Fig. 5

The expression dynamics of microRNAs (miRNAs) after 30 DAH in the embryo and endosperm. A The PCA results showed that the miRNA population exhibit more dynamic changes in embryo than in endosperm during seed maturation. PCA plot was drawn after regularized logarithm transformation of the normalized miRNA counts. B Visualization of the UpSet plot for the numbers of differentially expressed miRNAs (DEmiRs) and intersections between the testing sets. The horizontal bar graphs and written numbers on the left of intersection matrix represent the numbers of DEmiRs between two compared conditions. The vertical bar graphs and written numbers from above intersection matrix represents the size of the intersections. C Heatmap representation of hierarchically clustered DEmiRs during rice seed maturation in the embryo and endosperm. Hierarchical clustering was conducted after log2-transformation of the counts per million (CPM)-normalized miRNA read counts. Boxes colored in red or blue indicate differentially expressed DEmiRs (p.adj < 0.05) between the two sampling timepoints, which are labeled on top of boxes