Table 3 Identification of clinical isolates by the multiplex polymerase chain reaction (PCR) assay and genotyping in both liquid and culture samples of each subject.
No | NTM pathogens | AFB | PCR | Resuspended samples | Culture samples | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
16s rRNA | IS1311 | DT1 | 16s rRNA | Identities | rpoB | Identities | 16s rRNA | Identities | rpoB | Identities | |||
1 | M. intracellulare | ND | − | − | − | ND | ND | ND | ND | ND | ND | ND | ND |
2 | M. intracellulare | ND | − | − | − | ND | ND | ND | ND | ND | ND | ND | ND |
3 | M. avium | ND | − | − | − | ND | ND | ND | ND | ND | ND | ND | ND |
4 | M. avium, M. fortuitum complex | ND |  +  | − | − | M. triplex | 98% | Mix | Mix | ND | ND | ND | ND |
5 | M. avium | ND |  +  | − | − | Non-Mycobacteria | Corynebacterium sp. 99% | Mix | Mix | ND | ND | ND | ND |
6 | M. avium, M. massiliense | ND |  +  | − | − | M. florentinum | 99% | M. sherrisii | 97% | ND | ND | ND | ND |
7 | M. avium, M. abscessus | ND |  +  | − | − | M. phocaicum | 100% | M. gilvum | 97% | ND | ND | ND | ND |
8 | M. avium | ND |  +  | − | − | ND | ND | ND | ND | ND | ND | ND | ND |
9 | M. avium | 1+  |  +  | − | − | Low signal | Low signal | M. gilvum | 97% | MIX | MIX | M. gilvum | 88% |
10 | M. intracellulare | − | − | − | − | ND | ND | ND | ND | M. gordonae | 92% | Non-Mycobacteria | Sphingobium sp. 93% |
11 | M. avium | − |  +  | − | − | M. phocaicum | 100% | Low signal | Low signal | M. lentiflavum | 97% | Mycobacterium sp. | 91% |
12 | M. avium | 1+  |  +  | − | − | Low signal | Low signal | Low signal | Low signal | MIX | MIX | Non-Mycobacteria | Rathayibacter festucae |
13 | M. avium | 4+  |  +  | − | − | Low signal | Low signal | Low signal | Low signal | M. gordonae | 89% | Low signal | Low signal |
14 | M. avium | − | − | − | − | M. mucogenicum | 98% | No signal | No signal | M. simiae complex | 92% | Non-Mycobacteria | Gordonia terrae |
15 | M. avium | − |  +  | − | − | Non-Mycobacteria | Corynebacterium sp. | M. aurum | 98% | M. lentiflavum | 91% | M. simiae complex | 94% |
16 | M. intracellulare | − |  +  | − | − | MIX | MIX | M. sherrisii | 97% | M. lentiflavum | 97% | M. goodi | 93% |
17 | M. avium, M. massiliense | − | − | − | − | M. peregrinum | 98% | Low signal | Low signal | Non-Mycobacteria | Gordonia sp. | Non-Mycobacteria | Microbacterium aurum |
18 | M. intracellulare | − |  +  | − | − | M. gilvum | 98% | M. mucogenicum | 97% | Non-Mycobacteria | Haematomicrobium sanguinis strain | Non-Mycobacteria | Sphingomonas paucimobilis |
19 | M. intracellulare | 1+  |  +  | − | − | Non-Mycobacteria | Corynebacterium sp. | Mix | Mix | M. gordonae | 94% | Low signal | Low signal |
20 | M. massiliense | 1+  | − | − | − | M. phocaicum | 98% | Mix | Mix | M. shigaense | 96% | Non-Mycobacteria | Microbacterium foliorum |
21 | M. avium | − | − | − | − | M. gordonae | 98% | Low signal | Low signal | MIX | MIX | Mycobacterium sp. | 91% |
22 | M. intracellulare | − | − | − | − | M. triplex | 99% | M. gilvum | 98% | M. simiae complex | 91% | Non-Mycobacteria | Micrococcus luteus |
23 | M. avium | 1+  | − | − | − | M. triplex | 97% | M. sherrisii | 97% | M. lentiflavum | 92% | Mycobacterium sp. | 92% |
24 | M. avium | − |  +  | − | − | M. triplex | 97% | M. arupense | 98% | M. lentiflavum | 99% | M. colombiense | 94% |
25 | M. avium | − |  +  | − | − | M. llatzerense | 99% | M. phocaicum | 99% | M. fortuitum | 97% | Mycobacterium sp. | 96% |
26 | M. avium | − | − | − | − | M. florentinum | 97% | M. mucogenicum | 97% | Non-Mycobacteria | Corynebacterium sp. | Low signal | Low signal |
27 | M. abscessus, M. fortuitum complex, M. avium, M. massiliense, M. intracellulare | 1+  | − | − | − | Low signal | Low signal | M. aurum | 97% | MIX | MIX | Low signal | Low signal |
28 | M. avium | − |  +  | − | − | M. florentinum | 99% | M. porcinum | 98% | MIX | MIX | Low signal | Low signal |
29 | M. intracellulare, M. kansasii | 1+  | − | − | − | M. gordonae | 97% | Not alignment | Not alignment | ND | ND | ND | ND |
30 | M. avium | − |  +  | − | − | M. mucogenicum | 98% | M. porcinum | 97% | M. lentiflavum | 98% | M. godonae | 95% |
31 | M. avium | − |  +  | − | − | M. mucogenicum | 98% | M. porcinum | 97% | M. lentiflavum | 99% | Non-Mycobacteria | Sphingobium sp. |
32 | M. abscessus | − | − | − | − | Mix | Mix | M. phocaicum | 97% | M. gordonae | 94% | Mycobacterium sp. | 97% |
