Fig. 4: tRF^31Asp2 binds a sequence present in Gypsy retrotransposons and nearby ETI-induced genes.

a Induction patterns in ETI-DEGs (lower) and non-ETI-DEGs (upper) are shown; the y- and x-axes show normalized read counts from RNA-seq of tRF^31Asp2-treated WT, and the mean values of three controls, respectively. b The primer binding site of Gypsy retrotransposons is highly homologous to tRF^31Asp2. c Physical distance of tRF-DEGs and control (non-tRF-DEGs) from the nearest tRF^31Asp2-binding ChAP-seq peaks. Data are represented as boxplots where the middle line and the dot are respectively the median and the mean, the lower and upper hinges correspond to the first and third quartiles, and the upper/lower whisker extends from the hinge to the largest/smallest value no further than 1.5 × IQR (inter-quartile range). The y-axis shows the physical distance in bps. Significance for indicated pairs is noted; ^***P < 0.001 (t-test). d Induction patterns of ETI-DEGs between with and without tRF binding. The y- and x-axes show normalized read counts from Pst_avrRpt2 and Pst at 6 hpi. Significance for indicated slopes is noted; ^***P < 10⁻¹⁶ (Chow test). e Induction patterns of transcriptionally active Copia and Gypsy LTR-retrotransposons. The y- and x-axes show normalized read counts tRF^31Asp2-treated WT and its mock control.