RT-PCR validation of differentially expressed miRNAs and mRNAs
The expression profiles of 10 differentially expressed mature miRNAs (stu-miR530_L-2R+2 , stu-miR-8039_R+3_1ss4CT ,stu-miR-384-5p_R+1 , ppe-miR-858_1ss4GA ,ath-miR-171a-3p_L-3R+1 , PC-3p-276756_24 ,PC-5p-289257_23 , PC-5p-66618_119 ,stu-miR-8006-p3_1ss8GA_1 , and stu-miR-8007b-p3_1ss22CT ) and 12 differentially expressed target genes (Solyc04g008110.3.1 ,Solyc07g063510.3.1 , Solyc03g113890.1.1 ,Solyc06g076850.3.1 , Solyc05g006420.3.1 ,Solyc08g069180.3.1 , Solyc12g056040.1.1 ,Solyc05g006420.3.1 , Solyc04g082420.3.1 ,Solyc08g066260.3.1 , Solyc09g097780.2.1 , andSolyc09g064820.1.1 ) were further validated using qRT-PCR (Table 1). The results of qRT-PCR revealed that most of these miRNAs/mRNAs shared similar expression patterns as those observed in the miRNA-Seq/mRNA-Seq data (RPKM/reads-based expression values; Tables S10 and S11). Although there were some quantitative differences between the two analytical platforms, the similarities between the sequencing data and qRT-PCR suggested that the data were reliable.