Analysis of miRNA sequencing data in 35S:SlmiR-168a and
35S:rSlAGO1 plants
To identify miRNAs regulated by SlmiR-168a -mediated SlAGO1in response to K+ deficiency stress, nine small RNA
libraries were constructed from WT, 35S:SlmiR-168a , and35S:rSlAGO1 samples. In total, 12,836,013, 14,373,027,
13,912,496, 14,850,199, 17,821,390, 12,006,556, 17,470,288, 12,383,616,
and 25,030,158 raw reads were generated by high-throughput sequencing
for the three genotypes and three
replicates (Table S2). After data processing, including filtration of
small RNAs except miRNAs, 7,163,035, 11,223,930, 9,849,836, 8,542,869,
10,694,993, 7,571,073, 10,723,320, 9,305,655, and 16,653,370 total valid
reads, corresponding to 2,575,545, 4,694,297, 4,410,072, 3,159,839,
3,691,188, 2,895,817, 3,862,724, 4,199,533, and 5,3931,63 unique reads
were acquired in the libraries of WT, 35S:SlmiR-168a , and35S:rSlAGO1 plants (with three replicates each), respectively.
The majority of valid reads were 20–24 nt in length, with 24-nt reads
being the most common among all three genotypes (Fig. 5a). In total, we
identified 1168 conserved miRNAs belonging to miRNA families and 1060
predicted novel miRNAs in the nine small RNA libraries (Table S3).
Details regarding family member numbers of conserved miRNA are
summarised in Table S4. Overall, 68 conserved miRNA families contained
more than one member.