New Results
Comparative genomics of Mycobacterium africanum Lineage 5 and Lineage 6 from Ghana suggests different ecological niches
Isaac Darko Otchere, Mireia Coscollá, Leonor Sánchez-Busó, Adwoa Asante-Poku, Daniela Brites, Chloe Loiseau, Conor Meehan, Stephen Osei-Wusu, Audrey Forson, Clement Laryea, Abdallah Iddrisu Yahayah, Akosua Baddoo, Gloria Akosua Ansa, Samuel Yaw Aboagye, Prince Asare, Sonia Borrell, Florian Gehre, Patrick Beckert, Thomas A Kohl, Sanoussi N'dira, Christian Beisel, Martin Antonio, Stefan Niemann, Bouke C de Jong, Julian Parkhill, Simon R Harris, Sebastien Gagneux, Dorothy Yeboah-Manu
doi: https://doi.org/10.1101/202234
Isaac Darko Otchere
1Noguchi Memorial Institute for Medical Research, University of Ghana, Legon, Accra, Ghana.
2Department of Biochemistry, Cell and Molecular Biology, University of Ghana, Legon, Accra, Ghana.
Mireia Coscollá
3Swiss Tropical and Public Health Institute, Basel, Switzerland.
4University of Basel, Basel, Switzerland.
Leonor Sánchez-Busó
5Wellcome Trust Sanger Institute, University of Cambridge, Hinxton, United Kingdom.
Adwoa Asante-Poku
1Noguchi Memorial Institute for Medical Research, University of Ghana, Legon, Accra, Ghana.
Daniela Brites
3Swiss Tropical and Public Health Institute, Basel, Switzerland.
4University of Basel, Basel, Switzerland.
Chloe Loiseau
3Swiss Tropical and Public Health Institute, Basel, Switzerland.
4University of Basel, Basel, Switzerland.
Conor Meehan
6Institute of Tropical Medicine, Antwerp, Belgium
Stephen Osei-Wusu
1Noguchi Memorial Institute for Medical Research, University of Ghana, Legon, Accra, Ghana.
Audrey Forson
7Chest Clinic, Korle-Bu Teaching Hospital, Accra, Ghana.
Clement Laryea
837 Military Hospital, Accra, Ghana.
Abdallah Iddrisu Yahayah
9Chest Department, Tamale Teaching Hospital, Tamale, Ghana.
Akosua Baddoo
7Chest Clinic, Korle-Bu Teaching Hospital, Accra, Ghana.
Gloria Akosua Ansa
10Public Health Department, University of Ghana Hospital, Legon, Accra, Ghana
Samuel Yaw Aboagye
1Noguchi Memorial Institute for Medical Research, University of Ghana, Legon, Accra, Ghana.
Prince Asare
1Noguchi Memorial Institute for Medical Research, University of Ghana, Legon, Accra, Ghana.
Sonia Borrell
3Swiss Tropical and Public Health Institute, Basel, Switzerland.
4University of Basel, Basel, Switzerland.
Florian Gehre
6Institute of Tropical Medicine, Antwerp, Belgium
11Medical Research Council, The Gambia Unit, Gambia
Patrick Beckert
12Molecular and Experimental Mycobacteriology, Research Center Borstel, Borstel, Germany
13Germany German Center for Infection Research, Partner Site Hamburg-Borstel-Lübeck, Germany
Thomas A Kohl
12Molecular and Experimental Mycobacteriology, Research Center Borstel, Borstel, Germany
13Germany German Center for Infection Research, Partner Site Hamburg-Borstel-Lübeck, Germany
Sanoussi N'dira
14National Reference Laboratory for Mycobacteria, Cotonou, Benin
Christian Beisel
15Department of Biosystems Science and Engineering, ETH Zurich Basel, Switzerland.
Martin Antonio
11Medical Research Council, The Gambia Unit, Gambia
Stefan Niemann
12Molecular and Experimental Mycobacteriology, Research Center Borstel, Borstel, Germany
13Germany German Center for Infection Research, Partner Site Hamburg-Borstel-Lübeck, Germany
Bouke C de Jong
6Institute of Tropical Medicine, Antwerp, Belgium
11Medical Research Council, The Gambia Unit, Gambia
Julian Parkhill
5Wellcome Trust Sanger Institute, University of Cambridge, Hinxton, United Kingdom.
Simon R Harris
5Wellcome Trust Sanger Institute, University of Cambridge, Hinxton, United Kingdom.
Sebastien Gagneux
3Swiss Tropical and Public Health Institute, Basel, Switzerland.
4University of Basel, Basel, Switzerland.
Dorothy Yeboah-Manu
1Noguchi Memorial Institute for Medical Research, University of Ghana, Legon, Accra, Ghana.
Abstract
Mycobacterium africanum (Maf) causes up to half of human tuberculosis in West Africa, but little is known on this pathogen. We compared the genomes of 253 Maf clinical isolates from Ghana, including both L5 and L6. We found that the genomic diversity of L6 was higher than in L5, and the selection pressures differed between both groups. Regulatory proteins appeared to evolve neutrally in L5 but under purifying selection in L6. Conversely, human T cell epitopes were under purifying selection in L5, but under positive selection in L6. Although only 10% of the T cell epitopes were variable, mutations were mostly lineage-specific. Our findings indicate that Maf L5 and L6 are genomically distinct, possibly reflecting different ecological niches.
Copyright
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
Posted October 20, 2017.
Comparative genomics of Mycobacterium africanum Lineage 5 and Lineage 6 from Ghana suggests different ecological niches
Isaac Darko Otchere, Mireia Coscollá, Leonor Sánchez-Busó, Adwoa Asante-Poku, Daniela Brites, Chloe Loiseau, Conor Meehan, Stephen Osei-Wusu, Audrey Forson, Clement Laryea, Abdallah Iddrisu Yahayah, Akosua Baddoo, Gloria Akosua Ansa, Samuel Yaw Aboagye, Prince Asare, Sonia Borrell, Florian Gehre, Patrick Beckert, Thomas A Kohl, Sanoussi N'dira, Christian Beisel, Martin Antonio, Stefan Niemann, Bouke C de Jong, Julian Parkhill, Simon R Harris, Sebastien Gagneux, Dorothy Yeboah-Manu
bioRxiv 202234; doi: https://doi.org/10.1101/202234
Comparative genomics of Mycobacterium africanum Lineage 5 and Lineage 6 from Ghana suggests different ecological niches
Isaac Darko Otchere, Mireia Coscollá, Leonor Sánchez-Busó, Adwoa Asante-Poku, Daniela Brites, Chloe Loiseau, Conor Meehan, Stephen Osei-Wusu, Audrey Forson, Clement Laryea, Abdallah Iddrisu Yahayah, Akosua Baddoo, Gloria Akosua Ansa, Samuel Yaw Aboagye, Prince Asare, Sonia Borrell, Florian Gehre, Patrick Beckert, Thomas A Kohl, Sanoussi N'dira, Christian Beisel, Martin Antonio, Stefan Niemann, Bouke C de Jong, Julian Parkhill, Simon R Harris, Sebastien Gagneux, Dorothy Yeboah-Manu
bioRxiv 202234; doi: https://doi.org/10.1101/202234
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