Multiple major disease-associated clones of Legionella pneumophila have emerged recently and independently

Autor: Timothy G. Harrison, Laurence Ma, Christophe Ginevra, Carmen Buchrieser, John A. Lees, Anthony Underwood, Christiane Bouchier, Julian Parkhill, Simon R. Harris, Christophe Rusniok, Pierre Lechat, Sophia David, Philippe Glaser, Sophie Jarraud, M. Mentasti, Laura Gomez-Valero
Přispěvatelé: The Wellcome Trust Sanger Institute [Cambridge], Public Health England [London], Biologie des Bactéries intracellulaires - Biology of Intracellular Bacteria, Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS), Hub Bioinformatique et Biostatistique - Bioinformatics and Biostatistics HUB, Centre National de Référence des Légionelles [Lyon], Institut des Agents Infectieux [Lyon] (IAI), Hospices Civils de Lyon (HCL)-Hospices Civils de Lyon (HCL), Ecologie et Evolution de la Résistance aux Antibiotiques / Ecology and Evolution of Antibiotics Resistance (EERA), Université Paris-Sud - Paris 11 (UP11)-Institut Pasteur [Paris] (IP)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Centre National de la Recherche Scientifique (CNRS), Génomique (Plate-Forme) - Genomics Platform, Institut Pasteur [Paris] (IP), Work in the C.B. laboratory is financed by the Institut Pasteur, the Institut Carnot-Pasteur MI, the French Region Ile de France (DIM Malinf), the Agence Nationale de la Recherche (ANR) Grant No. ANR-10-LABX-62-IBEID, the ANR-10-PATH-004 project, in the frame of ERA-Net PathoGenoMics, and the Fondation pour la Recherche Médicale (FRM) Grant No. DEQ20120323697., We thank M. Tichit and M. Hunt for their technical support. The Plate-forme Génomique is a member of 'France Génomique' consortium (ANR10-INBS-09-08). Work at the Sanger Institute is funded by The Wellcome Trust Grant No. 098051., ANR-10-LABX-0062,IBEID,Integrative Biology of Emerging Infectious Diseases(2010), Parkhill, Julian [0000-0002-7069-5958], Apollo - University of Cambridge Repository, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), Institut Pasteur [Paris]-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Université Paris Sud Orsay-Centre National de la Recherche Scientifique (CNRS), Institut Pasteur [Paris]
Rok vydání: 2016
Předmět:
0301 basic medicine
MESH: Mutation
MESH: Selection
Genetic
Legionella pneumophila
Genome
Polymorphism
Single Nucleotide
Evolution
Molecular
03 medical and health sciences
Phylogenetics
Convergent evolution
[SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry
Molecular Biology/Genomics [q-bio.GN]
MESH: Evolution
Molecular
MESH: Virulence / genetics
Genetics
medicine
MESH: Legionella pneumophila / isolation & purification
Humans
Allele
Selection
Genetic
MESH: Phylogeny
Genetics (clinical)
Phylogeny
MESH: Humans
biology
Phylogenetic tree
Virulence
MESH: Polymorphism
Single Nucleotide
Research
MESH: Legionella pneumophila / classification
MESH: Legionella pneumophila / pathogenicity
biology.organism_classification
medicine.disease
MESH: Legionella pneumophila / genetics
030104 developmental biology
[SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology
Mutation
Biological dispersal
Legionnaires' disease
MESH: Legionnaires' Disease / microbiology
Legionnaires' Disease
Zdroj: Genome Research
Genome Research, 2016, 26 (11), pp.1555-1564. ⟨10.1101/gr.209536.116⟩
Genome Research, Cold Spring Harbor Laboratory Press, 2016, 26 (11), pp.1555-1564. ⟨10.1101/gr.209536.116⟩
ISSN: 1549-5469
1088-9051
DOI: 10.1101/gr.209536.116⟩
Popis: Legionella pneumophila is an environmental bacterium and the leading cause of Legionnaires’ disease. Just five sequence types (ST), from more than 2000 currently described, cause nearly half of disease cases in northwest Europe. Here, we report the sequence and analyses of 364 L. pneumophila genomes, including 337 from the five disease-associated STs and 27 representative of the species diversity. Phylogenetic analyses revealed that the five STs have independent origins within a highly diverse species. The number of de novo mutations is extremely low with maximum pairwise single-nucleotide polymorphisms (SNPs) ranging from 19 (ST47) to 127 (ST1), which suggests emergences within the last century. Isolates sampled geographically far apart differ by only a few SNPs, demonstrating rapid dissemination. These five STs have been recombining recently, leading to a shared pool of allelic variants potentially contributing to their increased disease propensity. The oldest clone, ST1, has spread globally; between 1940 and 2000, four new clones have emerged in Europe, which show long-distance, rapid dispersal. That a large proportion of clinical cases is caused by recently emerged and internationally dispersed clones, linked by convergent evolution, is surprising for an environmental bacterium traditionally considered to be an opportunistic pathogen. To simultaneously explain recent emergence, rapid spread and increased disease association, we hypothesize that these STs have adapted to new man-made environmental niches, which may be linked by human infection and transmission.
Databáze: OpenAIRE
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