Dense genomic sampling identifies highways of pneumococcal recombination

被引：274

作者：

Chewapreecha, Claire ^{[1
]}

Harris, Simon R. ^{[1
]}

Croucher, Nicholas J. ^{[2
]}

Turner, Claudia ^{[3
,4
,5
]}

Marttinen, Pekka ^{[6
]}

Cheng, Lu ^{[7
]}

Pessia, Alberto ^{[7
]}

Aanensen, David M. ^{[2
]}

Mather, Alison E. ^{[1
]}

Page, Andrew J. ^{[1
]}

Salter, Susannah J. ^{[1
]}

Harris, David ^{[1
]}

Nosten, Francois ^{[3
,5
]}

Goldblatt, David ^{[8
]}

Corander, Jukka ^{[7
,9
,10
]}

Parkhill, Julian ^{[1
]}

Turner, Paul ^{[3
,4
,5
]}

Bentley, Stephen D. ^{[1
,10
]}

机构：

[1] Wellcome Trust Sanger Inst, Cambridge, England

[2] Univ London Imperial Coll Sci Technol & Med, St Marys Hosp, Dept Infect Dis Epidemiol, London, England

[3] Mahidol Univ, Fac Trop Med, Mahidol Oxford Trop Med Res Unit, Shoklo Malaria Res Unit, Maesot, Thailand

[4] Angkor Hosp Children, Cambodia Oxford Med Res Unit, Siem Reap, Cambodia

[5] Univ Oxford, Nuffield Dept Med, Ctr Trop Med, Oxford, England

[6] Aalto Univ, Dept Informat & Comp Sci, Helsinki Inst Informat Technol, Espoo, Finland

[7] Univ Helsinki, Dept Math & Stat, Helsinki, Finland

[8] UCL, Inst Child Hlth, Immunobiol Unit, London, England

[9] Abo Akad Univ, Dept Math, Turku, Finland

[10] Univ Cambridge, Addenbrookes Hosp, Dept Med, Cambridge CB2 2QQ, England

来源：

NATURE GENETICS | 2014年 / 46卷 / 03期

基金：

英国惠康基金; 欧洲研究理事会; 芬兰科学院;

关键词：

ANTIBIOTIC-RESISTANCE; BAYESIAN-ANALYSIS; DNA-SEQUENCES; STREPTOCOCCUS; PENICILLIN; EVOLUTION; GENE; TRANSMISSION; COMPETENCE; FRATRICIDE;

D O I：

10.1038/ng.2895

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

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.

引用

页码：305 / +

页数：7

共 42 条

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