Table 1. Predicted Duplexes Formed between the Tomato CalS11-like mRNA Target and vd-sRNAs Derived from the VMRs of PSTVd Variants
PSTVd VariantCalS11-like mRNA/vd-sRNA∆Ga% Pairing
PSTVd-I3768 GG A G 3788−27.9680.9
5′-U UUC U UCUGCUCAGGAG-3′
3′-A AAG A AGACGAGUCCUC-5′
59 AA A A 39
PSTVd-I3766 GG A G 3787−27.8781.8
5′-CUU UUC U UCUGCUCAGGA-3′
3′-GAA AAG A AGACGAGUCCU-5′
61 AA A A 40
PSTVd-M3768 GG A G A 3788−22.1171.4
5′-U UUC U UCUGCUC GGAG-3′
3′-A AAG A AGACGAG UCUC-5′
59 AA A A C39
PSTVd-M3766 GG A G A 3787−22.0272.7
5′-CUU UUC U UCUGCUC GGA-3′
3′-GAA AAG A AGACGAG UCU-5′
61 AA A A C 40
  • a The PairFold online tool was used to predict the minimum secondary structure free energy of pairs of RNA sequences.

  • Underlined nucleotides represent G:U wobble base pairs.