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Title: Dense genomic sampling identifies highways of pneumococcal recombination
Authors: Claire Chewapreecha
Simon R. Harris
Nicholas J. Croucher
Claudia Turner
Pekka Marttinen
Lu Cheng
Alberto Pessia
David M. Aanensen
Alison E. Mather
Andrew J. Page
Susannah J. Salter
David Harris
Francois Nosten
David Goldblatt
Jukka Corander
Julian Parkhill
Paul Turner
Stephen D. Bentley
Wellcome Trust Sanger Institute
St Mary's Hospital London
Mahidol University
Nuffield Department of Clinical Medicine
Aalto University
Helsingin Yliopisto
UCL Institute of Child Health
Abo Akademi University
University of Cambridge
Keywords: Biochemistry, Genetics and Molecular Biology
Issue Date: 1-Jan-2014
Citation: Nature Genetics. Vol.46, No.3 (2014), 305-309
Abstract: Evasion of clinical interventions by Streptococcus pneumoniae occurs through selection of non-susceptible genomic variants. We report whole-genome sequencing of 3,085 pneumococcal carriage isolates from a 2.4-km 2 refugee camp. This sequencing provides unprecedented resolution of the process of recombination and its impact on population evolution. Genomic recombination hotspots show remarkable consistency between lineages, indicating common selective pressures acting at certain loci, particularly those associated with antibiotic resistance. Temporal changes in antibiotic consumption are reflected in changes in recombination trends, demonstrating rapid spread of resistance when selective pressure is high. The highest frequencies of receipt and donation of recombined DNA fragments were observed in non-encapsulated lineages, implying that this largely overlooked pneumococcal group, which is beyond the reach of current vaccines, may have a major role in genetic exchange and the adaptation of the species as a whole. These findings advance understanding of pneumococcal population dynamics and provide information for the design of future intervention strategies. © 2014 Nature America, Inc. © 2014 Nature America, Inc.
ISSN: 15461718
Appears in Collections:Scopus 2011-2015

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