Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages

David Stucki; Daniela Brites; Leila Jeljeli; Mireia Coscolla; Qingyun Liu; Andrej Trauner; Lukas Fenner; Liliana Rutaihwa; Sonia Borrell; Tao Luo; Qian Gao; Midori Kato-Maeda; Marie Ballif; Matthias Egger; Rita Macedo; Helmi Mardassi; Milagros Moreno; Griselda Tudo Vilanova; Janet Fyfe; Maria Globan; Jackson Thomas; Frances Jamieson; Jennifer L. Guthrie; Adwoa Asante-Poku; Dorothy Yeboah-Manu; Eddie Wampande; Willy Ssengooba; Moses Joloba; W. Henry Boom; Indira Basu; James Bower; Margarida Saraiva; Sidra E. G. Vasconcellos; Philip Suffys; Anastasia Koch; Robert Wilkinson; Linda Gail-Bekker; Bijaya Malla; Serej D. Ley; Hans-Peter Beck; Bouke C. de Jong; Kadri Toit; Elisabeth Sanchez-Padilla; Maryline Bonnet; Ana Gil-Brusola; Matthias Frank; Veronique N. Penlap Beng; Kathleen Eisenach; Florian Gehre; Francesca Barletta

doi:10.1038/ng.3704

Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages

David Stucki, Daniela Brites, Leila Jeljeli, Mireia Coscolla, Qingyun Liu, Andrej Trauner, Lukas Fenner, Liliana Rutaihwa, Sonia Borrell, Tao Luo, Qian Gao, Midori Kato-Maeda, Marie Ballif, Matthias Egger, Rita Macedo, Helmi Mardassi, Milagros Moreno, Griselda Tudo Vilanova, Janet Fyfe, Maria GlobanJackson Thomas, Frances Jamieson, Jennifer L. Guthrie, Adwoa Asante-Poku, Dorothy Yeboah-Manu, Eddie Wampande, Willy Ssengooba, Moses Joloba, W. Henry Boom, Indira Basu, James Bower, Margarida Saraiva, Sidra E. G. Vasconcellos, Philip Suffys, Anastasia Koch, Robert Wilkinson, Linda Gail-Bekker, Bijaya Malla, Serej D. Ley, Hans-Peter Beck, Bouke C. de Jong, Kadri Toit, Elisabeth Sanchez-Padilla, Maryline Bonnet, Ana Gil-Brusola, Matthias Frank, Veronique N. Penlap Beng, Kathleen Eisenach, Florian Gehre, Francesca Barletta

Mycobacteriology

Research output: Contribution to journal › A1: Web of Science-article › peer-review

Abstract

Generalist and specialist species differ in the breadth of their ecological niches. Little is known about the niche width of obligate human pathogens. Here we analyzed a global collection of Mycobacterium tuberculosis lineage 4 clinical isolates, the most geographically widespread cause of human tuberculosis. We show that lineage 4 comprises globally distributed and geographically restricted sublineages, suggesting a distinction between generalists and specialists. Population genomic analyses showed that, whereas the majority of human T cell epitopes were conserved in all sublineages, the proportion of variable epitopes was higher in generalists. Our data further support a European origin for the most common generalist sublineage. Hence, the global success of lineage 4 reflects distinct strategies adopted by different sublineages and the influence of human migration.

Original language	English
Journal	Nature Genetics
Volume	48
Issue number	12
Pages (from-to)	1535-1543
Number of pages	9
ISSN	1061-4036
DOIs	https://doi.org/10.1038/ng.3704
Publication status	Published - 2016

Keywords

PAPUA-NEW-GUINEA
GENETIC DIVERSITY
RESISTANT TUBERCULOSIS
ANTIGENIC VARIATION
GENOMIC DIVERSITY
HIV-INFECTION
SOUTH-AFRICA
POPULATION
PATHOGENS
EVOLUTION

