TABLE 2.
gag and env nucleotide genetic distances of SIVsm lineages from SMs in four primate centers in the United States and from wild SMs
| Gene or SIV type | Genetic distance (mean ± SD)
|
|||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Lineage 1 | Lineage 2 | Lineage 3 | Lineage 4 | Lineage 5 | Lineage 6 | Lineage 7 | SIVmac-like | SIVstm | Wild strains | |
| gag | ||||||||||
| Lineage 1 | 4.98 ± 2.01 | |||||||||
| Lineage 2 | 11.44 ± 1.42 | 4.43 ± 1.81 | ||||||||
| Lineage 3 | 14.05 ± 0.83 | 13.89 ± 0.97 | 3.29 ± 1 | |||||||
| Lineage 4 | 11.71 ± 1.04 | 12 ± 0.66 | 14.55 ± 0.64 | 2.08 ± 1 | ||||||
| Lineage 5 | 12.71 ± 0.97 | 13.97 ± 0.98 | 15.75 ± 0.98 | 15.04 ± 0.5 | 2.88 ± 0.29 | |||||
| Lineage 6 | 13.75 ± 0.55 | 14.18 ± 0.89 | 14.33 ± 0.51 | 16.46 ± 0.26 | 16.25 ± 0.66 | NAa | ||||
| Lineage 7 | 14.67 ± 0.73 | 14.22 ± 0.76 | 16.43 ± 0.81 | 14.59 ± 0.39 | 14.81 ± 0.77 | 12.31 ± 0.46 | 2.15 ± 0.49 | |||
| SIVmac-like | 13.97 ± 0.93 | 13.23 ± 0.79 | 16.79 ± 0.96 | 9.03 ± 0.79b | 16.21 ± 0.58 | 16.04 ± 0.59 | 15.51 ± 0.6 | 1.71 ± 0.86 | ||
| SIVstm-like | 15.4 ± 0.48 | 14.31 ± 0.39 | 17.94 ± 0.6 | 17.55 ± 0.43 | 13.67 ± 0.89 | 17.63 | 16.94 ± 0.16 | 18.63 ± 0.41 | NAa | |
| Wild SMs | 19.88 ± 5.09 | 19.41 ± 4.7 | 20.3 ± 5 | 21.11 ± 4.58 | 21.11 ± 4.58 | 19.9 ± 4.92 | 20.75 ± 5.28 | 21.36 ± 4.56 | 20.65 ± 5.05 | 21.15 ± 5.83 |
| env | ||||||||||
| Lineage 1 | 5.5 ± 3.59 | |||||||||
| Lineage 2 | 13.73 ± 1.31 | 3.23 ± 1.4 | ||||||||
| Lineage 3 | 15.11 ± 1.41 | 13.49 ± 1 | 5.21 ± 1.23 | |||||||
| Lineage 4 | 15.2 ± 1.26 | 13.33 ± 1.16 | 13.96 ± 1.27 | 3.82 ± 1.51 | ||||||
| Lineage 5 | 23.22 ± 1.17 | 22.94 ± 0.73 | 23.96 ± 0.96 | 22.54 ± 1.19 | 2.82 ± 0.15 | |||||
| Lineage 6 | 12.58 ± 2.14 | 14.63 ± 0.63 | 15.35 ± 1.23 | 16.71 ± 1.22 | 24.16 ± 0.81 | NAa | ||||
| Lineage 7 | 17.7 ± 1.1 | 13.91 ± 1.01 | 16.09 ± 0.99 | 14.94 ± 1.02 | 23.85 ± 1.33 | 16.77 ± 0.31 | 2.46 ± 1.11 | |||
| SIVmac-like | 17.41 ± 3.01 | 11.94 ± 0.78 | 17.31 ± 1.1 | 16.05 ± 1.46 | 26.44 ± 1.3 | 21.14 ± 0.41 | 17.81 ± 1.33 | 2.84 ± 1.21 | ||
| SIVstm-like | 15.37 ± 1.41 | 13.38 ± 0.8 | 14.74 ± 1.11 | 15.01 ± 1.13 | 24.33 ± 1.47 | 16.78 ± 2.02 | 17.31 ± 1.01 | 18.65 ± 0.75 | 8.28 | |
| Wild SMs | 14.95 ± 3.83 | 14.36 ± 1.61 | 15.64 ± 1.18 | 14 ± 2.38 | 22.41 ± 1.81 | 15.7 ± 2.19 | 16.33 ± 1.84 | 18.12 ± 1.7 | 16.6 ± 1.69 | 14.71 ± 3.34 |
a
NA, not available (a single strain was available for each lineage).
b
Genetic distances in gag between lineage 4 and SIVmac lineage were significantly lower than all the remaining interlineage genetic distances and the distances between lineage 4 and SIVmac in the env gene, suggesting a common phylogenetic history for the two lineages and the recombinant nature of one of them.