Figure 1.
The size distribution of the small RNAs in leaves and roots libraries of cucumber.
Table 1.
Statistics of small RNA sequences from the cucumber leaves and roots libraries.
Table 2.
Expression levels of cucumber miRNA families assessed using Solexa sequencing.
Figure 2.
Predicted secondary structures of novel cucumber miRNAs.
The mature miRNA and miRNA* sequences are written with red and blue capital letters, respectively.
Table 3.
Novel cucumber miRNAs identified by high-throughput sequencing.
Figure 3.
Expression analysis of miRNAs in cucumber leaves and roots by qRT-PCR.
The amount of expression was normalized by the level of U6 in qRT-PCR. All reactions of qRT-PCR were repeated three times for each sample. Left indicates the miRNA relative expression generated from the high-throughput sequencing; Right indicates the miRNA relative expression tested by qRT-PCR.
Figure 4.
Target plots (t-plots) of miRNA targets in different categories confirmed by degradome sequencing.
(A) T-plot (top) and miRNA: mRNA alignments (bottom) for two category I targets, Csa020279 and Csa009014 transcripts. The arrow indicates signatures consistent with miRNA-directed cleavage. The solid lines and dot in miRNA: mRNA alignments indicate matched RNA base pairs and GU mismatch, respectively, and the red letter indicates the cleavage site. (B) As in (A) for Csa18310 and Csa008131, a category II target for csa-miR172 and csa-miR858. (C) As in (A) for Csa014411, a category III target for csa-miR169.
Table 4.
Cucumber miRNA targets identified by degradome sequencing.
Table 5.
GO analyses show that miRNAs potentially target tissue forming-related biological processes.