Table 1.
HIV-1 and HIV-2 vectors for comparative parallel analyses of viral mutagenesis by single-strand consensus sequencing.a
| Virus | Reference | HIV Type | RT Subtype or Groupb | Identity to NL4-3 RTc | Identity to ROD14 RTc |
|---|---|---|---|---|---|
| 94CY017.41 | [79] | HIV-1 | A | 90% | 62% |
| NL4-3 | [77] | HIV-1 | B | — | 62% |
| YU2 | [80, 81] | HIV-1 | B | 97% | 61% |
| BH10 | [82] | HIV-1 | B | 97% | 61% |
| 93BR029.4 | [83] | HIV-1 | B | 97% | 62% |
| MJ4 | [84] | HIV-1 | C | 93% | 61% |
| 96ZM651.8 | [85] | HIV-1 | C | 93% | 61% |
| 98IS002.5 | [85] | HIV-1 | C | 93% | 61% |
| 94UG114.1.6 | [83] | HIV-1 | D | 92% | 61% |
| 92NG003.1 | [83] | HIV-1 | G | 90% | 62% |
| ROD14 | [78] | HIV-2 | A | 62% | — |
| ST | [86, 87] | HIV-2 | A | 61% | 93% |
| ISY | [92] | HIV-2 | A | 62% | 93% |
| D194 | [88, 89] | HIV-2 | A | 61% | 90% |
| CBL-20 | [90] | HIV-2 | A | 62% | 93% |
| GH123 | [93] | HIV-2 | A | 63% | 93% |
a
A panel of 10 HIV-1 and 6 HIV-2 vectors was created by sub-cloning reverse transcriptase (RT) genes from other HIV-1 vectors into pNL4-3 MIG or from other HIV-2 vectors (or from genomic DNA purified from cells infected with HIV-2) into pROD14 MIG in a near-isogenic fashion (see Methods).
b
HIV-1 vectors were engineered with RTs from multiple subtypes of Group M, especially subtypes B (the predominant subtype in the U.S.) and C (the predominant subtype globally). All HIV-2 vectors were engineered with RTs from Group A.
c
The columns indicate the extent of identity between RT sequences at the amino acid level.