Table 1. Description of the samples and molecular characteristics of the env clones.
| Year | VL (cp/mL) | CD4+ cells(cells/mm3) | EnvclonesNb | Pseudotyped viruses Nb | Length (Nb AA) | PNGS Nb | dN % | dS % | dN/dS ratio | Evolutionary divergence | Net charges | ||||
| Gp120 | Variable loops | Global | Constant regions | Variable regions | Gp120 | Variable loops | |||||||||
| 1996 (T0) | 56000 | 1040 | 13 | 0 | 405.2 (403.6–406.9 | 137.9 (136.4–139.5) | 25.2 (24.5–25.8) | 4.1 (3.8–4.4) | 5.4 (5.0–5.9) | 0.9 (0.8–1.1) | 0.8 (0.6–1.1) | 1.0 (0.8–1.2) | 0.05 (0.05–0.06) | 5.4 (4.2–6.7) | 2.1 (1.0–3.2) |
| 1997 (T1) | 48000 | 947 | 14 | 2 | 403.1 (401.6–404.6) | 135.6 (134.1–137.1) | 24.6 (24.1–25.1) | 4.3 (4.0–4.6) | 5.4(5.0–5.9) | 0.8 (0.7–0.9) | 1.0 (0.8–1.3) | 0.7 (0.6–0.8) | 0.08 (0.06–0.09) | 1.3 (−0.4–3.0) | −0.1 (−1.8–1.5) |
| 1998 (T2) | 76000 | 888 | 16 | 3 | 405.0 (403.6–405.4) | 137.7 (136.3–139.1) | 24.9 (24.4–25.1) | 4.5 (4.0–4.6) | 5.2 (4.8–5.6) | 0.9 (0.8–1.0) | 1.5 (1.2–1.9) | 0.8 (0.6–0.9) | 0.06 (0.06–0.07) | 4.5 (3.2–5.7) | 1.0 (0.2–1.7) |
| 1999 (T3) | 112767 | 870 | 8 | 1 | 403.9 (401.6–406.1) | 136.6 (134.3–139.0) | 25.0 (24.2–25.8) | 4.8 (4.4–5.2) | 6.1 (5.4–6.8) | 1.0 (0.9–1.2) | 1.7 (1.2–2.3) | 1.0 (0.8–1.2) | 0.07 (0.06–0.08) | 6.4 (5.0–7.8) | 2.8 (1.3–4.3) |
| 2000 (T4) | 102644 | 694 | 3 | 2 | 404.0 (396.5–411.5) | 136.7 (130.4–142.9) | 24.7 (21.8–27.5) | 3.7 (3.0–4.4) | 5.2 (4.0–6.4) | 0.8 (0.6–1.0) | 0.5 (0.3–0.9) | 0.8 (0.5–1.0) | 0.08 (0.07–0.09) | 2.3 (−5.3–9.9) | −0.1 (−6.7–6.5) |
| 2003 (T7) | 852 | 849 | 15 | 5 | 404.5 (403.3–405.8) | 136.9 (135.6–138.1) | 25.2 (24.7–25.7) | 6.2 (5.9–6.5) | 7.7 (7.2–8.2) | 0.8 (0.7–0.9) | 0.7 (0.5–0.9) | 0.7 (0.6–0.8) | 0.11 (0.10–0.12) | 5.0 (3.5–6.4) | 3.3 (2.1–4.6) |
dN and dS values result from comparisons between env sequences from a given time-point to sequences from previous one. Mean values and ninety-five percent confidence intervals (CI 95% in brackets) are shown. Estimates of evolutionary divergence over sequence pairs relative to the virus population at enrollment (T0). VL: viral load; cp/mL: copies/mL. Nb AA: number of amino-acids.