Evaluation of the VITEK MS knowledge base version 3.0 for the identification of clinically relevant Mycobacterium species

Figures & data

Performance of the Vitek MS version 3.0 library used for the identification of Mycobacterium spp.

	NO. (%) of isolates identified
	Total	version 3.0	1^a	2^b	No ID^c	Mis ID^c
M. tuberculosis	46	45(97.8%)	40	5	1	0
M. avium	56	54(96.4%)	50	4	2	0
M. intracellulare	153	150(98.0%)	143	7	3	0
M. marseillense	6	0(0.0%)	0	0	6	0
M. timonense	1	0(0.0%)	0	0	0	1
M. chimaera	1	0(0.0%)	0	0	0	1
M. colombiense	2	0(0.0%)	0	0	2	0
M. kansasii	68	66(97.1%)	58	8	2	0
M. gastri	4	0(0.0%)	0	0	0	4
M. abscessus
M. abscessus sub abscessus	71	70(98.6%)	55^f	15	1	0
M. abscessus sub massiliense	19	18(94.7%)	11^f	7	1	0
M. fortuitum group
M. fortuitum	18	16(88.9%)	15^e	1	2	0
M. peregrinum	1	1(100.0%)	1^e	0	0	0
M. septicum	1	1(100.0%)	1^e	0	0	0
M. senegalense	1	1(100.0%)	1^e	0	0	0
M. celatum	1	1(100.0%)	1	0	0	0
M. arupense	1	1(100.0%)	1	0	0	0
M. chelonae	8	8(100.0%)	7	1	0	0
M. florentinum	1	0(0.0%)	0	0	1	0
M. gordonae	18	18(100.0%)	16	2	0	0
M. lentiflavium	8	8(100.0%)	8	0	0	0
M. mageritense	1	1(100.0%)	1	0	0	0
M. mucogenicum	5	5(100.0%)	4	1	0	0
M. scrofulaceum	5	5 (100.0%)	5^d	0	0	0
M. szulgai	4	4(100.0%)	4	0	0	0
M. vaccae	1	1(100.0%)	1	0	0	0
M. xenopi	2	2(100.0%)	2	0	0	0
M. monacense	2	0(0.0%)	0	0	2	0
M. parascrofulaceum	2	0(0.0%)	0	0	0	2
Total	507	476	425	51	23	8
		93.9%	83.8%	10.1%	4.5%	1.6%

^aNumber of strains identified for the first time

^bNumber of strains identified for the second time

^cID, identification

^dOne of M. scrofulaceum was identified with a 50% confidence value for both M. scrofulaceum and M. intracellulare

^eThese species were all identified as M. fortuitum group

^fThese subspecies were all identified as M. abscessus in VITEK MS V3.0 database

Analysis of the discrepancy strains

Sequencing result (N^a)	Ver 3.0 Identification^b	Ver 3.0 database^c	Target sequenced^d
M. tuberculosis (1)	No ID	YES	16 S rRNA
M. avium (2)	No ID	YES	16 S rRNA
M. intracellulare (3)	No ID	YES	16 S rRNA
M. colombiense (2)	No ID	NO	16 S rRNA
M. marseillense (6)	No ID	NO	16 S rRNA
M. chimaera (1)	M. intracellulare	NO	16 S rRNA
M. timonense (1)	M. intracellulare	NO	16 S rRNA
M. kansasii (2)	No ID	YES	16 S rRNA and hsp65
M. gastri (4)	M. kansasii	YES	16 S rRNA and hsp65
M. abscessus subsp abscessus (1)	No ID	YES	16 S rRNA and erm
M. abscessus subsp massiliense (1)	No ID	YES	16 S rRNA and erm
M. fortuitum (2)	No ID	YES	16 S rRNA and hsp65
M. peregrinum (1)	M. fortuitum group	YES	16 S rRNA and hsp65
M. septicum (1)	M. fortuitum group	NO	16 S rRNA and hsp65
M. senegalense (1)	M. fortuitum group	YES	16 S rRNA and hsp65
M. florentinum (1)	No ID	NO	16 S rRNA
M. monacense (2)	No ID	NO	16 S rRNA
M. scrofulaceum (1)	M. scrofulaceum/M. intracellulare	YES	16 S rRNA
M. parascrofulaceum (2)	M. scrofulaceum	NO	16 S rRNA

^aN: the number of Mycobacterium strains obtained by the VITEK MS V3.0 database different from sequence results

^bNo ID: No identification

^cspecies included in VITEK MS Ver 3.0 knowledge database or not

^dhsp65: Sequence of the 441-bp Telenti fragment