Fig. 5

RT-qPCR analysis in StRIK-RNAi and Wild type tuber periderm of five DEGs. a The relative transcript abundance (RTA) of Retrotransposon protein, Dehydration responsive element binding protein, K+ channel inward rectifying, transposase and RNase H family protein, in StRIK deficient and Wild type lines is shown. Values are the mean ± SD of the Wild type (three biological replicates, n = 3) and StRIK-RNAi lines 12 and 47 (two biological replicates for each line, n = 4). The three lines were compared using a one-way analysis of variance with contrasts that showed no statistically significant difference between the two silenced lines for any of the five genes. However, after Benjamini-Hochberg adjustment for multiple testing, the difference between the mean of the two silenced lines and the wild type was statistically significant or of borderline significance for all five genes (two asterisks (**, P < 0.01), one asterisk (*, P < 0.05) and dagger (†, P < 0.06)). b Comparison of the results obtained for these genes in the RNA-seq and the Real-time PCR analyses. Results show the transcript abundance estimated by each method (effective counts for RNA-seq and RTA for RT-qPCR) as well as the log2 Fold Change (FC) obtained