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Within-host microevolution of Streptococcus pneumoniae is rapid and adaptive during natural colonisation.

Abstract：

:Genomic evolution, transmission and pathogenesis of Streptococcus pneumoniae, an opportunistic human-adapted pathogen, is driven principally by nasopharyngeal carriage. However, little is known about genomic changes during natural colonisation. Here, we use whole-genome sequencing to investigate within-host microevolution of naturally carried pneumococci in ninety-eight infants intensively sampled sequentially from birth until twelve months in a high-carriage African setting. We show that neutral evolution and nucleotide substitution rates up to forty-fold faster than observed over longer timescales in S. pneumoniae and other bacteria drives high within-host pneumococcal genetic diversity. Highly divergent co-existing strain variants emerge during colonisation episodes through real-time intra-host homologous recombination while the rest are co-transmitted or acquired independently during multiple colonisation episodes. Genic and intergenic parallel evolution occur particularly in antibiotic resistance, immune evasion and epithelial adhesion genes. Our findings suggest that within-host microevolution is rapid and adaptive during natural colonisation.

journal_name

Nat Commun

journal_title

Nature communications

authors

Chaguza C,Senghore M,Bojang E,Gladstone RA,Lo SW,Tientcheu PE,Bancroft RE,Worwui A,Foster-Nyarko E,Ceesay F,Okoi C,McGee L,Klugman KP,Breiman RF,Barer MR,Adegbola RA,Antonio M,Bentley SD,Kwambana-Adams BA

doi

10.1038/s41467-020-17327-w

subject

Has Abstract

pub_date

2020-07-10 00:00:00

pages

3442

issue

1

issn

2041-1723

pii

10.1038/s41467-020-17327-w

journal_volume

11

pub_type

杂志文章

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