RNA-seq analysis of Arabidopsis roots of Col-0, fls2 and UBQ10::mCitrine-IMA1 in response to +Fe, +Fe+flg22, -Fe and -Fe+flg22

We reported the flg22-triggered immune responses in roots affect the iron deficiency responses and may link to the function of FLS2 and IMA1 in the root. To identify the underlying mechanism of how the root transcriptome profiles respond to +Fe, +Fe+flg22, -Fe, -Fe+flg22 respectively, and if the flg22 responses is dependent on the function of FLS2 and IMA1 in the root, we performed an mRNA-seq experiments in Col-0, fls2 and UBQ10::mCitrine-IMA1 with different treatments. The differentially expressed genes in response to +Fe, +Fe+flg22, -Fe, -Fe+flg22 were analyzed. It has 36 samples in total, with 3 biogical replicates for each condition and each genotype. 7 days old seedling of Col-0, fls2 and UBQ10::mCitrine-IMA1 were grown on +Fe plate and transfer to the liquid medium with +Fe (75µM Fe), +Fe+flg22 (75µM Fe + 100nM flg22), -Fe (50µM FerroZine), -Fe+flg22 (50µM FerroZine + 100nM flg22) and treat for 24 hours, respectively. The root samples were ground in liquid nitrogen and the RNA was extrancted with the SpectrumTM Plant Total RNA Kit (Sigma-Aldrich, Cat. STRN250). The sequencing libraries were generated by the Salk Next Generation Sequencing Core according to Illumina manufacturer’s instructions.