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. 2024 Sep 27;20(9):e1012179. doi: 10.1371/journal.ppat.1012179

Fig 1. Predicted RNA secondary structure of E1 differs between epizootic and enzootic VEEV.

Fig 1

(A) Summary of all SNPs identified between TC83 and 307537. (B) RNA structure analysis of subtype IAB and ID VEEV. RNA structure prediction of VEEV strain TC83 (IAB; accession L01443) and strain 307537 (ID; accession KC344519) was performed using RNAfold [17] (window size = 50nt, step size = 10 nt). The RNA structure score (RSS; frequency of MFE/ensemble diversity) is plotted against the nt window start site. Higher RSS indicates greater thermodynamic stability of predicted structures. The 2-fold standard deviation is indicated by a dotted line. (C) RSS analysis of gene E1 from strains TC83 and 307537. Location of all SNPs across E1, including a single coding change (*), are depicted in the grey bar above.