Figure 1: Ψ -seq detects sites that were predicted by their guiding snoRNA. | Scientific Reports

Figure 1: Ψ -seq detects sites that were predicted by their guiding snoRNA.

From: A pseudouridylation switch in rRNA is implicated in ribosome function during the life cycle of Trypanosoma brucei

Figure 1

(a) Total RNA from BSF and PCF was treated with CMC, fragmented and used to prepare a library for RNA-seq as described in “Methods”. The reads were mapped and the Ψ- fold change (Ψ-fc) values (y-axis) were determined as described in “Methods”. The Ψ-fc is the log2 transformed. Ψ-ratio of the treated samples (+CMC) divided by the Ψ-ratio in the non-treated samples (−CMC). The Ψ-fold change was computed for the PCF and BSF (mean of the three biological replicates for each condition). The values (at each position on the SSU (2280 nt), LSU5′ (1920 nt) and LSU3′ (1496 nt) and 5.8S (209 nt) rRNA) are given and plotted; BSF is pink and PCF in light blue. The black arrows indicate the snoRNA guiding the modification. The hypermodified positions are highlighted in yellow and the average for each position was plotted. (b) Scatterplots of the pairwise comparisons of Ψ-fc across independent replicates demonstrate the reproducibility of Ψ-seq for known pseudouridiylated sites (in red) versus non-modified sites (in black) both in procyclic and bloodstream forms. Pearson’s correlation coefficient is indicated on each scatterplot for modified and non-modified sites.

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