Confirmation of DEGs by qRT-PCR
To validate the RNA-Seq data, six genes were randomly selected from the peach fruit DEGs for qRT-PCR analysis using PpeIF-1A as the internal control gene. The ratio of gene expression levels between CT and HT at each time point were calculated for both the RNA-Seq and qRT-PCR experiments. As shown in Supplementary Figure S11 , the fold-changes in base-2 logarithm were similar between the two technologies, which confirmed the reliability of our transcriptome measurement.