Electronic supplement

Table 2: Primers used for the PCR amplification of different regions of the CBSV genome; Ug and Tan prefixes indicate primers used for isolates CBSV-Ug and CBSV-Tan, respectively.

Primer / Coding region / Position / Sequence 5¢-3¢
Ug-P1-F1 / P1 / 1041-1058 / TTC GTC CTG GAT GGA GCG
Ug-CI-R4 / CI / 2646-2622 / CTC GAC CCC GAT AAG CTA ATG ATA C
Ug-CI-F1 / CI / 2397-2415 / ACC ACG AGT GGA CCC ATG C
Ug-CI-R6 / CI / 4130-4105 / ATA TTC TGC TGA GTG TGG ATT CTC AC
Ug-CI-F5 / CI / 4073-4097 / CGA TGA CTA TGA ATC TCT TGT TCG G
Ug-Vpg-R3 / NIa-Vpg / 4533-4509 / CAT CAA ATT CTA GAG GGT TGA CTC C
Ug-Vpg-F2 / NIa-Vpg / 4334-4357 / AAG ATT GAT GTT TGA CAT GGA CGA
Ug-Pro-R2 / NIa-Pro / 4956-4933 / TTG ACC CAT GAA AGA AAC AAT TTA
Ug-Pro-F1 / NIa-Pro / 4899-4921 / AGA CTT GGT AGA GCG CGT CTT GG
Ug-NIb-R / Nib / 6750-6728 / CTT TCA GCA TGA ATG AAT GGC TC
Ug-NIb-F1 / Nib / 6576-6598 / AAR TAY ATG TGY AAY GGN GAY GA
Ug5-End-R2 / CP / 8156-8137 / CTG TGA CAC CTT TGG AGG CT
Ug-P1-R3 / P1 / 1145-1122 / CTT CCC TTG AAC AAC ACA AAT GTC
Ug-P1-R / P1 / 1068-1047 / TGA TCG CTC CGC TCC ATC CAG G
Ug-NIb/HamA / Nib / 6947-6970 / ACT GGA TAG AAA GCG TGT AGA AGG
Ug-CP/HamB / CP / 7869-7848 / TTA CAC GCT CAA CTT GTG GGG C
Tan-P1-F2 / P1 / 724-744 / AGG CTT GTG TCC ACA GAG CGT
Tan-CI-R2 / CI / 2452-2429 / GTA TCT TAT CAG CCA GCT CGT TCG
Tan-CI-F2a / CI / 2384-2407 / AGC CAA CTA CTA GTG GTC CAA TGC
TanZ-CI-R1 / CI / 3831-3807 / TTT ATG AGC AAC TGT GTG GAA ATC A
Tan-CI-F3 / CI / 3741-3765 / GAA ATT GGC TGA ATG TGT AAA AGC A
Tan-Vpg-F1 / NIa-Vpg / 4351-4378 / GAT GAT CAA GTC ACA GTA GAA ACT TTT G
Tan-Pro-R1 / NIa-Pro / 5495-5471 / GAA TTC CAT TCC ACT AAA TCA GGA T
Tan-Pro-F1 / NIa-Pro / 5404-5424 / CCC GTG AAT CAT GAG CTG ATT
Tan-NIb-R1 / Nib / 6252-6231 / AGC CAA CCT ATC CCA TCC TCT A
Tan-NIb-F / Nib / 7013-7034 / TGA GCG GAA TCT CAC CAC CAT C
Tan-Ham-R / Ham1 / 7682-7656 / CTC TTC AAG AAA TCT CTC ACC AAC GAC
Tan-P1-R1 / P1 / 1014-989 / CTC ACA CGA CCA AAA TAC TTT GCT AG
Tan-P1-R3 / P1 / 726-706 / CCT GTC TAC CAC CGC CTC TTC
Tan-NIb/HamB / Nib / 6629-6656 / TTC CTA TTA TTC AGA GCC GAT TTA AAG A
Tan-CP/HamA / CP / 7776-7751 / TGT TAT TTC AGC TTC AAT CTC ATC CT