Quantifying nearly neutral - PDF version.pdf (1.23 MB)
Nearly neutral evolution across the Drosophila melanogaster genome
journal contribution
posted on 2023-06-09, 15:57 authored by David Castellano, Jennifer James, Adam Eyre-WalkerAdam Eyre-WalkerUnder the nearly neutral theory of molecular evolution, the proportion of effectively neutral mutations is expected to depend upon the effective population size (Ne). Here, we investigate whether this is the case across the genome of Drosophila melanogaster using polymorphism data from North American and African lines. We show that the ratio of the number of nonsynonymous and synonymous polymorphisms is negatively correlated to the number of synonymous polymorphisms, even when the nonindependence is accounted for. The relationship is such that the proportion of effectively neutral nonsynonymous mutations increases by ~45% as Ne is halved. However, we also show that this relationship is steeper than expected from an independent estimate of the distribution of fitness effects from the site frequency spectrum. We investigate a number of potential explanations for this and show, using simulation, that this is consistent with a model of genetic hitchhiking: Genetic hitchhiking depresses diversity at neutral and weakly selected sites, but has little effect on the diversity of strongly selected sites.
History
Publication status
- Published
File Version
- Accepted version
Journal
Molecular Biology and EvolutionISSN
0737-4038Publisher
Oxford University PressExternal DOI
Issue
11Volume
35Page range
2685-2694Department affiliated with
- Evolution, Behaviour and Environment Publications
Full text available
- Yes
Peer reviewed?
- Yes
Contributors
Ryan HernandezLegacy Posted Date
2018-11-20First Open Access (FOA) Date
2019-08-24First Compliant Deposit (FCD) Date
2018-11-19Usage metrics
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