Gene and SINE on TAD boundaries. f Characteristics of the region on Chr02 as an example, which had SINEs and H3K9Me2 enrichment on TAD boundaries (Highlighted). The TAD domains (black triangles), A/B compartment (red, A compartment; blue, B compartment), gene density (red), GC content (%, light gray blue), TE density (orange, all TE; LTR, pink; DNA, gold; LINE, skyblue; SINE, green; other TE, darkgreen), ChIP-seq (cyan, H3K4Me3; brown, H3K9Me2; flesh, H3K27Me3) were plotted from the top to bottom successively.

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