TABLE 2.
gag and pol nucleotide distances between SIVrcm and primate lentivires
| Virus |
gag (top) and pol (bottom) nucleotide distances (%) froma:
|
||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| SIVrcm95Gab1 | HIV1U455 | HIV1ANT70 | HIV1MVP5180 | HIV1HXB2 | HIV1JRCSF | HIV1RF | HIV1NDK | SIVcpzANT | SIVcpzGAB | HIV2ROD | HIV2D205 | SIVagm677 | SIVagmTYO-1 | SIVmac251 | SIVsmH4 | SIVstm | SIVmndGB-1 | SIVsyk173 | |
| SIVrcm95Gab1 | 36.5 | 35.2 | 37.6 | 38.7 | 39.6 | 38.8 | 38.8 | 39.0 | 38.1 | 31.7 | 29.1 | 29.0 | 29.8 | 31.8 | 30.0 | 29.0 | 45.3 | 38.1 | |
| HIV-1U455 | 18.2 | 14.6 | 13.3 | 8.0 | 6.0 | 7.3 | 13.4 | 34.8 | 24.8 | 37.1 | 36.8 | 40.4 | 39.5 | 37.8 | 36.9 | 38.4 | 39.0 | 48.3 | |
| HIV-1ANT70 | 24.3 | 27.9 | 10.1 | 27.4 | 27.0 | 27.7 | 30.5 | 34.5 | 26.9 | 40.8 | 41.7 | 38.3 | 40.8 | 42.8 | 40.9 | 40.6 | 40.4 | 45.9 | |
| HIV-1MVP5180 | 24.3 | 25.8 | 3.3 | 26.0 | 25.6 | 25.6 | 29.1 | 37.0 | 26.3 | 42.9 | 43.2 | 39.3 | 41.2 | 45.3 | 43.4 | 43.1 | 39.7 | 46.7 | |
| HIV-1HXB2 | 21.6 | 12.2 | 16.7 | 16.7 | 3.7 | 4.7 | 8.1 | 34.5 | 24.0 | 39.0 | 38.4 | 42.2 | 40.5 | 39.6 | 38.7 | 40.6 | 39.0 | 49.5 | |
| HIV-1JRCSF | 21.0 | 12.3 | 13.3 | 14.7 | 4.7 | 6.4 | 8.1 | 35.1 | 23.6 | 39.2 | 38.7 | 43.1 | 41.4 | 40.1 | 39.7 | 40.4 | 39.0 | 49.3 | |
| HIV-1RF | 22.2 | 12.3 | 15.2 | 16.6 | 6.0 | 5.3 | 9.8 | 36.1 | 24.4 | 39.4 | 38.0 | 42.0 | 41.0 | 40.4 | 39.2 | 40.7 | 39.5 | 48.3 | |
| HIV-1NDK | 20.8 | 5.3 | 13.3 | 13.3 | 6.0 | 4.0 | 6.6 | 33.3 | 26.1 | 40.1 | 38.9 | 40.6 | 39.3 | 40.1 | 39.6 | 40.0 | 39.5 | 50.0 | |
| SIVcpzANT | 26.4 | 18.7 | 21.2 | 19.5 | 19.5 | 18.7 | 18.8 | 18.7 | 35.3 | 43.5 | 42.2 | 34.0 | 38.3 | 41.5 | 41.0 | 40.2 | 42.5 | 49.7 | |
| SIVcpzGAB | 22.8 | 8.0 | 13.2 | 12.6 | 9.3 | 7.3 | 11.2 | 7.2 | 17.2 | 44.3 | 43.0 | 34.7 | 39.1 | 41.5 | 41.0 | 40.2 | 38.8 | 46.5 | |
| HIV-2ROD | 37.2 | 42.2 | 45.3 | 43.5 | 45.0 | 42.2 | 44.6 | 43.2 | 39.8 | 40.2 | 11.9 | 31.8 | 33.2 | 12.8 | 10.7 | 12.7 | 35.4 | 41.4 | |
| HIV-2D205 | 38.4 | 43.9 | 44.6 | 43.2 | 43.2 | 41.9 | 43.0 | 43.0 | 40.0 | 39.7 | 12.8 | 30.3 | 29.8 | 12.0 | 8.9 | 11.9 | 37.2 | 39.9 | |
| SIVagm677 | 28.1 | 34.0 | 33.3 | 32.2 | 34.3 | 33.6 | 33.3 | 33.3 | 39.3 | 38.4 | 39.6 | 37.9 | 21.1 | 32.1 | 30.6 | 29.4 | 32.6 | 44.2 | |
| SIVagmTYO-1 | 33.8 | 40.0 | 38.7 | 38.0 | 41.3 | 38.0 | 40.4 | 39.1 | 41.3 | 42.4 | 38.5 | 39.6 | 19.7 | 33.8 | 32.0 | 31.4 | 36.7 | 41.6 | |
| SIVmac251 | 34.5 | 40.8 | 42.9 | 42.2 | 43.5 | 40.8 | 43.2 | 41.9 | 43.2 | 42.6 | 10.1 | 11.5 | 38.2 | 37.2 | 5.4 | 9.4 | 34.0 | 39.9 | |
| SIVsmH4 | 35.6 | 40.5 | 43.9 | 43.2 | 41.9 | 40.5 | 41.6 | 41.6 | 42.2 | 42.2 | 8.8 | 8.8 | 37.9 | 38.3 | 2.7 | 6.7 | 33.8 | 41.2 | |
| SIVstm | 37.0 | 42.6 | 43.9 | 43.21 | 42.6 | 41.2 | 42.3 | 42.3 | 41.5 | 43.0 | 11.5 | 10.1 | 37.9 | 38.9 | 6.8 | 5.4 | 34.5 | 39.0 | |
| SIVmndGB-1 | 33.1 | 44.6 | 43.6 | 45.1 | 44.8 | 45.3 | 45.9 | 45.9 | 45.0 | 45.2 | 46.7 | 45.4 | 45.7 | 46.6 | 44.2 | 44.7 | 45.9 | 45.3 | |
| SIVsyk173 | 43.8 | 41.8 | 40.4 | 39.7 | 41.5 | 39.7 | 41.5 | 40.1 | 41.4 | 40.1 | 46.5 | 45.5 | 32.9 | 39.5 | 43.8 | 45.5 | 46.2 | 39.2 | |
a
Genetic distances for gag and pol were calculated for the PCR-derived SIVrcm gag and pol sequences and compared with the values from the corresponding sequences from the database (36). Sequences were aligned by using Clustal W and adjusted with the multiple-aligned-sequence editor (10), and distances were calculated by using DOTS (26).