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Powerful methods for detecting introgressed regions from population genomic data.

Benjamin K Rosenzweig¹, James B Pease^1,2, Nora J Besansky^3,4

¹School of Informatics and Computing, Indiana University, Bloomington, IN, 47405, USA.

Molecular Ecology

|March 7, 2016

Summary

This summary is machine-generated.

We developed a new method, RNDmin, to detect gene flow between species. This method identified three new regions of introgression in African mosquitoes, revealing rare allele sharing between species.

Keywords:

adaptation bioinfomatics genomics population genetics speciation

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Area of Science:

Population genomics
Molecular evolution
Speciation research

Background:

Understanding gene flow across species boundaries is crucial for explaining how species remain distinct.
Next-generation sequencing enables genome-wide detection of introgression signatures.

Purpose of the Study:

Introduce RNDmin, a novel summary statistic for detecting introgression.
Evaluate RNDmin's power and robustness compared to existing methods.
Apply RNDmin to identify introgressed regions in Anopheles mosquitoes.

Main Methods:

Developed RNDmin statistic using minimum pairwise sequence distance relative to divergence.
Tested RNDmin's power and robustness against mutation rate variation and divergence time inaccuracies.
Applied RNDmin to population genomic data of Anopheles quadriannulatus and Anopheles arabiensis.

Main Results:

RNDmin offers a modest increase in power for detecting introgression.
All tested methods show high power for recent and strong migration events.
Identified three novel candidate regions for introgression in Anopheles mosquitoes, including one on the X chromosome outside a known inversion.

Conclusions:

Significant, albeit rare, allele sharing occurs between Anopheles species diverging over 1 million years ago.
RNDmin is a reliable tool for detecting introgression, robust to mutation rate and divergence time variations.
The application of such methods to other systems is expected to yield similar findings on interspecies gene flow.