TABLE 1.
Serotyping and partial VP1 sequencing of isolates
| Isolatea | Serotype by neutralization testb | Highest identity score (%)c
|
Second-highest identity score (%)c
|
Delta score (%)d | Accession no. (reference) | |||||
|---|---|---|---|---|---|---|---|---|---|---|
| Type | nt | aa | Type | nt | Type | aa | ||||
| TN-374/94 | CBV6 | CBV6 | 74.8 | 89.8 | EV30 | 69.3 | EV11 | 69.2 | 5.5 | AJ567515 |
| IH-001/97 | CBV6 | CBV6 | 74.5 | 89.8 | ENV69 | 69.3 | EV11 | 72.9 | 5.2 | AJ567516 |
| IH-003/97 | CBV6 | CBV6 | 74.8 | 89.8 | EV30 | 69.1 | EV11 | 72.9 | 5.7 | AJ567517 |
| IH-004/97 | CBV6 | CBV6 | 73.6 | 87.1 | EV11 | 68.9 | EV13 | 69.8 | 4.7 | AJ567518 |
| MG-451/94 | UT | CBV6 | 77.9 | 92.6 | ENV69 | 70.6 | EV11 | 72.9 | 7.3 | AJ279183 (3) |
| MG-44381/98 | EV7 | EV7 | 77.5 | 95.0 | EV2 | 72.4 | EV11 | 76.2 | 5.1 | AJ279195 (3) |
| MG-41094/97 | EV11 | EV11 | 79.1 | 91.8 | EV33 | 72.8 | EV19 | 83.7 | 6.3 | AJ279193 (3) |
| MI-006/97 | EV13 | EV13 | 79.1 | 96.3 | ENV69 | 72.4 | ENV69 | 87.1 | 6.7 | AJ567520 |
| MI-007/97 | EV20 | EV20 | 81.9 | 96.3 | EV33 | 69.0 | EV33 | 75.0 | 12.9 | AJ567521 |
| IH-008/97 | UT | EV20 | 81.9 | 96.3 | EV33 | 69.1 | EV33 | 75.0 | 12.8 | AJ567522 |
| MI-009/97 | UT | EV20 | 81.6 | 95.4 | EV33 | 69.0 | EV33 | 74.0 | 12.6 | AJ567523 |
| MI-010/97 | UT | EV20 | 80.7 | 92.6 | EV33 | 67.8 | EV33 | 72.2 | 12.9 | AJ567524 |
| MI-011/97 | UT | EV20 | 81.3 | 96.3 | EV33 | 68.7 | EV33 | 75.0 | 12.6 | AJ567525 |
| MI-012/97 | UT | EV20 | 82.2 | 96.3 | EV33 | 68.4 | EV33 | 75.0 | 13.8 | AJ567526 |
| MI-013/97 | UT | EV20 | 82.5 | 97.2 | EV33 | 68.7 | EV33 | 75.9 | 13.8 | AJ567527 |
| MI-020/97 | UT | EV20 | 81.0 | 94.5 | EV33 | 69.0 | EV33 | 74.1 | 13.0 | AJ567528 |
| MI-021/97 | UT | EV20 | 82.5 | 97.2 | EV33 | 68.7 | EV33 | 75.9 | 13.8 | AJ567529 |
| MI-014/97 | EV33 | EV33 | 77.0 | 95.4 | EV19 | 69.0 | EV19 | 77.4 | 8.0 | AJ567530 |
| MI-015/97 | EV33 | EV33 | 77.0 | 95.4 | EV19 | 69.0 | EV19 | 77.4 | 8.0 | AJ567531 |
| MI-017/97 | UT | EV33 | 76.1 | 93.5 | EV19 | 68.4 | EV19 | 76.4 | 7.7 | AJ567532 |
| MI-019/97 | UT | EV33 | 76.0 | 93.5 | EV19 | 68.3 | EV19 | 76.4 | 7.7 | AJ567533 |
| TL-66984/02 | UT | EV19 | 81.0 | 96.3 | EV11 | 78.5 | EV11 | 86.1 | 2.5 | AJ584658 |
| TL-66995/02 | UT | EV19 | 80.4 | 95.4 | EV11 | 77.8 | EV11 | 85.2 | 2.6 | AJ584661 |
| TL-68143/02 | UT | EV25 | 81.3 | 96.3 | EV21 | 71.5 | EV21 | 83.3 | 9.8 | AJ584659 |
| TN-RD-1/00 | UT | EV27 | 75.1 | 79.4 | EV6 | 72.9 | EV17 | 69.8 | 2.2 | AJ567519 |
| IH-024/97 | UT | CAV13 | 75.2 | 90.7 | CAV18 | 72.8 | CAV18 | 87.9 | 2.4 | AJ567499 |
| TN-444/94 | UT | CAV13 | 76.9 | 89.7 | CAV18 | 76.0 | CAV18 | 87.9 | 0.9 | AJ567500 |
| TN-445/94 | UT | CAV13 | 76.9 | 89.7 | CAV18 | 76.0 | CAV18 | 87.9 | 0.9 | AJ567501 |
