TABLE 2.
Validation of the ITS PCR assay using clinical isolates: comparison with partial (5′) 16S rRNA gene sequencing
| Partial 16S rRNA identification | No. of isolates tested | ITS PCR result |
|---|---|---|
| M. chelonae-M. abscessus | 22 | Positive, M. abscessus |
| M. chelonae-M. abscessus | 4 | Positive, M. chelonae |
| Mycobacterium branderi | 1 | Negative |
| Mycobacterium fortuitum complex sqva | ||
| sqv I | 1 | Negative |
| sqv II | 1 | Negative |
| sqv III | 4 | Negative |
| sqv IV | 1 | Negative |
| Mycobacterium goodii | 1 | Negative |
| Mycobacterium gordonae sqva | ||
| I | 9 | Negative |
| II | 1 | Negative |
| III | 1 | Negative |
| V | 2 | Negative |
| Mycobacterium immunogenum | 1 | Negative |
| Mycobacterium intracellulare | 3 | Negative |
| Mycobacterium kansasiib | 1 | Negative |
| M. kansasii (sqv III or VI-2)a | 1 | Negative |
| Mycobacterium kubicae | 2 | Negative |
| Mycobacterium lentiflavum | 2 | Negative |
| Mycobacterium marinumb | 3 | Negative |
| Mycobacterium mucogenicum | 3 | Negative |
| Mycobacterium neoaurum | 1 | Negative |
| “Mycobacterium paraffinicum” | 1 | Negative |
| Mycobacterium parascrofulaceum | 1 | Negative |
| Mycobacterium shimoidei | 1 | Negative |
| Mycobacterium simiae | 3 | Negative |
| Mycobacterium szulgai | 1 | Negative |
| Mycobacterium terrae | 1 | Negative |
| Mycobacterium terrae complex (MCRO6c) | 1 | Negative |
| Mycobacterium triplex | 1 | Negative |
| Mycobacterium xenopi | 2 | Negative |
| “Mycobacterium lacticola” | 2 | Negative |
| Microbacterium species | 1 | Negative |
| Nocardia asteroides (drug group IV) | 1 | Negative |
| Nocardia transvalensis | 1 | Negative |
| Nocardia cyriacigeorgica | 2 | Negative |
| Nocardia farcinica | 1 | Negative |
| Nocardia veterana | 1 | Negative |
| Arcobacter butzleri | 1 | Negative |
| Gordonia bronchialis | 1 | Negative |
| Rhodococcus sp. | 1 | Negative |
| Staphylococcus epidermidis | 1 | Negative |
a
Sequevars (sqv) numbered according to RIDOM (http://www.ridom-rdna.de) (9).
b
Sequence identification confirmed by colony morphology and pigmentation studies.
c
Matching sequence retrieved from GenBank (http://www.ncbi.nlm.nih.gov).