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Comparative Genomics of Disease and Carriage Serotype 1 Pneumococci

Chaguza, Chrispin; Ebruke, Chinelo; Senghore, Madikay; Lo, Stephanie W; Tientcheu, Peggy-Estelle; Gladstone, Rebecca A; Tonkin-Hill, Gerry; ... Bentley, Stephen D; + view all (2022) Comparative Genomics of Disease and Carriage Serotype 1 Pneumococci. Genome Biology and Evolution , 14 (4) , Article evac052. 10.1093/gbe/evac052. Green open access

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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 harboring unique genomic variation.

Type: Article
Title: Comparative Genomics of Disease and Carriage Serotype 1 Pneumococci
Location: England
Open access status: An open access version is available from UCL Discovery
DOI: 10.1093/gbe/evac052
Publisher version: https://doi.org/10.1093/gbe/evac052
Language: English
Additional information: © The Author(s) 2022. Published by Oxford University Press on behalf of Society for Molecular Biology and Evolution. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
Keywords: Science & Technology, Life Sciences & Biomedicine, Evolutionary Biology, Genetics & Heredity, Streptococcus pneumoniae, genome-wide association study, bacterial genomics, genomic epidemiology, pathogenicity, invasiveness, STREPTOCOCCUS-PNEUMONIAE, NEISSERIA-MENINGITIDIS, WIDE ASSOCIATION, VIRULENCE, COLONIZATION, EPIDEMIOLOGY, ACTIVATION, OUTBREAK, CHILDREN, SEQUENCE
UCL classification: UCL
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Medical Sciences > Div of Infection and Immunity
URI: https://discovery.ucl.ac.uk/id/eprint/10160973
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