Table 3. Quasispecies diversity in the V1–V2 region in env gene of the recovered viruses.
| Passages | ||||
| 1 | 11 | 21 | 31 | |
| Virus | Meana | Meana | Meana | Meana |
| D1 | 0,36±0.23a | 0,30±0.17 | 0,22±0.20 | 0,34±0.34 |
| D1.5 | 0,36±0.23 | 0,38±0.13 | 0,15±0.11 | 0,20±0.16 |
| D2 | 0,17±0.16 | 0,31±0.25 | 0,44±023 | 0,34±0.11 |
| E1.5 | 0,38±0.24 | 0,44±0.22 | 0,32±0.13 | 0,38±0.16 |
| G1 | 0,25±0.17 | 0,36±0.18 | 0,84±0.40 | 0,63±0.23 |
| G1.5 | 0,25±0.17 | 0,50±0.02 | 0,26±0.18 | 0,28±0.16 |
| G2 | 0,28±0.20 | 0,47±0.27 | 0,69±0.50 | 0,11±0.10 |
| H1.5 | 0,30±0.21 | 0,46±0.20 | 0,77±0.27 | 0,58±0.19 |
| I1 | 0,22±0.02 | 0,31±0.16 | 0,55±0.21 | 0,67±0.47 |
| I5 | 0,16±0.16 | 0,24±0.15 | 0,36±0.17 | 0,49±0.32 |
| K1 | 0,26±0.22 | 0,40±0.15 | 0,39±0.14 | 0,49±0.24 |
| K2 | 0,33±0.03 | 0,34±0.18 | 0,48±0.30 | 0,50±0.21 |
a
Mean genetic distance measured as substitutions per site in all pairwise comparison. As heterogeneity differences between the four regions studied were minor, we used the mean genetic distance of all viruses. The quasispecies heterogeneity was estimated using the mean genetic distance of the nucleotide sequences by Maximum Likelihood after the use of the jModeltest to establish the parameters which selected the GTR+G model. The estimation was carried with the PAUP program [40].