Table 1 Summary of patient data and latency results based on 3 rd codon positions
From: Reduced evolutionary rates in HIV-1 reveal extensive latency periods among replicating lineages
Patient ID | Patient type | Gene | L | Time points | No. taxa | H | R | No. (%) latent taxa detected | |||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Â | Â | Â | Â | Â | Â | Â | Â | Total | Plasma | Reservoir | FP |
K-B | U | env | 714 | 3 | 49 | 1 | 0 | 43 (87.8) | 24 (85.7) | 19 (90.5) | 0.7 |
K-G | U | env | 729 | 3 | 49 | 0 | 0 | 38 (77.6) | 18 (62.1) | 20 (100) | 1.0 |
O-1 | E | gag | 1386 | 3 | 20 | 0 | 0 | 16 (80.0) | 2 (40.0) | 14 (93.3) | 0.8 |
O-7 | E | gag | 1271 | 9 | 53 | 1 | 3 | 27 (50.9) | 26 (55.3) | 1 (16.7) | 0.8 |
O-8 | E | gag | 1298 | 7 | 101 | 0 | 0 | 60 (59.4) | 15 (27.8) | 45 (95.7) | 4.7 |
O-9 | E | gag | 1271 | 5 | 50 | 2 | 0 | 32 (64.0) | 3 (15.0) | 29 (97.0) | 0.6 |
M-1 | F | pol | 985 | 1 | 22 | 0 | 0 | 12 (54.5) | 6 (60.0) | 6 (50.0) | 0.1 |
M-96 | F | pol | 637 | 2 | 19 | 0 | 0 | 0 (0.0) | 0 (0.0) | 0 (0.0) | 0 |
M-100 | F | pol | 637 | 1 | 16 | 0 | 0 | 4 (25.0) | 2 (40.0) | 2 (18.2) | 0.3 |
M-102 | F | pol | 637 | 3 | 108 | 0 | 1 | 59 (54.6) | 12 (42.8) | 47 (58.8) | 0.9 |
M-105 | F | pol | 637 | 3 | 54 | 0 | 0 | 48 (87.3) | 24 (82.8) | 24 (92.3) | 0.1 |
M-110 | F | pol | 637 | 1 | 12 | 0 | 0 | 11 (91.7) | 5 (83.3) | 6 (100) | 0.1 |
M-112 | F | pol | 637 | 1 | 25 | 0 | 0 | 18 (72.0) | 5 (55.6) | 13 (81.3) | 0.1 |
M-122 | F | pol | 637 | 1 | 14 | 0 | 0 | 7 (50.0) | 0 (0.0) | 7 (87.5) | 0.7 |
M-126 | F | pol | 637 | 1 | 18 | 0 | 0 | 5 (27.8) | 4 (66.7) | 1 (0.08) | 0.5 |
M-127 | F | pol | 985 | 1 | 14 | 0 | 0 | 8 (57.1) | 4 (100) | 4 (40.0) | 0.1 |
M-137 | F | pol | 637 | 2 | 33 | 0 | 0 | 17 (51.5) | 1 (0.06) | 16 (94.1) | 0.1 |
M-138 | F | pol | 985 | 1 | 11 | 0 | 0 | 0 (0.0) | 0 (0.0) | 0 (0.0) | 0 |
B-113 | T | pol | 546 | 10 | 47 | 0 | 0 | 33 (70.2) | 11 (47.8) | 22 (91.7) | 0.1 |
B-134 | T | pol | 546 | 5 | 76 | 0 | 0 | 54 (71.1) | 1 (14.3) | 53 (76.8) | 1.6 |
B-136 | T | pol | 546 | 10 | 110 | 0 | 0 | 50 (45.5) | 5 (11.4) | 45 (68.2) | 20 |
B-139 | T | pol | 546 | 10 | 126 | 0 | 0 | 88 (69.8) | 18 (41.9) | 70 (84.3) | 4.9 |
B-147 | T | pol | 546 | 10 | 132 | 0 | 0 | 112 (84.8) | 28 (65.1) | 84 (94.4) | 2.5 |
B-148 | T | pol | 546 | 4 | 152 | 0 | 0 | 129 (84.9) | 7 (50.0) | 122 (88.4) | 4.5 |
B-154 | T | pol | 546 | 18 | 337 | 0 | 0 | 154 (45.7) | 77 (35.2) | 77 (65.3) | 5.9 |
B-154 | T | env | 306 | 3 | 64 | 3 | 0 | 50 (78.1) | 30 (71.4) | 20 (90.9) | 1.3 |