TABLE 1.
Virus strains and GenBank accession numbers, tree notations, and ORF-1 NS protein and capsid sequences used for phylogenetic comparison
| Calicivirus genus | Virus strain | Genbank accession no. | Tree notationa | CGb (bp) | Length (location in ORF-1) of aligned amino acid sequencesc
|
|||
|---|---|---|---|---|---|---|---|---|
| 2C helicase | 3C protease | 3D RdRp | Capsid | |||||
| SLV | HuCV/Manchester/93/UK | X86560 | Manchester | 7,431 | 153 (470-622) | 127 (1069-1195) | 208 (1452-1659) | 561 |
| HuCV/Stockholm/317/97/SE | AF194182 | Stockholm | 565 | |||||
| HuCV/Parkville/94 | U73124 | Parkville | 571 | |||||
| HuCV/Sapporo/82/JP | U65427 | Sapporo82 | 561 | |||||
| HuCV/Houston/7-1181/US | AF435814 | Hou7-1811 | 553 | |||||
| HuCV/Mexico/340/90/MX | AF435812 | Mex340 | 558 | |||||
| HuCV/Lond/29845/92/UK | U95645 | London292 | 557 | |||||
| PEC/Cowden/80/US | AF182760 | PEC Cowden | 7,320 | 153 (454-606) | 127 (1063-1189) | 208 (1444-1651) | 544 | |
| NLV | HuCV/Norwalk/8FIIa/76/US | M87661 | Norwalk | 7,654 | 163 (472-712) | 153 (1115-1267) | 205 (1526-1730) | 530 |
| HuCV/Southampton/91/UK | L07418 | SOV | 7,708 | 163 (551-713) | 153 (1114-1266) | 205 (1525-1729) | 546 | |
| HuCV/DSV/90/SA | U04469 | DSV | 544 | |||||
| BEC/CALFNL/98/NLd | Unpublished | CALFNL98 | 522 | |||||
| BEC/Jena/80/DE | AJ011099 | Jena | 7,338 | 163 (472-634) | 153 (1008-1160) | 205 (1418-1622) | 519 | |
| HuCV/Toronto/91/CA | U02030 | Toronto | 550 | |||||
| HuCV/Hawaii/71/US | U07611 | Hawaii | 7,513 | 163 (485-647) | 153 (1023-1175) | 205 (1435-1639) | 535 | |
| HuCV/Lordsdale/93/UK | X86557 | Lordsdale | 7,555 | 163 (485-647) | 153 (1023-1175) | 205 (1435-1639) | 539 | |
| Hu/NLV/Alphatron/98-2/98/NL | AF195847 | Alphatron | 556 | |||||
| Vesivirus | FCV-F4 | D31836 | FCV-4 | 7,681 | 155 (474-628) | 127 (1095-1221) | 212 (1488-1699) | 668 |
| FCV-F9 | M86739 | FCV-9 | 7,690 | 155 (474-628) | 127 (1095-1221) | 212 (1488-1699) | 671 | |
| Walrus calicivirus | AF321298 | WCV | 8,289 | 155 (580-734) | 127 (1207-1333) | 213 (1602-1814) | 708 | |
| San Miguel sea lion virus-1 | AF181081 | SMSV-1 | 8,284 | 155 (580-734) | 127 (1207-1333) | 213 (1601-1813) | 702 | |
| San Miguel sea lion virus-4 | M87842 | SMSV-4 | 703 | |||||
| Vesicular exanthema of swine A48 | AF181082 | VESV-A48 | 8,284 | 155 (580-734) | 127 (1207-1333) | 213 (1603-1815) | ||
| Primate calicivirus-1 | AF019736 | PAN-1 | 8,304 | 155 (580-734) | 127 (1208-1334) | 213 (1603-1815) | 709 | |
| Lagovirus | European brown hare syndrome virus | Z69620 | EBHSV-GD | 7,442 | 155 (507-661) | 112 (1113-1224) | 210 (1498-1707) | 576 |
| RHDV-Iowa | AF258618 | RHDV-Iowa | 7,467 | 156 (512-667) | 112 (1120-1231) | 210 (1505-1714) | 579 | |
| RHDV-FRG | M67473 | RHDV-GH | 7,437 | 579 | ||||
| Unknowne | BEC/NB/80/US | AY082891 | NB | 7,453 | 154 (446-599) | 120 (1010-1128) | 215 (1389-1603) | 549 |
| BEC/CV23-OH/00/US | AY082890 | CV23-OH | 549 | |||||
a
Virus notation used in phylogenetic trees (Fig. 3).
b
CG, complete genome length of reference calicivirus strains.
c
Lengths and locations of amino acid residues in their respective predicted ORF-1 polypeptide sequences.
d
NLV BEC isolate from The Netherlands (van der Poel et al. [78]).
e
Genus designation for NB and CV23-OH is unclear.