ArticleThe ISME journal2021
Negative frequency-dependent selection and asymmetrical transformation stabilise multi-strain bacterial population structures.
Article in The ISME journal, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers, 1 of them a synthesis that pooled it.
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Who cites it
22 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Analysing pneumococcal invasiveness using Bayesian models of pathogen progression rates.PLoS computational biology · 2022Pooled it
- A reusable model of pangenome selection informs optimal surveillance strategies over vaccine introductions.Genome medicine · 2026Article
- Genomic perplexity and the evolution of context-dependent function.Molecular biology and evolution · 2026Article
- Epistasis mediates the role of negative frequency-dependent selection in bacterial strain structure.PLoS computational biology · 2026Article
- Negative Frequency-Dependent Selection Promotes Strain Structure in a Plant Pathogen.Ecology letters · 2026Article
- Biology of host-dependent restriction-modification in prokaryotes.EcoSal Plus · 2025Review
- A metabolic atlas of the Klebsiella pneumoniae species complex reveals lineage-specific metabolism and capacity for intra-species co-operation.PLoS biology · 2025Article
- Horizontal gene transfer, segregation loss, and the speed of microbial adaptation.Evolution letters · 2025Article
- Article
- Linkage-based ortholog refinement in bacterial pangenomes with CLARC.Nucleic acids research · 2025Article
- Detecting co-selection through excess linkage disequilibrium in bacterial genomes.NAR genomics and bioinformatics · 2024Article
- Convergent impact of vaccination and antibiotic pressures on pneumococcal populations.Cell chemical biology · 2024Review
- The re-emergence of sexually transmissible multidrug resistantnpj antimicrobials and resistance · 2024Article
- Accurate and fast graph-based pangenome annotation and clustering with ggCaller.Genome research · 2023Article
- Metabolic cooperation between conspecific genotypic groups contributes to bacterial fitness.ISME communications · 2023Article
- Prokaryotic Pangenomes Act as Evolving Ecosystems.Molecular biology and evolution · 2023Article
- Genomics and pathotypes of the many faces of Escherichia coli.FEMS microbiology reviews · 2022Article
- Permissive aggregative group formation favors coexistence between cooperators and defectors in yeast.The ISME journal · 2022Article
- Signatures of selection in core and accessory genomes indicate different ecological drivers of diversification among Bacillus cereus clades.Molecular ecology · 2022Article
- The role of interspecies recombination in the evolution of antibiotic-resistant pneumococci.eLife · 2021Article
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7 authors.
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Abstract
Streptococcus pneumoniae can be divided into many strains, each a distinct set of isolates sharing similar core and accessory genomes, which co-circulate within the same hosts. Previous analyses suggested the short-term vaccine-associated dynamics of S. pneumoniae strains may be mediated through multi-locus negative frequency-dependent selection (NFDS), which maintains accessory loci at equilibrium frequencies. Long-term simulations demonstrated NFDS stabilised clonally-evolving multi-strain populations through preventing the loss of variation through drift, based on polymorphism frequencies, pairwise genetic distances and phylogenies. However, allowing symmetrical recombination between isolates evolving under multi-locus NFDS generated unstructured populations of diverse genotypes. Replication of the observed data improved when multi-locus NFDS was combined with recombination that was instead asymmetrical, favouring deletion of accessory loci over insertion. This combination separated populations into strains through outbreeding depression, resulting from recombinants with reduced accessory genomes having lower fitness than their parental genotypes. Although simplistic modelling of recombination likely limited these simulations' ability to maintain some properties of genomic data as accurately as those lacking recombination, the combination of asymmetrical recombination and multi-locus NFDS could restore multi-strain population structures from randomised initial populations. As many bacteria inhibit insertions into their chromosomes, this combination may commonly underlie the co-existence of strains within a niche.
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