Comparative functional pan-genome analyses to build connections between genomic dynamics and phenotypic evolution in polycyclic aromatic hydrocarbon metabolism in the genus Mycobacterium

Kweon, Ohgew; Kim, Seong-Jae; Blom, Jochen; Kim, Sung-Kwan; Kim, Bong-Soo; Baek, Dong-Heon; Park, Su Inn; Sutherland, John B; Cerniglia, Carl E

doi:10.1186/s12862-015-0302-8

Table 1 Phenotypic and genomic properties of the 27 completely genome-sequenced strains of mycobacteria

From: Comparative functional pan-genome analyses to build connections between genomic dynamics and phenotypic evolution in polycyclic aromatic hydrocarbon metabolism in the genus Mycobacterium

Mycobacterial strain	Phenotypic properties				Genomic properties				Reference
Mycobacterial strain	Life-style ^a	Growth rate	Pathogenicity	PAH-metabolism	Genome size	GC %	Gene count	COG count	Reference
Mycobacterium smegmatis MC² 155	FL	Fast	Non-pathogenic	PAH-non-degrading	6988209	0.67	6941	4796	[25]
Mycobacterium vanbaalenii PYR-1	FL	Fast	Non-pathogenic	PAH-degrading	6491865	0.68	6047	4186	[26,27]
Mycobacterium sp. KMS	FL	Fast	Non-pathogenic	PAH-degrading	6256079	0.68	6089	4135	[12]
Mycobacterium sp. JLS	FL	Fast	Non-pathogenic	PAH-degrading	6048425	0.68	5855	4148	[12]
Mycobacterium gilvum PYR-GCK	FL	Fast	Non-pathogenic	PAH-degrading	5982829	0.68	5683	3901	[28]
Mycobacterium sp. MCS	FL	Fast	Non-pathogenic	PAH-degrading	5920523	0.68	5704	3955	[12,29]
Mycobacterium gilvum Spyr1	FL	Fast	Non-pathogenic	PAH-degrading	5783292	0.68	5434	4038	[13]
Mycobacterium sp. JDM601	FHA	Slow	Pathogenic	PAH-non-degrading	4643668	0.68	4398	3162	[30]
Mycobacterium marinum M, ATCC BAA-535	FHA	Slow	Pathogenic	PAH-non-degrading	6660144	0.66	5501	3717	[31]
Mycobacterium ulcerans Agy99	FHA	Slow	Pathogenic	PAH-non-degrading	5805761	0.65	4306	2853	[32,33]
Mycobacterium avium 104	FHA	Slow	Pathogenic	PAH-non-degrading	5475491	0.69	5305	3504	[34,35]
Mycobacterium abscessus CIP 104536	FHA	Fast	Pathogenic	PAH-non-degrading	5090491	0.64	4991	3301	[36]
Mycobacterium avium subsp. paratuberculosis K-10	FHA	Slow	Pathogenic	PAH-non-degrading	4829781	0.69	4415	3188	[37-39]
Mycobacterium canettii CIPT 140010059	FHA	Slow	Pathogenic	PAH-non-degrading	4482059	0.66	3909	2949	[40]
Mycobacterium tuberculosis F11 (ExPEC)	FHA	Slow	Pathogenic	PAH-non-degrading	4424435	0.66	4019	2791	[41]
Mycobacterium tuberculosis H37Ra	FHA	Slow	Pathogenic	PAH-non-degrading	4419977	0.66	4099	2811	[42-44]
Mycobacterium tuberculosis H37Rv (lab strain)	FHA	Slow	Pathogenic	PAH-non-degrading	4411532	0.66	4062	2807	[44]
Mycobacterium tuberculosis CCDC5180	FHA	Slow	Pathogenic	PAH-non-degrading	4405981	0.66	3639	2836	[40,45,46]
Mycobacterium tuberculosis CDC1551	FHA	Slow	Pathogenic	PAH-non-degrading	4403706	0.66	4300	2716	[47,48]
Mycobacterium tuberculosis CCDC5079	FHA	Slow	Pathogenic	PAH-non-degrading	4398812	0.66	3695	2875	[49]
Mycobacterium tuberculosis KZN 1435 (MDR)	FHA	Slow	Pathogenic	PAH-non-degrading	4398250	0.66	4107	2799	[25,29]
Mycobacterium africanum GM041182	FHA	Slow	Pathogenic	PAH-non-degrading	4389314	0.66	3880	2896	[50,51]
Mycobacterium bovis BCG Pasteur 1173P2	FHA	Slow	Pathogenic	PAH-non-degrading	4374522	0.66	4048	2783	[42,43]
Mycobacterium bovis BCG Tokyo 172	FHA	Slow	Pathogenic	PAH-non-degrading	4371711	0.66	3996	2776	[52]
Mycobacterium bovis AF2122/97	FHA	Slow	Pathogenic	PAH-non-degrading	4345492	0.66	4014	2760	[53]
Mycobacterium leprae TN	OI	Slow	Pathogenic	PAH-non-degrading	3268203	0.58	2750	1175	[53-55]
Mycobacterium leprae Br4923	OI	Slow	Pathogenic	PAH-non-degrading	3268071	0.58	1654	1173	[56]

^aFL, free-living; FHA, facultatively-host-associated; OI, obligately intracellular.

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