Fig. 5: Loss of siRNAs correlates with changes in gene expression and DNA methylation.
From: Dosage-sensitive maternal siRNAs determine hybridization success in Capsella
a, Comparison of DNA methylation levels in genes (gene body), promoters and TEs overlapping siren loci with all genes and TEs in the Cr genome. The asterisks indicate statistically significant differences as calculated by two-sided Wilcoxon tests (***P < 0.001). b, Expression of genes overlapping siren loci in Cr × Cr, Cr × Cg and nrpd1 × Cr seeds at 6 DAP. The asterisks indicate statistically significant differences as calculated by two-sided Wilcoxon tests (***P < 0.001; **P < 0.01). c, Heat map and dendrogram show clustering of samples based on log2 fold changes (compared with the corresponding maternal parent) of genes overlapping siren loci. d, Scatter plots showing Pearson’s correlation (r) (two-sided) between the loss of siRNAs and changes in genes expression (left) and CHH methylation (right). e, Comparison of DNA methylation in Cr × Cr versus nrpd1 × Cr (left) and Cr × Cr versus Cr × Cg (right) endosperm on upregulated genes (in the respective crosses) overlapping siren loci. The asterisks indicate statistically significant differences as calculated by a two-sided Wilcoxon test (*P < 0.05). In a, b and e, the horizontal lines show the median values, the box edges show the interquartile range and the whiskers show the full range excluding outliers.
