Allelic diversity of variable number of tandem repeats provides phylogenetic clues regarding the Mycobacterium tuberculosis Beijing family

Allelic diversity of variable number of tandem repeats provides phylogenetic clues regarding the... The Beijing family is the putative hypervirulent lineage of Mycobacterium tuberculosis that has been endemic in East Asia and has disseminated worldwide. The genetic population structure of Beijing family strains with regard to Japan is notable in its high diversity and dominance of the ancestral sublineage, in contrast to the modern sublineage found worldwide. Therefore, it is expected to be a suitable population model for investigating the microevolutionary process of the lineage. Variable number of tandem repeats (VNTR) has become a reliable genotyping method for M. tuberculosis , but its dynamics in the phylogenetic process remains unclear. Using 355 clinical Beijing family isolates in Japan, genetic traits, including VNTR, were analyzed and subjected to minimum spanning tree (MST) reconstruction. In the results, the topology of the tree was tightly related to other genotypic characters. We also found that some VNTR alleles were specific to each sublineage and provided clues for reconstructing a valid MST topology for the population. It is suggested that VNTR typing can elucidate genetic markers representing the phylogenetic classification in the lineage. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Infection, Genetics and Evolution Elsevier

Allelic diversity of variable number of tandem repeats provides phylogenetic clues regarding the Mycobacterium tuberculosis Beijing family

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Publisher
Elsevier
Copyright
Copyright © 2009 Elsevier B.V.
ISSN
1567-1348
DOI
10.1016/j.meegid.2009.06.012
Publisher site
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Abstract

The Beijing family is the putative hypervirulent lineage of Mycobacterium tuberculosis that has been endemic in East Asia and has disseminated worldwide. The genetic population structure of Beijing family strains with regard to Japan is notable in its high diversity and dominance of the ancestral sublineage, in contrast to the modern sublineage found worldwide. Therefore, it is expected to be a suitable population model for investigating the microevolutionary process of the lineage. Variable number of tandem repeats (VNTR) has become a reliable genotyping method for M. tuberculosis , but its dynamics in the phylogenetic process remains unclear. Using 355 clinical Beijing family isolates in Japan, genetic traits, including VNTR, were analyzed and subjected to minimum spanning tree (MST) reconstruction. In the results, the topology of the tree was tightly related to other genotypic characters. We also found that some VNTR alleles were specific to each sublineage and provided clues for reconstructing a valid MST topology for the population. It is suggested that VNTR typing can elucidate genetic markers representing the phylogenetic classification in the lineage.

Journal

Infection, Genetics and EvolutionElsevier

Published: Sep 1, 2009

References

  • Multiple-locus variable number tandem repeats analysis for genetic fingerprinting of pathogenic bacteria
    Lindstedt, B.A.
  • Variable human minisatellite-like regions in the Mycobacterium tuberculosis genome
    Supply, P.; Mazars, E.; Lesjean, S.; Vincent, V.; Gicquel, B.; Locht, C.
  • Linkage disequilibrium between minisatellite loci supports clonal evolution of Mycobacterium tuberculosis in a high tuberculosis incidence area
    Supply, P.; Warren, R.M.; Banuls, A.L.; Lesjean, S.; Van Der Spuy, G.D.; Lewis, L.A.; Tibayrenc, M.; Van Helden, P.D.; Locht, C.
  • The role of short sequence repeats in epidemiologic typing
    van Belkum, A.

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