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

Chaguza, Chrispin; Senghore, Madikay; Bojang, Ebrima; Gladstone, Rebecca A.; Lo, Stephanie W.; Tientcheu, Peggy-Estelle; Bancroft, Rowan E.; Worwui, Archibald; Foster-Nyarko, Ebenezer; Ceesay, Fatima; Okoi, Catherine; McGee, Lesley; Klugman, Keith P.; Breiman, Robert F.; Barer, Michael R.; Adegbola, Richard A.; Antonio, Martin; Bentley, Stephen D.; Kwambana-Adams, Brenda A.

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

July 10 2020
By Chaguza, Chrispin ; Senghore, Madikay ; Bojang, Ebrima ; ...
Source: Nat Commun. 11

[PDF-1.62 MB]

English

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Details:

Alternative Title:

Nat Commun
Personal Author:

Chaguza, Chrispin ; Senghore, Madikay ; Bojang, Ebrima ; Gladstone, Rebecca A. ; Lo, Stephanie W. ; ... More +

Chaguza, Chrispin ; Senghore, Madikay ; Bojang, Ebrima ; Gladstone, Rebecca A. ; Lo, Stephanie W. ; Tientcheu, Peggy-Estelle ; Bancroft, Rowan E. ; Worwui, Archibald ; Foster-Nyarko, Ebenezer ; Ceesay, Fatima ; Okoi, Catherine ; McGee, Lesley ; Klugman, Keith P. ; Breiman, Robert F. ; Barer, Michael R. ; Adegbola, Richard A. ; Antonio, Martin ; Bentley, Stephen D. ; Kwambana-Adams, Brenda A. Less -
Description:

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.
Subjects:

[+]

Evolution, Molecular Genetics Genome, Bacterial Humans Pneumococcal Infections Streptococcus Pneumoniae Whole Genome Sequencing
Source:

Nat Commun. 11
Pubmed ID:

32651390
Pubmed Central ID:

PMC7351774
Document Type:

Journal Article
Funding:

WT_/Wellcome Trust/United Kingdom ; MRC_/Medical Research Council/United Kingdom

WT_/Wellcome Trust/United Kingdom ; MRC_/Medical Research Council/United Kingdom Less -
Volume:

11
Collection(s):

CDC Public Access
Main Document Checksum:

[+]

urn:sha256:c9a23e1e3dcf304f23105e67b8bf6467adffb6a52ca52b6ceb731c115e5fb009
Download URL:

https://stacks.cdc.gov/view/cdc/93287/cdc_93287_DS1.pdf
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