Fig. 2: Redistribution of RNA structure ensembles upon cold shock.
a, Pie chart depicting the percentages of bases in the E. coli transcriptome populating one, two or three or more conformations after cold shock. Only bases populating the same number of conformations in DH5α and TOP10 cells are considered. b, Pie chart depicting the percentages of bases in the E. coli transcriptome, for transcripts expressed both at 37 °C and at 10 °C, for which the ensemble heterogeneity increases (red), decreases (blue) or remains unchanged (gray) after cold shock. c, RNA secondary structure ensemble analysis of the cspA RNA thermometer at 37 °C (left) and after cold shock (right). Reactivities were averaged across DH5α and TOP10 cells and overlaid on the predicted structures. Bases falling outside of the region deconvolved by DRACO are marked in pink. d, Western blot analysis of FLAG-tagged CspG, CpxP and LpxP expression at 37 °C and 10 °C, 30 min, 1 h and 2 h after IPTG induction and cold shock for constructs harboring both the 5′ UTR and the CDS (left) or only the CDS (right). LacI was used as the loading control. Analysis is representative of two independent biological replicates.
