Table 2.
Characteristics of gross deletions in the 5’LTR/gag gene
| Patient code | Day of sampling | No. of bands by PCR1) | No. of PCR reaction with gΔ2) | Beginning nt. relative to HIV-1 NL4-3 | Size of deletion in 5’ LTR (bp)3) | Size of deletion in gΔ (bp) | A representative GenBank accession no. |
|---|---|---|---|---|---|---|---|
|
| |||||||
| HP-2 | 21-10-01 | 1 | 1 | 330 | 459 | 463 | JN613586 |
| 13-09-07 | 1 | 1 | 701 | 84 | 0 | ||
| 12-06-08 | 1 | 1 | 607 | 262 | 144 | JN613587 | |
| HP-3 | 29-08-02 | 2 | 1 | 440 | 349 | 407 | JN613584 |
| HP-4 | 11-10-02 | 1 | 4 | 484 | 306 | 383 | JN613588 |
| 27-02-03 | 1 | 3 | 484 | 306 | 383 | JN613589 | |
| 04-01-08 | 1 | 2 | 484 | 306 | 383 | JN613591 | |
| 30-06-08 | 1 | 2 | 484 | 306 | 383 | JN613593 | |
| 22-12-08 | 1 | 1 | 657 | 132 | 261 | JN613595 | |
| HP-5 | 28-12-94 | 2 | 3 | 579 | 212 | 437 | 6082s |
| 27-02-95 | 1 | 1 | 627 | 162 | 373 | 6083s | |
| HP-6 | 17-11-02 | 1 | 1 | 443 | Inversion | JN613661 | |
| HP-7 | 20-10-96 | 1 | 1 | 432 | 358 | 531 | JN613596 |
| 2 | 1 | 483 | 288 | 0 | JN613597 | ||
| 27-02-97 | 2 | 1 | 350 | 435 | 0 | JN613598 | |
| 07-01-03 | 2 | 1 | 603 | 186 | 126 | 3568s1 | |
| HP-8 | 19-04-95 | 1 | 1 | 657 | 133 | 322 | EF370245 |
| 15-02-01 | 1 | 1 | 632 | 158 | 228 | EF370250 | |
| 12-12-02 | 1 | 3 | 632 | 158 | 478 | EF370252 | |
| 03-05-04 | 1 | 1 | 110 | 159 | 0 | EF370256 | |
| 06-02-06 | 1 | 1 | 163 | 8 Plus 17 | 0 | EF370259 | |
| 27-09-07 | 1 | 3 | 623 | JN613599 | |||
| 26-04-10 | 1 | 1 | 727 | 62 | 457 | 9198s | |
| HP-9 | 13-12-02 | 2 | 1 | Different | ND | ||
| 2 | 1 | 625 | 164 | 587 | JN613600 | ||
| 2 | 1 | 385 | 406 | 245 | JN613601 | ||
| 2 | 1 | 328 | 462 | 110 | |||
| 20-11-03 | 1 | 1 | 412 | 375 | 36 | 1651s | |
| 07-09-06 | 2 | 1 | 713 | 77 | 480 | JN613602 | |
| 3 | 1 | 722 | 68 | 590 | JN613603 | ||
| 342 | 447 | 334 | JN613604 | ||||
| 19-12-07 | 2 | 1 | ND | JN613605 | |||
| 2 | 2 | 484 | 306 | 5 | JN613606 | ||
| HP-10 | 30-08-02 | 1 | 1 | 637 | 153 | 467 | JN613608 |
| 2 | 1 | ND | ND | ||||
| 2 | 1 | 453 | 337 | 271 | JN613607 | ||
| 13-09-07 | 1 | 1 | 639 | 151 | 19 | JN613609 | |
| HP-11 | 30-10-02 | 2 | 1 | 320 | 470 | 153 | EF370364 |
| 1 | 1 | 304 | 197 | 0 | EF370366 | ||
| 09-11-03 | 1 | 1 | 420 | 370 | 177 | 6021 | |
| 2 | 2 | 613 | 178 | 555 | JN613610 | ||
| HP-12 | 25-10-02 | 1 | 1 | 390 | 343 | 0 | JN613612 |
| 1 | 1 | 602 | 21 | 0 | JN613711 | ||
| 09-04-07 | 1 | 1 | 677 | 113 | 321 | JN613613 | |
| 1 | 1 | ND | JN613614 | ||||
| 01-04-09 | 1 | 1 | 635 | 118 | 0 | 6339 | |
| 24-08-09 | 1 | 1 | 736 | 43 | 0 | ||
| 14-05-10 | 1 | 1 | 667 | 123 | 310 | 9197s | |
| HP-14 | 11-12-96 | 2 | 3 | ND | |||
| 08-01-03 | 2 | 2 | 635 | Rec | 3564s | ||
| 23-05-07 | 1 | 1 | ND | ||||
| 15-10-09 | 1 | 1 | 371 | 420 | 347 | ||
| 27-05-10 | 1 | 1 | 667 | 123 | 552 | JN613621 | |
| HP-13 | 10-03-99 | 1 | 1 | 591 | 199 | 605 | JN613615 |
| 11-28-02 | 2 | 1 | 424 | 366 | 108 | JN613616 | |
| 03-04-03 | 2 | 1 | 627 | 163 | 372 | JN613617 | |
| 2 | 1 | 644 | 146 | 533 | JN613618 | ||
| 19-04-07 | 1 | 3 | 354 | 436 | 119 | JN613619 | |
| 89+ | |||||||
| HP-15 | 08-03-03 | 2 | 1 | ND | |||
| HP-16 | 12-09-02 | 1 | 1 | 579 | 211 | 362 | EU047689 |
| HP-17 | 03-11-02 | 2 | 1 | JN613624 | |||
| 20-02-03 | 2 | 2 | 426 | 364 | 21 | JN613622 | |
| 10-08-04 | 1 | 1 | 671 | 119 | 65 | JN613759 | |
| 16-01-07 | 1 | 1 | About 200 | ND | ND | ||
| HP-18 | 12-04-95 | 2 | 2 | ND | |||
| 27-04-06 | 1 | 1 | 659 | 131 | 505 | JN613625 | |
| HP-19 | 07-11-07 | 1 | 1 | 655 | 135 | 593 | JN613627 |
| HP-20 | 27-02-03 | 2 | 1 | 567 | 223 | 493 | JN613628 |
| 08-07-03 | 1 | 2 | 535 | 255 | 587 | JN613629 | |
| 05-06-08 | 1 | 1 | 727 e | 63 | 210 | JN613630 | |
| 16-03-10 | 1 | 1 | 669 | 121 | 334 | JN613631 | |
PCR, polymerase chain reaction; gΔ, gag gene; HP, hemophiliac patient; ND, not determined; Rec, recombination.
1)1 and 2 denote single short band only and wild type together with short band, respectively.
2)No. of PCR product with gΔ out of 4 PCR reactions.
3)Base pair.