RNA-Seq of Prunus persica to preventive treatment with PpPep1 and PpPep2 endogenous peptides

We charactarize the transcriptomic response of Prunus persica to preventive treatment with PpPep1 and PpPep2 endogenous peptides. The most effective dose of each peptide was applied to leaves and we sequenced their transcriptomes after 1, 24 and 48 h using untreated plants as control. mRNA profiles were generated by deep sequencing, in triplicate, using Illumina HiSeq2000. Differential expression analysis was performed with R package DESeq2 version 1.20.0, genes were considered significant with FDR<0.01 and log2FC>1 or log2FC<-1. We identified a total of 2,076 genes exhibiting differential expression upon PpPep1 application and 1,985 for PpPep2, accounting for 8% of the P. persica genes, 6% in response to both peptides. The similarity of PpPep responses was higher shortly after treatment (1 h), with some asynchrony at later stages and some variation in the specific regulated genes, always within the same functional categories. qRT–PCR validation with 19 genes was performed using SYBR Green assays (R 0.92). mRNA profiles of P. persica pretreated with PpPep1 or PpPep2 after 1, 24 and 48 h, untreated plants as control.