Identification of miRNAs expressed in the two transgenic tomato plants
When comparing 35S:SlmiR-168a plants with WT plants, 122 miRNAs were significantly upregulated (fold change > 2; P< 0.1), whereas 110 miRNAs were significantly downregulated (fold change > 2; P < 0.1; Fig. 5b; Table S5). When comparing 35S:rSlAGO1 plants with WT plants, 102 miRNAs were significantly upregulated (fold change > 2; P< 0.1), whereas 58 miRNAs were significantly downregulated (fold change > 2; P < 0.1; Fig. 5b; Table S6). There were 334 miRNAs that were upregulated in the comparison of35S:rSlAGO1 and WT plants but downregulated in the comparison of35S:SlmiR-168a and WT plants (Table S7). There were 276 miRNAs that were downregulated in the comparison of 35S:rSlAGO1 and WT plants but upregulated in the comparison of 35S:SlmiR-168a and WT plants (Table S7).