ArticlePLoS genetics2022
Soft selective sweeps: Addressing new definitions, evaluating competing models, and interpreting empirical outliers.
Article in PLoS genetics, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed.
- Allelic gene conversion softens selective sweeps.Genetics · 2026Article
- Soft Selective Sweeps Predominate in the Yellow Fever Mosquito Aedes aegypti.Molecular biology and evolution · 2026Article
- Genomic Signatures of Microgeographic Adaptation in Anopheles coluzzii Across Urban, Rural, and Forested Environments in Gabon.Molecular ecology · 2026Article
- Towards an evolutionary baseline model ofbioRxiv : the preprint server for biology · 2025Article
- Signatures of soft selective sweeps predominate in the yellow fever mosquitobioRxiv : the preprint server for biology · 2025Article
- Article
- Museomics of an extinct European flat oyster population.Scientific reports · 2025Article
- Patterns of presence-absence variation of NLRs across populations of Solanum chilense are clade-dependent and mainly shaped by past demographic history.The New phytologist · 2025Article
- Population genetic considerations regarding the interpretation of within-patient SARS-CoV-2 polymorphism data.Nature communications · 2024Article
- iHDSel software: The price equation and the population stability index to detect genomic patterns compatible with selective sweeps. An example with SARS-CoV-2.Biology methods & protocols · 2024Article
- A Simulation Framework for Modeling the Within-Patient Evolutionary Dynamics of SARS-CoV-2.Genome biology and evolution · 2023Article
- Evaluating power to detect recurrent selective sweeps under increasingly realistic evolutionary null models.Evolution; international journal of organic evolution · 2023Article
- A simulation framework for modeling the within-patient evolutionary dynamics of SARS-CoV-2.bioRxiv : the preprint server for biology · 2023Article
- Evaluating power to detect recurrent selective sweeps under increasingly realistic evolutionary null models.bioRxiv : the preprint server for biology · 2023Article
- Developing an evolutionary baseline model for humans: jointly inferring purifying selection with population history.bioRxiv : the preprint server for biology · 2023Article
- Developing an appropriate evolutionary baseline model for the study of SARS-CoV-2 patient samples.PLoS pathogens · 2023Review
- Population genetic concerns related to the interpretation of empirical outliers and the neglect of common evolutionary processes.Heredity · 2023Article
- Admixture has obscured signals of historical hard sweeps in humans.Nature ecology & evolution · 2022Article
- How Can We Resolve Lewontin's Paradox?Genome biology and evolution · 2022Article
- On the prospect of achieving accurate joint estimation of selection with population history.Genome biology and evolution · 2022Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
The ability to accurately identify and quantify genetic signatures associated with soft selective sweeps based on patterns of nucleotide variation has remained controversial. We here provide counter viewpoints to recent publications in PLOS Genetics that have argued not only for the statistical identifiability of soft selective sweeps, but also for their pervasive evolutionary role in both Drosophila and HIV populations. We present evidence that these claims owe to a lack of consideration of competing evolutionary models, unjustified interpretations of empirical outliers, as well as to new definitions of the processes themselves. Our results highlight the dangers of fitting evolutionary models based on hypothesized and episodic processes without properly first considering common processes and, more generally, of the tendency in certain research areas to view pervasive positive selection as a foregone conclusion.
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