English (United Kingdom)

https://curated-unify.zendy.io/wp-json/zendy-region/v1/featured_content/oa?rat=en

https://curated-unify.zendy.io/wp-json/zendy-region/v1/highlighted_journal/

Global: Zendy Plus annual

Presents the access of premium content as premium feature

Premium Content

Presents the keyphrase highlighting as premium feature

Keyphrase Highlighting

Presents the summarisation as premium feature

Summarisation

Insights

Presents the pdf analysis as premium feature

PDF Analysis

Presents the zaia usage as premium feature

ZAIA

Global: Zendy Plus monthly

Global: Zendy Tools annual

Global: Zendy Tools monthly

Global: Zendy Free Plan

The isolation-with-migration (IM) model is a common tool to make inferencesabout the presence of gene flow during speciation, using polymorphism data.However, Becquet and Przeworski (2009) report that the parameter estimatesobtained by fitting the IM model are very sensitive to the model's assumptions,including the assumption of constant gene flow until the present. This paper isconcerned with the isolation-with-initial-migration (IIM) model ofWilkinson-Herbots (2012), which drops precisely this assumption. In the IIMmodel, one ancestral population divides into two descendant subpopulations,between which there is an initial period of gene flow and a subsequent periodof isolation. We derive a fast method of fitting an extended version of the IIMmodel, which allows for asymmetric gene flow and unequal subpopulation sizes.This is a maximum-likelihood method, applicable to observations on the numberof different sites between pairs of DNA sequences from a large number ofindependent loci. In addition to obtaining parameter estimates, our method canalso be used to distinguish between alternative models representing differentevolutionary cenarios, by means of likelihood ratio tests. We illustrate theprocedure on pairs of Drosophila sequences from approximately 30,000 loci. Thecomputing time needed to fit the most complex version of the model to this dataset is only a couple of minutes. The code to fit the IIM model can be found inthe supplementary files of this paper.

Efficient Maximum-Likelihood Inference For The Isolation-With-Initial-Migration Model With Potentially Asymmetric Gene Flow