Analyses of phyB-regulated genes by RNA-seq

The phytochrome family consists of five numbers (phyA-phyE) in Arabidopsis, of which phyB is the best characterized and shown to play a major role in mediating red light inhibition of hypocotyl elongation. In order to reveal the molecular basis for phyB-mediated red light signaling to promote photomorphogenesis, we analyzed the gene expression profile of red light-grown WT and phyB mutant seedlings by high throughput sequencing. Overall design: WT and phyB mutant seedlings were grown on 1/2 MS plates plus 1% sucrose under 60 µmol m-2 s-1 red light for 4.5 days. mRNA from each samples was sequenced to analyze the genes regulated by phyB.