Figure 2
From: An atypical class of non-coding small RNAs is produced in rice leaves upon bacterial infection
A subset of xisRNAs are detected in northern blots and exhibit contrasted expression patterns in response to phylogenetically diverse Xo strains. (A) Autoradiographs obtained after RNA gel northern blot analysis conducted with specific oligonucleotide probes hybridized to total RNA extracted from Nipponbare leaves infiltrated with the indicated strains and collected at the indicated time points (hpi hours post inoculation). The xisRNA probes detect RNAs complementary to the sense strand of the xisRNA cis-gene. The BAI3H and PXO99H strains correspond to a T3SS defective mutant derivative of the BAI3 and PXO99A virulent strains, respectively. The hyphens on the right of individual blots mark a size of 21 nt. Individual images derive from successive stripping, hybridization and detection rounds of the same membrane. Full-length blots are presented in Supplementary Fig. S15. Equivalent results were obtained in two other similar experiments. (B) Differential expression statistics of xisRNA loci found to be induced by the Asian Xoo PXO99 strain in public sRNA-seq datasets. The treatment comparisons (bottom labels) involve tissue samples inoculated with PXO99 versus a mock control at the indicated time point. The plot displays xisRNA loci with a log2(fold change) ≥ 1 and an BH adjusted p-values ≤ 0.1 in at least one comparison.
