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Comparative genomics of Mycobacterium africanum lineage 5 and lineage 6 from Ghana suggests distinct ecological niches

Otchere, Isaac Darko and Coscollá, Mireia and Sánchez-Busó, Leonor and Asante-Poku, Adwoa and Brites, Daniela and Loiseau, Chloe and Meehan, Conor and Osei-Wusu, Stephen and Forson, Audrey and Laryea, Clement and Yahayah, Abdallah Iddrisu and Baddoo, Akosua and Ansa, Gloria Akosua and Aboagye, Samuel Yaw and Asare, Prince and Borrell, Sonia and Gehre, Florian and Beckert, Patrick and Kohl, Thomas A. and N'dira, Sanoussi and Beisel, Christian and Antonio, Martin and Niemann, Stefan and de Jong, Bouke C. and Parkhill, Julian and Harris, Simon R. and Gagneux, Sebastien and Yeboah-Manu, Dorothy. (2018) Comparative genomics of Mycobacterium africanum lineage 5 and lineage 6 from Ghana suggests distinct ecological niches. Scientific reports, 8. p. 11269.

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Abstract

Mycobacterium africanum (Maf) causes a substantial proportion of human tuberculosis in some countries of West Africa, but little is known on this pathogen. We compared the genomes of 253 Maf clinical isolates from Ghana, including N = 175 Lineage 5 (L5) and N = 78 Lineage 6 (L6). We found that the genomic diversity of L6 was higher than in L5 despite the smaller sample size. Regulatory proteins appeared to evolve neutrally in L5 but under purifying selection in L6. Even though over 90% of the human T cell epitopes were conserved in both lineages, L6 showed a higher ratio of non-synonymous to synonymous single nucleotide variation in these epitopes overall compared to L5. Of the 10% human T cell epitopes that were variable, most carried mutations that were lineage-specific. Our findings indicate that Maf L5 and L6 differ in some of their population genomic characteristics, possibly reflecting different selection pressures linked to distinct ecological niches.
Faculties and Departments:09 Associated Institutions > Swiss Tropical and Public Health Institute (Swiss TPH)
09 Associated Institutions > Swiss Tropical and Public Health Institute (Swiss TPH) > Department of Medical Parasitology and Infection Biology > Tuberculosis Research (Gagneux)
UniBasel Contributors:Coscollá Devís, Mireia and Brites, Daniela and Loiseau, Chloé Marie and Borrell Farnov, Sonia and Gagneux, Sebastien
Item Type:Article, refereed
Article Subtype:Research Article
Publisher:Springer Nature
ISSN:0169-5487
Note:Publication type according to Uni Basel Research Database: Journal article
Language:English
Identification Number:
Last Modified:05 Sep 2018 09:27
Deposited On:05 Sep 2018 09:27

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