Table 3.
Nucleotide identities of ButMV sequences obtained from Veronica sources and different methods, and compared to available GenBank accessions.
| Sequence, length, type, GenBank Acc. no. | ButMV-J, 8,662 nt, RefSeq, NC_013527 | ButMV-A, Veronica, NGS, 8,596 nt, MW207173 | ButMV-B, Veronica, NGS, 8,033 nt, MW207174 |
|---|---|---|---|
| ButMV-J, RefSeq genome, 8,662 nt, NC_013527 | 77.71% | 68.17%a | |
| ButMV-A, Veronica, NGS genome, 8,596 nt, MW207173 | 77.71% | 67.55%a | |
| ButMV-B, Veronica, NGS genome, 8,033 nt, MW207174 | 68.17%a | 67.55%a | |
| ButMV-A, Veronica, 3′ PCR clones, 3,768 nt, MW246810 | 81.10% | 99.44% | 65.97%a |
| ButMV-B, Veronica, 3′ PCR clones, 3,167 nt, MW246811 | 65.76%a | 65.87%a | 99.72% |
| ButMV-B, partial 5′+RdRp, 6,040 nt, (MW207174)b | 71.75% | 70.77% | |
| ButMV-B, TGB2, TGB3, CP, NABP-3′, 1,993 nt, (MW207174)c | 77.12% | 77.76% | |
| ButMV-Kr, CP gene, 973 nt, MK689358d | 78.69% | 78.59% | 74.52% |
These figures are calculated based on alignment of the complete 8,033 nt ButMV-B sequence, which has a deletion of almost the full TGB1 ORF. Because the alignment algorithms attempt to identify matches which minimize the presence of gaps, the results underestimate the nucleotide identities between the undeleted portions. We therefore separately analyzed identities to (1) the 6,040 nt region of ButMV-B containing the partial 5′-UTR, the full RdRp reading frame, and a portion of the intergenic region corresponding to that of “complete” isolates between the RdRp and TGB1 ORFs; and (2) the 1,933 nt region corresponding to the remainder of the intergenic region of “complete” isolates, plus the complete TGB2, TGB3, CP, and NABP ORFs, and the 3′-UTR.
Derived from MW207174, as explained above; the 6,040 nt sequence consisting of the partial 5′-UTR, the full RdRp reading frame, and a portion of the intergenic region corresponding to that of “complete” isolates between the RdRp and TGB1 ORFs was compared against the sequences of “complete” isolates ButMV-J and ButMV-A.
Derived from MW207174, as explained above; the 1,933 nt region corresponding to the remainder of the intergenic region of “complete” isolates, plus the complete TGB2, TGB3, CP, and NABP ORFs, and the 3′-UTR was compared against the sequences of “complete” isolates ButMV-J and ButMV-A.
ButMV isolate Kr-NS5 from butterbur (Petasites sp.; probably P. japonicus) was detected in Korea. ButMV-J was isolated in Japan from P. japonicus, the only known natural host prior to discovery of ButMV in Veronica sp. in the USA.