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Associations between Mycobacterium tuberculosis strains and phenotypes.

Brown T, Nikolayevskyy V, Velji P, Drobniewski F - Emerging Infect. Dis. (2010)

Bottom Line: The Beijing family was strongly associated with multidrug resistance (p = 0.0001), and VNTR allelic variants showed strong associations with spoligotyping families: >or=5 copies at exact tandem repeat (ETR) A, >or=2 at mycobacterial interspersed repetitive unit 24, and >or=3 at ETR-B associated with the East African-Indian and M. bovis strains.All M. tuberculosis isolates were differentiated into 4 major lineages, and a maximum parsimony tree was constructed suggesting a more complex phylogeny for M. africanum.These findings can be used as a model of pathogen global diversity.

View Article: PubMed Central - PubMed

Affiliation: United Kingdom Health Protection Agency, London UK.

ABSTRACT
To inform development of tuberculosis (TB) control strategies, we characterized a total of 2,261 Mycobacterium tuberculosis complex isolates by using multiple phenotypic and molecular markers, including polymorphisms in repetitive sequences (spoligotyping and variable-number tandem repeats [VNTRs]) and large sequence and single-nucleotide polymorphisms. The Beijing family was strongly associated with multidrug resistance (p = 0.0001), and VNTR allelic variants showed strong associations with spoligotyping families: >or=5 copies at exact tandem repeat (ETR) A, >or=2 at mycobacterial interspersed repetitive unit 24, and >or=3 at ETR-B associated with the East African-Indian and M. bovis strains. All M. tuberculosis isolates were differentiated into 4 major lineages, and a maximum parsimony tree was constructed suggesting a more complex phylogeny for M. africanum. These findings can be used as a model of pathogen global diversity.

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Related in: MedlinePlus

Mycobacterium tuberculosis complex lineages as determined by Gagneux et al. (6) and Baker et al. (7) defined by mycobacterial interspersed repetitive unit codes. MBOV, M. bovis; LAM, Latin American; CAS, Central Asian; EAI, East African–Indian; BCG, bacillus Calmette-Guérin; MAFR, M. africanum. The X, T, LAM, S, and Haarlem families are European American types.
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Figure 1: Mycobacterium tuberculosis complex lineages as determined by Gagneux et al. (6) and Baker et al. (7) defined by mycobacterial interspersed repetitive unit codes. MBOV, M. bovis; LAM, Latin American; CAS, Central Asian; EAI, East African–Indian; BCG, bacillus Calmette-Guérin; MAFR, M. africanum. The X, T, LAM, S, and Haarlem families are European American types.

Mentions: The 22 MIRU-VNTR genotypes, generated for 2,261 isolates, resulted in 1,434 VNTR types representing the minimum number of independent strains within this population. Each type was designated an MTBC lineage on the basis of the VNTR types (12) (Figure 1). Where these lineages were ambiguous (n = 49), discordant to those suggested by spoligotype (n = 58), or not defined (n = 210), SNP analysis was performed to resolve these differences (n = 317). In all cases, the SNP analysis resolved the ambiguous VNTR lineage calling as 1 of the alternatives producing the ambiguity. The SNP-defined lineage of strains discordant between the spoligotype and VNTR agreed with the VNTR call in 74.0% of cases. Finally, among the strains for which the VNTR was unable to define any lineage, there was 94.0% agreement between the SNP and spoligotype-defined lineage (Table 1). All strains identified as M. africanum were placed in the nondefined group and had the SNP-1 genotype.


Associations between Mycobacterium tuberculosis strains and phenotypes.

Brown T, Nikolayevskyy V, Velji P, Drobniewski F - Emerging Infect. Dis. (2010)

Mycobacterium tuberculosis complex lineages as determined by Gagneux et al. (6) and Baker et al. (7) defined by mycobacterial interspersed repetitive unit codes. MBOV, M. bovis; LAM, Latin American; CAS, Central Asian; EAI, East African–Indian; BCG, bacillus Calmette-Guérin; MAFR, M. africanum. The X, T, LAM, S, and Haarlem families are European American types.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC2958017&req=5

Figure 1: Mycobacterium tuberculosis complex lineages as determined by Gagneux et al. (6) and Baker et al. (7) defined by mycobacterial interspersed repetitive unit codes. MBOV, M. bovis; LAM, Latin American; CAS, Central Asian; EAI, East African–Indian; BCG, bacillus Calmette-Guérin; MAFR, M. africanum. The X, T, LAM, S, and Haarlem families are European American types.
Mentions: The 22 MIRU-VNTR genotypes, generated for 2,261 isolates, resulted in 1,434 VNTR types representing the minimum number of independent strains within this population. Each type was designated an MTBC lineage on the basis of the VNTR types (12) (Figure 1). Where these lineages were ambiguous (n = 49), discordant to those suggested by spoligotype (n = 58), or not defined (n = 210), SNP analysis was performed to resolve these differences (n = 317). In all cases, the SNP analysis resolved the ambiguous VNTR lineage calling as 1 of the alternatives producing the ambiguity. The SNP-defined lineage of strains discordant between the spoligotype and VNTR agreed with the VNTR call in 74.0% of cases. Finally, among the strains for which the VNTR was unable to define any lineage, there was 94.0% agreement between the SNP and spoligotype-defined lineage (Table 1). All strains identified as M. africanum were placed in the nondefined group and had the SNP-1 genotype.

Bottom Line: The Beijing family was strongly associated with multidrug resistance (p = 0.0001), and VNTR allelic variants showed strong associations with spoligotyping families: >or=5 copies at exact tandem repeat (ETR) A, >or=2 at mycobacterial interspersed repetitive unit 24, and >or=3 at ETR-B associated with the East African-Indian and M. bovis strains.All M. tuberculosis isolates were differentiated into 4 major lineages, and a maximum parsimony tree was constructed suggesting a more complex phylogeny for M. africanum.These findings can be used as a model of pathogen global diversity.

View Article: PubMed Central - PubMed

Affiliation: United Kingdom Health Protection Agency, London UK.

ABSTRACT
To inform development of tuberculosis (TB) control strategies, we characterized a total of 2,261 Mycobacterium tuberculosis complex isolates by using multiple phenotypic and molecular markers, including polymorphisms in repetitive sequences (spoligotyping and variable-number tandem repeats [VNTRs]) and large sequence and single-nucleotide polymorphisms. The Beijing family was strongly associated with multidrug resistance (p = 0.0001), and VNTR allelic variants showed strong associations with spoligotyping families: >or=5 copies at exact tandem repeat (ETR) A, >or=2 at mycobacterial interspersed repetitive unit 24, and >or=3 at ETR-B associated with the East African-Indian and M. bovis strains. All M. tuberculosis isolates were differentiated into 4 major lineages, and a maximum parsimony tree was constructed suggesting a more complex phylogeny for M. africanum. These findings can be used as a model of pathogen global diversity.

Show MeSH
Related in: MedlinePlus