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Mycobacterium tuberculosis lineage 1 genetic diversity in Pará, Brazil, suggests common ancestry with east-African isolates potentially linked to historical slave trade.

Conceição, Emilyn Costa; Refregier, Guislaine; Gomes, Harrison Magdinier; Olessa-Daragon, Xavier; Coll, Francesc; Ratovonirina, Noël Harijaona; Rasolofo-Razanamparany, Voahangy; Lopes, Maria Luiza; van Soolingen, Dick; Rutaihwa, Liliana; Gagneux, Sebastien; Bollela, Valdes Roberto; Suffys, Philip Noel; Duarte, Rafael Silva; Lima, Karla Valéria Batista; Sola, Christophe.
Infect Genet Evol; 73: 337-341, 2019 Jun 03.
Artigo em Inglês | MEDLINE | ID: mdl-31170529
Lineage 1 (L1) is one of seven Mycobacterium tuberculosis complex (MTBC) lineages. The objective of this study was to improve the complex taxonomy of L1 using phylogenetic SNPs, and to look for the origin of the main L1 sublineage prevalent in Para, Brazil. We developed a high-throughput SNPs-typing assay based on 12-L1-specific SNPs. This assay allowed us to experimentally retrieve SNP patterns on nine of these twelve SNPs in 277 isolates previously tentatively assigned to L1 spoligotyping-based sublineages. Three collections were used: Pará-Brazil (71); RIVM, the Netherlands (102), Madagascar (104). One-hundred more results were generated in Silico using the PolyTB database. Based on the final SNPs combination, the samples were classified into 11 clusters (C1-C11). Most isolates within a SNP-based cluster shared a mutual spoligotyping-defined lineage. However, L1/EAI1-SOM (SIT48) and L1/EAI6-BGD1 (SIT591) showed a poor correlation with SNP data and are not monophyletic. L1/EAI8-MDG and L1/EAI3-IND belonged to C5; this result suggests that they share a common ancestor. L1.1.3/SIT129, a spoligotype pattern found in SNPs-cluster C6, was found to be shared between Pará/Brazil and Malawi. SIT129 was independently found to be highly prevalent in Mozambique, which suggests a migration history from East-Africa to Brazil during the 16th-18th slave trade period to Northern Brazil.