Significance of the identification in the horn of Africa of an exceptionally deep branching Mycobacterium tuberculosis clade

Show simple item record Blouin, Yann Hauck, Yolande Soler, Charles Fabre, Michel Vong, Rithy Dehan, Celine Cazajous, Geraldine Massoure, Pierre-Laurent Kraemer, Philippe Jenkins, Akinbowale Olajide Garnotel, Eric Pourcel, Christine Vergnaud, Gilles 2013-02-08T07:14:41Z 2013-02-08T07:14:41Z 2012-12-27
dc.description.abstract Molecular and phylogeographic studies have led to the definition within the Mycobacterium tuberculosis complex (MTBC) of a number of geotypes and ecotypes showing a preferential geographic location or host preference. The MTBC is thought to have emerged in Africa, most likely the Horn of Africa, and to have spread worldwide with human migrations. Under this assumption, there is a possibility that unknown deep branching lineages are present in this region. We genotyped by spoligotyping and multiple locus variable number of tandem repeats (VNTR) analysis (MLVA) 435 MTBC isolates recovered from patients. Four hundred and eleven isolates were collected in the Republic of Djibouti over a 12 year period, with the other 24 isolates originating from neighbouring countries. All major M. tuberculosis lineages were identified, with only two M. africanum and one M. bovis isolates. Upon comparison with typing data of worldwide origin we observed that several isolates showed clustering characteristics compatible with new deep branching. Whole genome sequencing (WGS) of seven isolates and comparison with available WGS data from 38 genomes distributed in the different lineages confirms the identification of ancestral nodes for several clades and most importantly of one new lineage, here referred to as lineage 7. Investigation of specific deletions confirms the novelty of this lineage, and analysis of its precise phylogenetic position indicates that the other three superlineages constituting the MTBC emerged independently but within a relatively short timeframe from the Horn of Africa. The availability of such strains compared to the predominant lineages and sharing very ancient ancestry will open new avenues for identifying some of the genetic factors responsible for the success of the modern lineages. Additional deep branching lineages may be readily and efficiently identified by large-scale MLVA screening of isolates from sub-Saharan African countries followed by WGS analysis of a few selected isolates. en
dc.description.librarian am2013 en
dc.description.librarian ab2013
dc.description.sponsorship CNRS, Paris-Sud University, the French military health services, and the French Direction Generale de l’Armement (DGA) en
dc.description.uri en
dc.identifier.citation Blouin Y, Hauck Y, Soler C, Fabre M, Vong R, et al. (2012) Significance of the Identification in the Horn of Africa of an Exceptionally Deep Branching Mycobacterium tuberculosis Clade. PLoS ONE 7(12): e52841. DOI: 10.1371/journal.pone.0052841 en
dc.identifier.issn 1932-6203
dc.identifier.other 10.1371/journal.pone.0052841
dc.language.iso en en
dc.publisher Public Library of Science en
dc.relation.requires Adobe Acrobat Reader en
dc.rights © 2012 Blouin et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License en
dc.subject Mycobacterium tuberculosis complex (MTBC) en
dc.subject Horn of Africa en
dc.subject MTBC en
dc.subject.lcsh Mycobacterium tuberculosis en
dc.title Significance of the identification in the horn of Africa of an exceptionally deep branching Mycobacterium tuberculosis clade en
dc.type Article en

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