Phylogenomic approaches to detecting and characterizing introgression

This is a Preprint and has not been peer reviewed. The published version of this Preprint is available: https://doi.org/10.1093/genetics/iyab173. This is version 2 of this Preprint.

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Authors

Mark Hibbins, Matthew Hahn 

Abstract

Phylogenomics has revealed the remarkable frequency with which introgression occurs across the tree of life. These discoveries have been enabled by the rapid growth of methods designed to detect and characterize introgression from whole-genome sequencing data. A large class of phylogenomic methods makes use of data from one sample per species to infer introgression based on expectations from the multispecies coalescent. These methods range from simple tests, such as the D-statistic, to model-based approaches for inferring phylogenetic networks. Here, we provide a detailed overview of the various signals that different modes of introgression are expected leave in the genome, and how current methods are designed to detect them. We discuss the strengths and pitfalls of these approaches and identify areas for future development, highlighting the different signals of introgression and the power of each method to detect them. We conclude with a discussion of current challenges in inferring introgression and how they could potentially be addressed.

DOI

https://doi.org/10.32942/osf.io/uahd8

Subjects

Ecology and Evolutionary Biology, Evolution, Life Sciences

Keywords

hybridization, introgression, Methodology, phylogenomics, review

Dates

Published: 2021-02-08 11:49

Last Updated: 2021-07-16 10:08

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License

CC-By Attribution-ShareAlike 4.0 International