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Stucki, D., Brites, D., Jeljeli, L., Coscolla, M., Liu, Q., Trauner, A., Fenner, L., Rutaihwa, L., Borrell, S., Luo, T., Gao, Q., Kato-Maeda, M., Ballif, M., Egger, M., Macedo, R., Mardassi, H., Moreno, M., Tudo Vilanova, G., Fyfe, J., ... Barletta, F. (2016). Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages. Nature Genetics, 48(12), 1535-1543. https://doi.org/10.1038/ng.3704

@article{6139bc548a6945e99c1a88ad1f585653,

title = "Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages",

abstract = "Generalist and specialist species differ in the breadth of their ecological niches. Little is known about the niche width of obligate human pathogens. Here we analyzed a global collection of Mycobacterium tuberculosis lineage 4 clinical isolates, the most geographically widespread cause of human tuberculosis. We show that lineage 4 comprises globally distributed and geographically restricted sublineages, suggesting a distinction between generalists and specialists. Population genomic analyses showed that, whereas the majority of human T cell epitopes were conserved in all sublineages, the proportion of variable epitopes was higher in generalists. Our data further support a European origin for the most common generalist sublineage. Hence, the global success of lineage 4 reflects distinct strategies adopted by different sublineages and the influence of human migration.",

keywords = "PAPUA-NEW-GUINEA, GENETIC DIVERSITY, RESISTANT TUBERCULOSIS, ANTIGENIC VARIATION, GENOMIC DIVERSITY, HIV-INFECTION, SOUTH-AFRICA, POPULATION, PATHOGENS, EVOLUTION",

author = "David Stucki and Daniela Brites and Leila Jeljeli and Mireia Coscolla and Qingyun Liu and Andrej Trauner and Lukas Fenner and Liliana Rutaihwa and Sonia Borrell and Tao Luo and Qian Gao and Midori Kato-Maeda and Marie Ballif and Matthias Egger and Rita Macedo and Helmi Mardassi and Milagros Moreno and {Tudo Vilanova}, Griselda and Janet Fyfe and Maria Globan and Jackson Thomas and Frances Jamieson and Guthrie, {Jennifer L.} and Adwoa Asante-Poku and Dorothy Yeboah-Manu and Eddie Wampande and Willy Ssengooba and Moses Joloba and Boom, {W. Henry} and Indira Basu and James Bower and Margarida Saraiva and Vasconcellos, {Sidra E. G.} and Philip Suffys and Anastasia Koch and Robert Wilkinson and Linda Gail-Bekker and Bijaya Malla and Ley, {Serej D.} and Hans-Peter Beck and {de Jong}, {Bouke C.} and Kadri Toit and Elisabeth Sanchez-Padilla and Maryline Bonnet and Ana Gil-Brusola and Matthias Frank and Beng, {Veronique N. Penlap} and Kathleen Eisenach and Florian Gehre and Francesca Barletta",

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year = "2016",

doi = "10.1038/ng.3704",

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Stucki, D, Brites, D, Jeljeli, L, Coscolla, M, Liu, Q, Trauner, A, Fenner, L, Rutaihwa, L, Borrell, S, Luo, T, Gao, Q, Kato-Maeda, M, Ballif, M, Egger, M, Macedo, R, Mardassi, H, Moreno, M, Tudo Vilanova, G, Fyfe, J, Globan, M, Thomas, J, Jamieson, F, Guthrie, JL, Asante-Poku, A, Yeboah-Manu, D, Wampande, E, Ssengooba, W, Joloba, M, Boom, WH, Basu, I, Bower, J, Saraiva, M, Vasconcellos, SEG, Suffys, P, Koch, A, Wilkinson, R, Gail-Bekker, L, Malla, B, Ley, SD, Beck, H-P, de Jong, BC, Toit, K, Sanchez-Padilla, E, Bonnet, M, Gil-Brusola, A, Frank, M, Beng, VNP, Eisenach, K, Gehre, F & Barletta, F 2016, 'Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages', Nature Genetics, vol. 48, no. 12, pp. 1535-1543. https://doi.org/10.1038/ng.3704

