Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages

Autor: Robert J. Wilkinson, James E. Bower, Liliana K. Rutaihwa, W. Henry Boom, Matthias Egger, Philip Noel Suffys, Elisabeth Sanchez-Padilla, Linda Gail-Bekker, Sebastien Gagneux, Issam Alani, Marie Ballif, Kathleen D. Eisenach, Jennifer L. Guthrie, Ana Gil-Brusola, Eddie M. Wampande, Willy Ssengooba, Nyanda E. Ntinginya, Rita Macedo, Petras Stakenas, Bijaya Malla, Adwoa Asante-Poku, Stefan Niemann, Lynsey Stewart-Isherwood, Mireia Coscolla, Perpetual Wangui Ndung'u, Florian Gehre, Daniela Maria Cirillo, E. Jane Carter, Sidra Ezidio Gonçalves Vasconcellos, Moses Joloba, Midori Kato-Maeda, Indira Basu, Andrea Rachow, Bouke C. de Jong, Serej D. Ley, Andrej Trauner, Hans-Peter Beck, Jackson Thomas, Dorothy Yeboah-Manu, Qingyun Liu, Tao Luo, Francesca Barletta, Véronique Penlap Beng, Janet A. M. Fyfe, Anastasia Koch, Margarida Saraiva, Sven Hoffner, Daniela Brites, Sahal Al-Hajoj, Griselda Tudo Vilanova, Maria Globan, Qian Gao, Helmi Mardassi, Maryline Bonnet, Philip Supply, Iñaki Comas, Valeriu Crudu, Girts Skenders, Francine Ntoumi, Frances B. Jamieson, Olga Domnica Moldovan, Leïla Jeljeli, Gunturu Revathi, Milagros Moreno, Suriya Akter, Sonia Borrell, Kadri Toit, Matthias Frank, Michael Hoelscher, Lameck Diero, Daiva Bakonyte, David Stucki, Lukas Fenner, Larissa Otero, Roland Diel
Přispěvatelé: University of Basel (Unibas), Swiss Tropical Institute, Swiss Tropical and Public Health Institute [Basel], Forschungszentrum Borstel - Research Center Borstel, German Center for Infection Research, Borstel Site, Institute of Social and Preventive Medicine [Bern] (ISPM), Universität Bern [Bern], Institut Pasteur de Tunis, Réseau International des Instituts Pasteur (RIIP), Key Laboratory of Medical Molecular Virology of the Ministries of Education and Health, Institutes of Biomedical Sciences and Institute of Medical Microbiology, Fudan University, Laboratory of Infection and Immunity, School of Basic Medical Science, West China Center of Medical Sciences, Sichuan University [Chengdu] (SCU), University of California at San Francisco, University of California [San Francisco] (UCSF), University of California-University of California, School of Medicine, Laboratorio Nacional de Saude Publica, Hospital Nossa Senhora da Paz, Servei de Microbiologia, Hospital Clínic–ISGlobal, Barcelona, Victorian Infectious Diseases Reference Laboratory, Public Health Ontario - Santé publique Ontario, Noguchi Memorial Institute for Medical Research [Accra, Ghana] (NMIMR), University of Ghana, Makerere University College of Health Sciences, Department of Global Health, University of Amsterdam [Amsterdam] (UvA), Department of Molecular Biology and Microbiology, Case Western Reserve University [Cleveland], Lab Plus, Auckland City Hospital, ICVS/3B's—PT Government Associate Laboratory, Braga, Molecular Biology Applied to Mycobacteria / Biologia Molecular Aplicada a Micobactérias [Rio de Janeiro], Instituto Oswaldo Cruz / Oswaldo Cruz Institute [Rio de Janeiro] (IOC), Fundação Oswaldo Cruz (FIOCRUZ), Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP)-Fundação Oswaldo Cruz (FIOCRUZ), Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP), Institute of Infectious Disease and Molecular Medicine, and Department of Clinical Laboratory Sciences, University of Cape Town, Department of Medicine, Imperial College London, Francis Crick Institute Mill Hill Laboratory, London, Papua New Guinea Institute of Medical Research (PNG-IMR), Institute of Tropical Medicine [Antwerp] (ITM), Tartu University Hospital United Laboratories, Mycobacteriology, Epicentre [Paris] [Médecins Sans Frontières], Institute of Tropical Medicine and Infectious Diseases (ITROMID), Jomo Kenyatta University of Agriculture and Technology (JKUAT), Nairobi, Department of Microbiology, University Hospital La Fe, Valencia, University of Tübingen [Germany], Fondation Congolaise pour la Recherche Médicale, Université Marien Gouabi, Brazzaville, University of Yaoundé [Cameroun], University of Arkansas for Medical Sciences (UAMS), Department of Medical Laboratory Technology, Faculty of Medical Technology, Baghdad, Department of Pathology, Aga Khan University Hospital (AKUH), Nairobi, Medical Research Council, Fajara, Right to Care and the Clinical HIV Research Unit, University of the Witwatersrand [Johannesburg] (WITS), Division of Infectious Diseases and Tropical Medicine = Abteilung für infektions und tropenmedizin [Munich, Germany], Klinikum der Universität [München]-Ludwig-Maximilians-Universität München (LMU), National Institute of Medical Research, Mbeya Medical Research Centre (NIMR-MMRC), Mbeya, Emerging Bacterial Pathogen Unit, San Raffaele Scientific Institute, WHO Supranational TB Reference Laboratory, Department of Microbiology, Public Health Agency of Sweden, Department of Immunology and Cell Biology, Institute of Biotechnology, Vilnius University [Vilnius], Institute for