TABLE 2.
Recombinant clones
| Patient | Clone name of recombinanta | 5′ Parental sequence nameb | 3′ Parental sequence namec | Breakpointd |
|---|---|---|---|---|
| 2239 | 68 I (R5) | 68 VII (X4) | NI (R5) | NI |
| 68 III (X4) | NI (R5) | 68 IV (X4) | NI | |
| 2242 | 85:2 I (X4) | 85 VIII (R5) | 84 VII (X4) | 6594 (C2) |
| 85:2 II (X4) | 85 VIII (R5) | 85 V (X4) | 6683 (V3) | |
| 85:2 IX (R5) | 85:2 IV (R5) | 85 VIII (R5) | 6418 (C2) | |
| 2282 | 47 III (X4) | NI (R5) | 47 V (X4) | NI |
| 47 IV (X4) | NI (R5) | 47 V (X4) | NI | |
| 47 IX (X4) | NI (R5) | 47 V (X4) | NI | |
| 62 II (X4) | 62 X (R5) | 63 III (X4) | 6473 (C2) | |
| 63 VI (X4) | 63 I (R5) | 63 V (X4) | 6499 (C2) | |
| 70 VII (R5) | 70 I (X4) | 70 X (R5) | 6531 (C2) |
Phenotypically characterized coreceptor usage is indicated in parentheses.
Phenotypically characterized coreceptor usage is indicated in parentheses. Coreceptor usage of parental sequences that were not identified (NI) was based on significant separation from X4 clones in V1/V2 phylogenetic trees.
Coreceptor usage is indicated in parentheses. The coreceptor usage of the parental sequence that was not identified (NI) was based on the coreceptor usage of the recombinant clone.
Recombination breakpoint identified using BootScan and manual inspection. The numbers are the nucleotide positions corresponding to the location in HXB2 (GenBank accession number AF033819). Envelope regions where the breakpoints were identified are indicated in parentheses. NI, not identified.