TY - JOUR

T1 - Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages

AU - Stucki, David

AU - Brites, Daniela

AU - Jeljeli, Leila

AU - Coscolla, Mireia

AU - Liu, Qingyun

AU - Trauner, Andrej

AU - Fenner, Lukas

AU - Rutaihwa, Liliana

AU - Borrell, Sonia

AU - Luo, Tao

AU - Gao, Qian

AU - Kato-Maeda, Midori

AU - Ballif, Marie

AU - Egger, Matthias

AU - Macedo, Rita

AU - Mardassi, Helmi

AU - Moreno, Milagros

AU - Tudo Vilanova, Griselda

AU - Fyfe, Janet

AU - Globan, Maria

AU - Thomas, Jackson

AU - Jamieson, Frances

AU - Guthrie, Jennifer L.

AU - Asante-Poku, Adwoa

AU - Yeboah-Manu, Dorothy

AU - Wampande, Eddie

AU - Ssengooba, Willy

AU - Joloba, Moses

AU - Boom, W. Henry

AU - Basu, Indira

AU - Bower, James

AU - Saraiva, Margarida

AU - Vasconcellos, Sidra E. G.

AU - Suffys, Philip

AU - Koch, Anastasia

AU - Wilkinson, Robert

AU - Gail-Bekker, Linda

AU - Malla, Bijaya

AU - Ley, Serej D.

AU - Beck, Hans-Peter

AU - de Jong, Bouke C.

AU - Toit, Kadri

AU - Sanchez-Padilla, Elisabeth

AU - Bonnet, Maryline

AU - Gil-Brusola, Ana

AU - Frank, Matthias

AU - Beng, Veronique N. Penlap

AU - Eisenach, Kathleen

AU - Gehre, Florian

AU - Barletta, Francesca

N1 - NPP

PY - 2016

Y1 - 2016

N2 - Generalist and specialist species differ in the breadth of their ecological niches. Little is known about the niche width of obligate human pathogens. Here we analyzed a global collection of Mycobacterium tuberculosis lineage 4 clinical isolates, the most geographically widespread cause of human tuberculosis. We show that lineage 4 comprises globally distributed and geographically restricted sublineages, suggesting a distinction between generalists and specialists. Population genomic analyses showed that, whereas the majority of human T cell epitopes were conserved in all sublineages, the proportion of variable epitopes was higher in generalists. Our data further support a European origin for the most common generalist sublineage. Hence, the global success of lineage 4 reflects distinct strategies adopted by different sublineages and the influence of human migration.

AB - Generalist and specialist species differ in the breadth of their ecological niches. Little is known about the niche width of obligate human pathogens. Here we analyzed a global collection of Mycobacterium tuberculosis lineage 4 clinical isolates, the most geographically widespread cause of human tuberculosis. We show that lineage 4 comprises globally distributed and geographically restricted sublineages, suggesting a distinction between generalists and specialists. Population genomic analyses showed that, whereas the majority of human T cell epitopes were conserved in all sublineages, the proportion of variable epitopes was higher in generalists. Our data further support a European origin for the most common generalist sublineage. Hence, the global success of lineage 4 reflects distinct strategies adopted by different sublineages and the influence of human migration.

KW - PAPUA-NEW-GUINEA

KW - GENETIC DIVERSITY

KW - RESISTANT TUBERCULOSIS

KW - ANTIGENIC VARIATION

KW - GENOMIC DIVERSITY

KW - HIV-INFECTION

KW - SOUTH-AFRICA

KW - POPULATION

KW - PATHOGENS

KW - EVOLUTION

U2 - 10.1038/ng.3704

DO - 10.1038/ng.3704

M3 - A1: Web of Science-article

SN - 1061-4036

VL - 48

SP - 1535

EP - 1543

JO - Nature Genetics

JF - Nature Genetics

IS - 12

ER -

Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages

Abstract

Keywords

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