Table 1.
Species identified using 16S sequencing, with smear status, HIV status, and CD4 counts (n = 232).
| Species | Number isolated (% of group) |
Number (%) smear positive |
Number with mixed species4 | HIV prevalence1 (%) | Median CD42 (cells/µL) (range (number included)) |
|---|---|---|---|---|---|
| Clinic patient group | |||||
| M. avium complex | 25 (26) | 2 (8) | 5 | 8/10 | 87 (14, 827 [5]) |
| M. kansasii | 21 (22) | 6 (29) | 3 | 5/8 | 85 (39, 763 [5]) |
| M. parascrofulaceum | 9 (9) | 1 (11) | 0 | 3/3 | 102 (66, 138 [2]) |
| M. fortuitum | 9 (9) | 2 (22) | 1 | 1/1 | [0] |
| M. gordonae | 7 (7) | 0 | 1 | 1/1 | 195 [1] |
| New species | 7 (7) | 1 (14) | 0 | 3/3 | 475 (236, 512 [3]) |
| Other species | 18 (19) | 0 | 2 | 4/5 | 291.5 (154, 492 [4]) |
|
| |||||
| Total | 96 | 12 (12.5) | 12 (12.5% of 96 isolates) | 25/31 (80.6) | 215.5 (14, 827 [20]) |
|
| |||||
| Pre-IPT3 screening group | |||||
| M. gordonae | 53 (39) | 8 (15) | 5 | 10/12 | 298 (66, 396 [8]) |
| M. kansasii | 29 (21) | 11 (38) | 1 | 9/14 | 183.5 (69, 544 [8]) |
| M. avium complex | 13 (10) | 0 | 3 | 4/5 | 211 (92, 534 [4]) |
| M. parascrofulaceum | 12 (9) | 2 (17) | 1 | 1/2 | 223 [1] |
| M. fortuitum | 11 (8) | 0 | 1 | 3/5 | 358 (245, 471 [2]) |
| M. szulgai | 5 (4) | 0 | 2 | 2/2 | 132.5 (123, 142 [2]) |
| New species | 3 (2) | 0 | 0 | 0/0 | [0] |
| Other species | 10 (7) | 0 | 2 | 3/3 | 311 (252, 370 [2]) |
|
| |||||
| Total | 136 | 21 (15.4) | 15 (11.0% of 136 isolates) | 32/43 (74.4) | 245 (66, 544 [27]) |
1Fisher's exact test for difference in HIV prevalence by species, both groups combined, P = 0.79.
2Median CD4 count by species for those known to be HIV-positive, combining both groups (clinic patients and IPT screening group) and including 8 species compared using Kruskal-Wallis test, which showed no evidence for difference by species, P = 0.42.
3IPT: isoniazid preventive therapy.
4For specimens containing mixed NTM species on PCR sequencing, the main species is reported; minority species were not identified, but the numbers with mixed species are given here. This does not apply to those with concurrent M. tuberculosis, who were excluded from this study.