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dc.contributor.authorCoscolla, M.
dc.contributor.authorGagneux, S.
dc.contributor.authorMenardo, F.
dc.contributor.authorLoiseau, C.
dc.contributor.authorRuiz-Rodriguez, P.
dc.contributor.authorBorrell, S.
dc.contributor.authorOtchere, I.D.
dc.contributor.authorAsante-Poku, A.
dc.contributor.authorAsare, P.
dc.contributor.authorSánchez-Busó, L.
dc.contributor.authorGehre, F.
dc.contributor.authorSanoussi, C.N.
dc.contributor.authorAntonio, M.
dc.contributor.authorAffolabi, D.
dc.contributor.authorFyfe, J.
dc.contributor.authorBeckert, P.
dc.contributor.authorNiemann, S.
dc.contributor.authorAlabi, A.S.
dc.contributor.authorGrobusch, M.P.
dc.contributor.authorKobbe, R.
dc.contributor.authorParkhill, J.
dc.contributor.authorBeisel, C.
dc.contributor.authorFenner, C.
dc.contributor.authorBöttger, E.C.
dc.contributor.authorMeehan, Conor J.
dc.contributor.authorHarris, S.R.
dc.contributor.authorde Jong, B.C.
dc.contributor.authorYeboah-Manu, D.
dc.contributor.authorBrites, D.
dc.date.accessioned2021-06-18T08:49:44Z
dc.date.accessioned2021-07-01T11:37:12Z
dc.date.available2021-06-18T08:49:44Z
dc.date.available2021-07-01T11:37:12Z
dc.date.issued2021-02
dc.identifier.citationCoscolla M, Gagneux S, Menardo F... Mehan CJ... (et al). (2021) Phylogenomics of Mycobacterium africanum reveals a new lineage and a complex evolutionary history. Microbial Genomics. 7 (2).en_US
dc.identifier.urihttp://hdl.handle.net/10454/18527
dc.descriptionyesen_US
dc.description.abstractHuman tuberculosis (TB) is caused by members of the Mycobacterium tuberculosis complex (MTBC). The MTBC comprises several human-adapted lineages known as M. tuberculosis sensu stricto, as well as two lineages (L5 and L6) traditionally referred to as Mycobacterium africanum. Strains of L5 and L6 are largely limited to West Africa for reasons unknown, and little is known of their genomic diversity, phylogeography and evolution. Here, we analysed the genomes of 350 L5 and 320 L6 strains, isolated from patients from 21 African countries, plus 5 related genomes that had not been classified into any of the known MTBC lineages. Our population genomic and phylogeographical analyses showed that the unclassified genomes belonged to a new group that we propose to name MTBC lineage 9 (L9). While the most likely ancestral distribution of L9 was predicted to be East Africa, the most likely ancestral distribution for both L5 and L6 was the Eastern part of West Africa. Moreover, we found important differences between L5 and L6 strains with respect to their phylogeographical substructure and genetic diversity. Finally, we could not confirm the previous association of drug-resistance markers with lineage and sublineages. Instead, our results indicate that the association of drug resistance with lineage is most likely driven by sample bias or geography. In conclusion, our study sheds new light onto the genomic diversity and evolutionary history of M. africanum, and highlights the need to consider the particularities of each MTBC lineage for understanding the ecology and epidemiology of TB in Africa and globally.en_US
dc.language.isoenen_US
dc.relation.isreferencedbyhttps://doi.org/10.1099/mgen.0.000477en_US
dc.rights© 2021 The Authors. This is an Open Access article published by the Microbiology Society, licensed under a Creative Commons Attribution 4.0 International License.en_US
dc.subjectMycobacterium africanumen_US
dc.subjectMycobacterium tuberculosisen_US
dc.subjectDiversityen_US
dc.subjectEvolutionen_US
dc.subjectGenomeen_US
dc.subjectMycobacterium tuberculosis complex (MTBC)en_US
dc.subjectLineagesen_US
dc.titlePhylogenomics of Mycobacterium africanum reveals a new lineage and a complex evolutionary historyen_US
dc.status.refereedyesen_US
dc.date.Accepted2020-10-29
dc.typeArticleen_US
dc.type.versionPublished versionen_US
dc.date.updated2021-06-18T07:49:46Z
refterms.dateFOA2021-07-01T11:37:44Z
dc.openaccess.statusGolden_US


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