Validation of expression patterns of nine DEGs by RT-qPCR assay. Nine DEGs (differentially expressed genes) showed similar expression patterns between RNA-Seq data (A) and RT-qPCR assay (B). These genes included six genes up-regulated under drought and cold stresses: AmNAC1 (NAM, ATAF and CUC), AmNAC2, AmNAC11, AmDREB2C (dehydration responsive element binding 2C), AmDREB2 and AmTPP (trehalose-6-phosphate phosphatase, not significantly down-regulated in C1 library); two genes down-regulated under both stresses: AmHSP (heat shock protein) and AmCCD (carotenoid cleavage dioxygenase); and one gene with different expression trends: AmGLP (germin-like protein). D1, D2 and D3 represented 2, 8 and 24 h after drought treatment; C1, C2 and C3 represented 2, 8 and 24 h after cold treatment. The total RNAs used for the transcriptome profile analyses using RNA-Seq were used in the RT-qPCR assay, including three biological replicates. The relative expression levels of the selected genes were calculated using the 2–ΔΔCT method. Error bars represented the standard deviation of the mean expression values.