ArticleNature ecology & evolution2017
Frequency-dependent selection in vaccine-associated pneumococcal population dynamics.
Article in Nature ecology & evolution, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 86 papers, 2 of them syntheses that pooled it.
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Who cites it
86 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Pooled it
- Analysing pneumococcal invasiveness using Bayesian models of pathogen progression rates.PLoS computational biology · 2022Pooled it
- Trial
- A reusable model of pangenome selection informs optimal surveillance strategies over vaccine introductions.Genome medicine · 2026Article
- How the social lives of bacteria affect their pangenome.Essays in biochemistry · 2026Review
- Identification of transporter-dependent capsular loci associated with the invasive potential of Escherichia coli.Nature microbiology · 2026Article
- Epistasis mediates the role of negative frequency-dependent selection in bacterial strain structure.PLoS computational biology · 2026Article
- Article
- Negative Frequency-Dependent Selection Promotes Strain Structure in a Plant Pathogen.Ecology letters · 2026Article
- Horizontal gene transfer, segregation loss, and the speed of microbial adaptation.Evolution letters · 2025Article
- Ecological diversification in rapidly evolving populations.bioRxiv : the preprint server for biology · 2025Article
- Unraveling the tempo and mode of horizontal gene transfer in bacteria.Trends in microbiology · 2025Review
- Quantifying the effects of antibiotic resistance and within-host competition on strain fitness in Streptococcus pneumoniae.PLoS biology · 2025Article
- Linkage-based ortholog refinement in bacterial pangenomes with CLARC.Nucleic acids research · 2025Article
- Colonization dynamics ofInfection and immunity · 2025Article
- Plasmid-driven strategies for clone success in Escherichia coli.Nature communications · 2025Article
- Misspecification-robust likelihood-free inference in high dimensions.Computational statistics · 2025Article
- A genome-based survey of invasive pneumococci in Norway over four decades reveals lineage-specific responses to vaccination.Genome medicine · 2024Article
- Impact of pneumococcal conjugate vaccines on invasive pneumococcal disease-causing lineages among South African children.Nature communications · 2024Article
- Recent approaches in computational modelling for controlling pathogen threats.Life science alliance · 2024Review
26 more citing papers are in PubMed but not listed here.
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8 authors.
Funding
Abstract
Many bacterial species are composed of multiple lineages distinguished by extensive variation in gene content. These often cocirculate in the same habitat, but the evolutionary and ecological processes that shape these complex populations are poorly understood. Addressing these questions is particularly important for Streptococcus pneumoniae, a nasopharyngeal commensal and respiratory pathogen, because the changes in population structure associated with the recent introduction of partial-coverage vaccines have substantially reduced pneumococcal disease. Here we show that pneumococcal lineages from multiple populations each have a distinct combination of intermediate-frequency genes. Functional analysis suggested that these loci may be subject to negative frequency-dependent selection (NFDS) through interactions with other bacteria, hosts or mobile elements. Correspondingly, these genes had similar frequencies in four populations with dissimilar lineage compositions. These frequencies were maintained following substantial alterations in lineage prevalences once vaccination programmes began. Fitting a multilocus NFDS model of post-vaccine population dynamics to three genomic datasets using Approximate Bayesian Computation generated reproducible estimates of the influence of NFDS on pneumococcal evolution, the strength of which varied between loci. Simulations replicated the stable frequency of lineages unperturbed by vaccination, patterns of serotype switching and clonal replacement. This framework highlights how bacterial ecology affects the impact of clinical interventions.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.