TABLE 2.
Virus populations corresponding to unique V4-plus-V5 sequences in the HIV-1/JC499 inoculum
| V4-plus-V5 population | V3 populationa | Sourceb | % of HDA clonesc | % Genetic distance (no.)d |
|---|---|---|---|---|
| 1 + c | B | P1 | 0.92 | 1.35 (2) |
| 1 + d | B > A | C-PBMC + P1 | 6.41 | 0.50–5.05 (13) |
| 1 + l | B | C-PBMC + P1 | 0.62 | 1.68 (2) |
| 1 + n | B | P1 | 0.31 | |
| 2 + a | A | C-PBMC | 0.62 | |
| 2 + c | A > B | C-PBMC + P1 | 3.69 | 0.67–3.09 (6) |
| 2 + d | B | P1 | 0.31 | |
| 2 + f | A | C-PBMC | 0.31 | |
| 2 + i | A | C-PBMC | 0.31 | |
| 2 + k | B | C-PBMC | 0.31 | |
| 2 + l | A > B | C-PBMC + P1 | 3.69 | 1.33–4.30 (5) |
| 2 + n | A | C-PBMC + P1 | 0.62 | 4.96 (2) |
| 2 + p | A | C-PBMC | 0.31 | |
| 3 + a | B > A | P1 | 1.54 | 1.88–3.46 (3) |
| 3 + c | A = B | P1 | 1.54 | 3.26–4.69 (4) |
| 3 + d | A > B | C-PBMC + P1 | 8.00 | 0.67–4.67 (10) |
| 3 + j | B | P1 | 0.31 | |
| 3 + l | A = B | C-PBMC | 1.54 | 1.84 (2) |
| 3 + n | A | P1 | 0.62 | |
| 3 + p | A | P1 | 0.31 | |
| 5 + a | B > A | P1 | 4.92 | 0.68–5.64 (12) |
| 5 + c | B | P1 | 0.62 | 2.89 (2) |
| 7 + c | A > B | C-PBMC + P1 | 59.1 | 0.49–4.95 (25) |
| 7 + d | A | C-PBMC | 0.31 | |
| 7 + l | A = B | P1 | 1.23 | 2.98 (2) |
| 7 + p | A | C-PBMC | 0.31 | |
| 8 + a | B | C-PBMC | 0.31 | |
| 8 + b | A | P1 | 0.31 | |
| 8 + c | B | P1 | 0.62 | 3.34 (2) |
B > A, A > B, and A = B indicate that more B, more A, or equal numbers of the A and B V3 genotypes, respectively, were observed among sequenced clones in a particular V4-plus-V5 population.
Abbreviations: C-PBMC, C-499’s cultured PBMC only; P1, HIV-1/JC499-P1 stock only; C-PBMC + P1, both cultured PBMC and HIV-1/JC499-P1.
Percentage of HDA clones for each population among 325 clones generated from P0 and P1 stocks.
Genetic distances for populations containing at least two sequenced clones. Distances reflect diversity among all the ∼660-bp C2-V5 fragments of all clones with the same V4-plus-V5 combination. Numbers in parentheses are the numbers of clones sequenced.