A new reagent for in vivo structure probing of RNA G and U residues that improves RNA structure prediction alone and combined with DMS

Comparison of DMS and ETC for sequencing libraries of Escherichia coli 16S rRNA and 23S rRNA probed in vivo using TGIRT-III at 65°C. (A) Violin plots showing background-subtracted mutation rates for all residues modified by 100 mM DMS and 200 mM ETC. The significance of Wilcox tests is denoted with asterisks comparing paired and unpaired residues, and medians and P-values are reported in Supplemental Table S4. (B) Violin plots showing raw mutation rates for Gs and Us in untreated (UT), 200 mM ETC (1× ETC), and 300 mM ETC (1.5× ETC) samples. Medians are provided in Supplemental Table S5. The significance of Wilcox tests is denoted with asterisks, and P-values are reported in Supplemental Table S6.