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).