| TN-446/94 | UT | CAV13 | 76.9 | 89.7 | CAV18 | 76.0 | CAV18 | 87.9 | 0.9 | AJ567502 |
| TN-456/94 | UT | CAV13 | 77.6 | 89.7 | CAV18 | 75.9 | CAV18 | 88.8 | 1.7 | AJ567503 |
| MG-354/94 | UT | CAV13 | 77.9 | 90.6 | CAV18 | 76.3 | CAV18 | 88.8 | 1.6 | AJ279179 (3) |
| MG-356/94 | UT | CAV13 | 77.4 | 90.6 | CAV18 | 75.4 | CAV18 | 88.8 | 2.0 | AJ279180 (3) |
| MG-404/94 | UT | CAV13 | 80.2 | 92.5 | CAV18 | 78.0 | CAV18 | 90.6 | 2.2 | AJ279181 (3) |
| MG-498/94 | UT | CAV13 | 78.7 | 93.5 | CAV18 | 77.3 | CAV18 | 91.6 | 1.4 | AJ279185 (3) |
| TL-67001/02 | UT | CAV13 | 77.2 | 86.9 | CAV18 | 75.9 | CAV13 | 86.0 | 1.3 | AJ584655 |
| TL-66025/02 | UT | CAV18 | 76.9 | 87.9 | CAV13 | 76.3 | CAV13 | 88.8 | 0.6 | AJ584654 |
| MI-025/97 | UT | CAV18 | 77.9 | 89.7 | CAV13 | 73.5 | CAV13 | 90.7 | 4.4 | AJ567504 |
| MI-026/97 | UT | CAV18 | 76.6 | 88.8 | CAV13 | 72.9 | CAV13 | 89.7 | 3.7 | AJ567505 |
| MI-027/97 | UT | CAV18 | 77.0 | 88.8 | CAV13 | 72.9 | CAV13 | 89.7 | 4.1 | AJ567506 |
| MI-029/97 | UT | CAV18 | 76.3 | 86.0 | CAV17 | 72.6 | CAV13 | 86.9 | 3.7 | AJ567507 |
| IH-034/97 | UT | CAV18 | 76.1 | 88.8 | CAV13 | 74.1 | CAV13 | 89.7 | 2.0 | AJ567508 |
| IH-035/97 | UT | CAV18 | 76.0 | 88.8 | CAV13 | 74.8 | CAV13 | 89.7 | 1.2 | AJ567509 |
| TN-439/94 | UT | CAV18 | 77.9 | 90.7 | CAV13 | 76.1 | CAV13 | 91.6 | 1.8 | AJ567510 |
| MI-018/97 | UT | CAV15 | 83.5 | 98.1 | CAV11 | 78.5 | CAV11 | 97.2 | 5.0 | AJ567511 |
| MI-031/97 | UT | CAV15 | 83.2 | 97.2 | CAV11 | 78.2 | CAV11 | 96.3 | 5.0 | AJ567512 |
| TL-66990/02 | UT | CAV15 | 83.2 | 96.3 | CAV11 | 79.7 | CAV11 | 95.3 | 3.5 | AJ584657 |
| TL-67004/02 | UT | CAV15 | 82.5 | 94.4 | CAV11 | 78.4 | CAV11 | 93.4 | 4.1 | AJ584660 |
| MI-032/97 | UT | CAV17 | 77.0 | 92.5 | CAV13 | 72.3 | CAV13 | 81.3 | 4.7 | AJ567513 |
| MI-033/97 | UT | CAV17 | 76.6 | 91.5 | CAV13 | 71.9 | CAV13 | 80.4 | 4.7 | AJ567514 |
| TN-D05/01 | UT | CAV21 | 90.7 | 99.1 | CAV24 | 67.5 | CAV24 | 73.8 | 23.2 | AJ567496 |
| IH-022/97 | UT | CAV24 | 80.1 | 92.5 | CAV17 | 71.3 | CAV15 | 78.0 | 8.8 | AJ567497 |
| IH-023/97 | UT | CAV24 | 80.1 | 92.5 | CAV17 | 71.3 | CAV15 | 78.0 | 8.8 | AJ567498 |
| TL-68269/02 | UT | CAV24 | 75.0 | 86.0 | CAV21 | 70.6 | CAV21 | 77.6 | 4.4 | AJ584656 |
| TN-448/94 | UT | CAV20 | 74.8 | 92.5 | CAV17 | 71.9 | CAV13 | 82.3 | 2.9 | AJ279182 (3) |
| TN-423/94 | UT | CAV20 | 75.0 | 91.6 | CAV13 | 72.3 | CAV13 | 81.3 | 2.7 | AJ279184 (3) |
a
Isolates are identified by geographical location (two-letter code: TN, Antananarivo; IH, Ihosy; MI, Miantsoarivo; TL, Tolagnaro; MG; Madagascar), internal laboratory code, and year of isolation (e.g., 94, 1994).
b
Results obtained with the standard neutralization test; UT, untypeable.
c
nt, nucleotide; aa, amino acid.
d
Difference between highest and second-highest nucleotide scores.