TABLE 1.

Analysis of specimens positive by the Mycobacterium genus PCR, where sequence analysis of the PCR product resulted in the identification of NTM (n = 47)

Specimena	OD660 by:		Identification by 16S rRNA gene sequenceb	Result by:		Interpretation
	Genus assay	M. tuberculosis assay		Smear	Culturec
Respiratory	>4.00	<0.35	M. chelonae complex	Positive	M. abscessus	True positive
Respiratory	>4.00	<0.35	M. chelonae complex	Positive	M. chelonae complex	True positive
Respiratory	>4.00	<0.35	M. gordonae	Positive	M. gordonae	True positive
Respiratory	>4.00	<0.35	M. chelonae complex	Positive	M. abscessus	True positive
Respiratory	>4.00	<0.35	M. chelonae complex	Positive	M. abscessus	True positive
Respiratory	>4.00	<0.35	M. fortuitum	Positive	M. fortuitum	True positive
BAL	>4.00	<0.35	M. intracellulare	Positive	M. intracellulare	True positive
Respiratory	>4.00	<0.35	M. intracellulare	Positive	M. intracellulare	True positive
Respiratory	3.95	<0.35	M. chelonae complex	Positive	M. abscessus	True positive
Respiratory	3.78	<0.35	M. chelonae complex	Positive	M. abscessus	True positive
Wound	3.76	<0.35	M. intracellulare	Positive	M. intracellulare	True positive
Respiratory	3.64	<0.35	M. gordonae	Positive	M. gordonae	True positive
Wound	3.64	<0.35	M. intracellulare	Positive	M. intracellulare	True positive
Respiratory	3.47	<0.35	M. avium	Positive	M. avium	True positive
Respiratory	3.46	<0.35	M. kansasii/gastri	Positive	M. kansasii	True positive
Respiratory	3.25	<0.35	M. avium	Positive	M. avium	True positive
Respiratory	3.01	<0.35	M. avium	Positive	M. avium	True positive
Respiratory	2.95	<0.35	M. intracellulare	Positive	M. intracellulare	True positive
BAL	2.27	<0.35	M. kansasii/gastri	Positive	M. kansasii	True positive
Respiratory	>4.00	<0.35	M. intracellulare	Negative	M. intracellulare	True positive
Respiratory	>4.00	<0.35	M. kansasii/gastri	Negative	M. kansasii	True positive
Respiratory	3.95	<0.35	M. avium	Negative	M. avium	True positive
Respiratory	3.95	<0.35	M. avium	Negative	M. avium	True positive
Respiratory	3.78	<0.35	M. chelonae complex	Negative	M. abscessus	True positive
Respiratory	3.07	<0.35	M. gordonae	Negative	M. gordonae	True positive
Respiratory	0.53	<0.35	M. chelonae complex	Negative	M. bolletii	True positive
Respiratory	>4.00	<0.35	M. chelonae complex	Positive	Negative	True positive
Respiratory	>4.00	<0.35	M. chelonae complex	Positive	Negative	True positive
Respiratory	3.47	<0.35	M. chelonae complex	Negative	Negative	True positived
BAL	2.76	<0.35	M. celatum	Negative	Negative	True positived
Respiratory	2.62	<0.35	M. gordonae	Negative	Negative	True positived
Respiratory	2.35	<0.35	M. intracellulare	Not done	Negative	True positived
Respiratory	1.65	<0.35	M. avium	Not done	Negative	True positived
Respiratory	3.65	<0.35	M. aubagnense	Negative	Negative	Unknown significance
Respiratory	3.34	<0.35	M. avium	Negative	Negative	Unknown significance
Respiratory	3.21	<0.35	Mycobacterium sp.	Negative	Negative	Unknown significance
Respiratory	2.82	<0.35	M. frederiksbergense	Negative	Negative	Unknown significance
Respiratory	2.73	<0.35	Mycobacterium sp.	Negative	Negative	Unknown significance
Respiratory	2.17	<0.35	M. kansasii/gastri	Negative	Negative	Unknown significance
Respiratory	0.89	<0.35	M. mucogenicum	Negative	Negative	Unknown significance
Respiratory	0.77	<0.35	M. fortuitum	Negative	Negative	Unknown significance
Respiratory	0.68	<0.35	Mycobacterium sp.	Negative	Negative	Unknown significance
Respiratory	0.54	<0.35	Mycobacterium sp.	Negative	Negative	Unknown significance
Respiratory	0.52	<0.35	M. chelonae complex	Negative	Negative	Unknown significance
Respiratory	0.52	<0.35	M. frederiksbergense	Negative	Negative	Unknown significance
BAL	0.51	<0.35	M. terrae	Negative	Negative	Unknown significance
CSF	0.50	<0.35	Mycobacterium sp.	Not done	Not done	Unknown significance

^aBAL, bronchoalveolar lavage; CSF, cerebrospinal fluid.

^bSequencing was performed on PCR products obtained by amplification of nucleic acids extracted from the clinical sample.

^cIdentification by 16S rRNA sequence analysis, followed when necessary by sequencing and homology analysis of rpoB (in the case of M. chelonae complex) or hsp65 (in the case of M. kansasii/gastri).

^dA corresponding NTM species was recovered by culture in another patient sample or samples.