Table 1.
Analysis of 117 pseudoviruses containing patient-derived HIV-1 integrase sequences harboring Y143X substitutions
| Sample group and no. of samplesa | Substitution(s) at primary positions as determined by: |
|
|---|---|---|
| Population sequenceb | Clonal analysisc | |
| Y143 (n = 77) | ||
| 44 | Y143R | NP |
| 23 | Y143C | NP |
| 4 | Y143S | NP |
| 3 | Y143G | NP |
| 2 | Y143H | NP |
| 1 | Y143A | NP |
| Y143 mixtures (n = 17) | ||
| 6 | Y143Y/C/H/R | Y143Y,R |
| 1 | Y143Y/C/H/R | Y143Y,C,R |
| 1 | Y143Y/C/H/R | Y143Y,C,G,R |
| 3 | Y143C/R | NP |
| 3 | Y143Y/C | NP |
| 2 | Y143C/G | Y143C,G |
| 1 | Y143H/R | Y143H,R |
| Y143 and N155 (n = 18) | ||
| 4 | Y143Y/C/H/R, N155N/H | Y143R, N155H |
| 4 | Y143Y/C, N155N/H | NP |
| 2 | Y143Y/C, N155H | NP |
| 2 | Y143R, N155H | NP |
| 1 | Y143H/R, N155H | Y143H,R+N155H |
| 1 | Y143Y/C/S, N155N/H | Y143C,S, N155H |
| 1 | Y143Y/C/D/G, N155N/H | Y143C,G, N155H |
| 1 | Y143C, N155H | NP |
| 1 | Y143H, N155H | NP |
| 1 | Y143R/C/G, N155G | Y143C,G,R+N155G |
| Y143 and Q148 (n = 5) | ||
| 2 | Y143Y/C/H/R, Q148Q/H | Y143R, Q148H |
| 1 | Y143Y/H, Q148H | Y143H+Q148H, Q148H |
| 1 | Y143Y/C, Q148H | NP |
| 1 | Y143Y/C/D/G, Q148Q/R | Y143C,G, Q148R |
One hundred seventeen patient-derived HIV-1 integrase sequences with Y143X substitutions were grouped based upon the absence or presence of mixed substitutions at position 143 or the presence of other RAL primary substitutions (Y143 and N155; or Y143 and Q148). Numbers in boldface in this column indicate that Y143H and Y143D substitutions predicted based on population sequences were not identified in clonal analyses.
IN population sequences containing predicted substitutions at positions 143, 148, and 155 are indicated. Substitutions in boldface in this column are present at positions 143 and 155 or 148 without mixtures at one or both positions, which suggests that these viruses contain two linked primary substitutions.
IN clonal sequences isolated from 23 samples (20 to 48 clones/each sample) predicted to contain alternative substitution Y143D, H, G, or S were analyzed. NP, not performed.