Epidemiology, Schleswig-Holstein University Hospital, Kiel, Marius Nasta Institute of Pneumology, Department of Infection and Immunity, King Faisal Specialist Hospital and Research Centre, Riyadh, Instituto de Medicina Tropical Alexander von Humboldt, Molecular Epidemiology Unit–Tuberculosis, Instituto de Medicina Tropical 'Alexander von Humboldt' (IMT AvH), Universidad Peruana Cayetano Heredia (UPCH)-Universidad Peruana Cayetano Heredia (UPCH), Warren Alpert Medical School of Brown University, Moi University School of Medicine, Eldoret, Centre d’Infection et d’Immunité de Lille - INSERM U 1019 - UMR 9017 - UMR 8204 (CIIL), Centre National de la Recherche Scientifique (CNRS)-Centre Hospitalier Régional Universitaire [Lille] (CHRU Lille)-Université de Lille-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut Pasteur de Lille, Institut de Biologie Valrose (IBV), Université Nice Sophia Antipolis (... - 2019) (UNS), COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Côte d'Azur (UCA)-Centre National de la Recherche Scientifique (CNRS), CIBER Epidemiology and Public Health, Madrid, [et. al.], Universidade do Minho, Wellcome Trust, Universität Bern [Bern] (UNIBE), University of California [San Francisco] (UC San Francisco), University of California (UC)-University of California (UC), Victorian Infectious Diseases Reference Laboratory [Melbourne, Australia] (VIDRL), Fundação Oswaldo Cruz / Oswaldo Cruz Foundation (FIOCRUZ), Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP)-Fundação Oswaldo Cruz / Oswaldo Cruz Foundation (FIOCRUZ), Hospital Universitari i Politècnic La Fe = University and Polytechnic Hospital La Fe, Eberhard Karls Universität Tübingen = Eberhard Karls University of Tuebingen, Ludwig-Maximilians-Universität München (LMU)-Klinikum der Universität [München], King Faisal Specialist Hospital and Research Centre (KFSH & RC), Institut Pasteur de Lille, Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université de Lille-Centre Hospitalier Régional Universitaire [Lille] (CHRU Lille)-Centre National de la Recherche Scientifique (CNRS), Université Nice Sophia Antipolis (1965 - 2019) (UNS), COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Université Côte d'Azur (UCA)
Jazyk: angličtina
Rok vydání: 2016
Předmět:
0301 basic medicine
Infecções Respiratórias
[SDV]Life Sciences [q-bio]
Generalist and specialist species
Global Health
ANTIGENIC VARIATION
Polymorphism
Genetic/genetics
POPULATION
ComputingMilieux_MISCELLANEOUS
Genetics & Heredity
education.field_of_study
RESISTANT TUBERCULOSIS
Human migration
Ecology
11 Medical And Health Sciences
Genomics
SOUTH-AFRICA
3. Good health
Mycobacterium tuberculosis/classification/genetics/isolation & purification
Phylogeography
GENETIC DIVERSITY
Life Sciences & Biomedicine
DNA
Bacterial
Lineage (genetic)
Genotype
Niche
Population
Tuberculosis/genetics/microbiology
Biology
Article
Host Specificity
03 medical and health sciences
HIV-INFECTION
Genetics
Humans
Tuberculosis
DNA
Bacterial/analysis
education
Ecological niche
PATHOGENS
Science & Technology
Polymorphism
Genetic
Obligate
business.industry
Mycobacterium tuberculosis
06 Biological Sciences
biology.organism_classification
PAPUA-NEW-GUINEA
EVOLUTION
Genomics/methods
030104 developmental biology
Evolutionary biology
business
GENOMIC DIVERSITY
purl.org/pe-repo/ocde/ford#1.06.07 [https]
Developmental Biology
Mycobacterium
Zdroj: Repositório Científico de Acesso Aberto de Portugal
Repositório Científico de Acesso Aberto de Portugal (RCAAP)
instacron:RCAAP
Nature Genetics
Nature Genetics, Nature Publishing Group, 2016, ⟨10.1038/ng.3704⟩
NATURE GENETICS
r-IIS La Fe. Repositorio Institucional de Producción Científica del Instituto de Investigación Sanitaria La Fe
instname
r-FISABIO: Repositorio Institucional de Producción Científica
Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunitat Valenciana (FISABIO)
r-FISABIO. Repositorio Institucional de Producción Científica
Nature genetics
Nature Genetics, 2016, ⟨10.1038/ng.3704⟩
ISSN: 1061-4036
1546-1718
DOI: 10.1038/ng.3704⟩
Popis: 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.
We thank S. Lecher, S. Li and J. Zallet for technical support. Calculations were performed at the sciCORE scientific computing core facility at the University of Basel. This work was supported by the Swiss National Science Foundation (grants 310030_166687 (S.G.) and 320030_153442 (M.E.) and Swiss HIV Cohort Study grant 740 to L.F.), the European Research Council (309540-EVODRTB to S.G.), TB-PAN-NET (FP7-223681 to S.N.), PathoNgenTrace projects (FP7-278864-2 to S.N.), SystemsX.ch (S.G.), the German Center for Infection Research (DZIF; S.N.), the Novartis Foundation (S.G.), the Natural Science Foundation of China (91631301 to Q.G.), and the National Institute of Allergy and Infectious Diseases (5U01-AI069924-05) of the US National Institutes of Health (M.E.).
Databáze: OpenAIRE
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