Skip to main content
Fig. 4 | Genome Biology

Fig. 4

From: Small RNAs mediate transgenerational inheritance of genome-wide trans-acting epialleles in maize

Fig. 4

Transgenerational DNA methylation in backcross lines derived from maize W22 and teosinte. a Principal component analysis (PCA) of CHH methylation levels with the overall variance explained by PC1 (x-axis) and PC2 (y-axis). Genotypes include W22 (brown dot), BR (Bravo: black dot), BL (Blanco: black triangle), BRBC1 (W22XBR BC1, pink dot), BRBC6 (W22XBR BC6, yellow dot), BLBC1 (W22XBL BC1, pink triangle), and BLBC6 (W22XBL BC6, yellow triangle). b Fraction of CHH DMRs between BRBC (left) or BLBC (right) line and W22 in different genomic features, including gene body (light green) and flanking regions of 5′ (orange, − 2 kb to transcription start site, TSS) and 3′ (blue, transcription termination site, TTS, to + 2 kb), TEs (pink), and intergenic regions (grey) excluding TEs. c Distribution (y-axis) of CHH methylation in the genic regions of W22 backcross lines, W22, and teosinte. Line colors indicate BR (orange), BRBC1 (pink), BRBC6 (yellow), and W22 (black), left panel, and BL (orange), BLBC1 (pink), BLBC6 (yellow), and W22 (black), right panel. d, e Hyper DMRs (d) of 554 in BRBC6 (left panel) and 866 in BLBC6 (right panel) lines and hypo DMRs (e) of 1241 in BRBC6 (left panel) and 1088 in BLBC6 (right panel) lines. Genomic regions in corresponding DMRs were converted to the recurrent parent W22 (lower panels), which was estimated by the average allelic ratio in each DMR using SNPs of all loci. The methylation level was normalized to that of W22 (0) in each DMR. f Levels of 24-nt siRNAs (RPTM, y-axis) in DMRs between W22 and backcross in W22 (brown), BRBC6 (yellow, left panel), and BLBC6 (yellow, right panel). Location of siRNA loci relative to the center (grey) is shown in x-axis. “Total” represents siRNA expression from all windows of the whole genome

Back to article page