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Comparative genomics of disease and carriage serotype 1 pneumococci

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Chaguza, Chrispin, Ebruke, Chinelo, Senghore, Madikay, Lo, Stephanie W., Tientcheu, Peggy-Estelle, Gladstone, Rebecca A., Tonkin-Hill, Gerry, Cornick, Jennifer E., Yang, Marie, Worwui, Archibald et al.
(2022) Comparative genomics of disease and carriage serotype 1 pneumococci. Genome Biology and Evolution, 14 (4). evac052. doi:10.1093/gbe/evac052 ISSN 1759-6653.

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Official URL: https://doi.org/10.1093/gbe/evac052

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Abstract

The isolation of Streptococcus pneumoniae serotypes in systemic tissues of patients with invasive disease versus the nasopharynx of healthy individuals with asymptomatic carriage varies widely. Some serotypes are hyper-invasive, particularly serotype 1, but the underlying genetics remain poorly understood due to the rarity of carriage isolates, reducing the power of comparison with invasive isolates. Here, we use a well-controlled genome-wide association study to search for genetic variation associated with invasiveness of serotype 1 pneumococci from a serotype 1 endemic setting in Africa. We found no consensus evidence that certain genomic variation is overrepresented among isolates from patients with invasive disease than asymptomatic carriage. Overall, the genomic variation explained negligible phenotypic variability, suggesting a minimal effect on the disease status. Furthermore, changes in lineage distribution were seen with lineages replacing each other over time, highlighting the importance of continued pathogen surveillance. Our findings suggest that the hyper-invasiveness is an intrinsic property of the serotype 1 strains, not specific for a “disease-associated” subpopulation disproportionately harbouring unique genomic variation.

Item Type: Journal Article
Subjects: Q Science > QH Natural history
Q Science > QR Microbiology
R Medicine > RA Public aspects of medicine
Divisions: Faculty of Science, Engineering and Medicine > Medicine > Warwick Medical School > Biomedical Sciences
Faculty of Science, Engineering and Medicine > Medicine > Warwick Medical School
SWORD Depositor: Library Publications Router
Library of Congress Subject Headings (LCSH): Streptococcus pneumoniae, Bacterial genetics , Epidemiology, Microbial invasiveness
Journal or Publication Title: Genome Biology and Evolution
Publisher: Oxford University Press
ISSN: 1759-6653
Official Date: 19 April 2022
Dates:
DateEvent
19 April 2022Published
12 April 2022Accepted
Volume: 14
Number: 4
Article Number: evac052
DOI: 10.1093/gbe/evac052
Status: Peer Reviewed
Publication Status: Published
Access rights to Published version: Open Access (Creative Commons)
Date of first compliant deposit: 10 June 2022
Date of first compliant Open Access: 10 June 2022
RIOXX Funder/Project Grant:
Project/Grant IDRIOXX Funder NameFunder ID
UNSPECIFIED[MRC] Medical Research Councilhttp://dx.doi.org/10.13039/501100000265
UNSPECIFIEDLondon School of Hygiene and Tropical Medicinehttp://dx.doi.org/10.13039/100009660
OPP1023440Bill and Melinda Gates Foundationhttp://dx.doi.org/10.13039/100000865
OPP1034556Bill and Melinda Gates Foundationhttp://dx.doi.org/10.13039/100000865
MR/R003076/1Joint Programming Initiative on Antimicrobial Resistancehttp://dx.doi.org/10.13039/100013281
206194Wellcome Trusthttp://dx.doi.org/10.13039/100010269

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