Extended Data Fig. 10: Reproducibility analysis of the biological replicates for the RNA-seq.

(a) and (b) Correlation analysis of the biological replicates of the RNA-seq analysis of Col-0 (a) and pk6/7/8 (b) under a long-day photoperiod. The x and y axes indicate the read coverage normalized to the total mapped reads, and values are in the log2 scale. (c) Volcano plot of the RNA-seq results of Col-0 and pk6/7/8. The negative log of the p-value (base 10) was plotted on the y axis, while the log of the fold change (FC; base 2) was plotted on the x axis. The upregulated and downregulated genes in pk6/7/8 compared with Col-0 are indicated in the Venn diagram. (d) Gene ontology (GO) enrichment of functions associated with biological processes in the 2355 downregulated genes in pk6/7/8. The differentially expressed genes were analysed using TBtools (v.2.052). The p-value in Fisher exact test is computed.