Fig. 7: RTFL18-BSK3/6-PIF4 regulates the expression of low R:FR-responsive genes.

a Heatmap showing the transcript levels of 743 low R:FR-regulated genes in Col-0, dvl1-1D, bsk36, and pif47 under white light (WL) and low R:FR (Low) conditions. Red, yellow and blue rows indicate RNA expression at high, medium and low levels, respectively. b Boxplot representing the fold changes of low R:FR-regulated genes in Col-0, dvl1-1D, bsk36, and pif47, which was determined by comparing the transcript levels between WL and low R:FR conditions. Boxplots show the median (horizontal line), second to third quartiles (box), and whiskers extend to a maximum of 1.5 × interquartile range beyond the box. c Venn diagram representing 370 RTFL18-BSK3/6-PIF4/7 coregulated genes. d Gene Ontology (GO) analysis of 370 RTFL18-BSK3/6-PIF4/7 coregulated genes. The size of each point represents the number of genes, and the color represents the P value, Fisher’s one-tailed test (P < 0.05). e The relative expression levels of HAT2, BAS1, and PAR1 under WL and low R:FR conditions were measured by RT‒qPCR. The expression levels of genes were normalized against the expression of the reference gene AT2G39960. Data are presented as mean values +/− SD (n = 3, n refers to biological replicates). Letters (b, e) indicate significant differences between groups (b one-way ANOVA: Tukey’s multiple comparisons test, P < 0.01; e two-way ANOVA: Tukey’s multiple comparisons test, P < 0.01), and groups with the same letters are not significantly different. Source data are provided as a Source Data file.