The effects of introgression across thousands of quantitative traits revealed by gene expression in wild tomatoes.

It is now understood that introgression can serve as powerful evolutionary force, providing genetic variation that can shape the course of trait evolution. Introgression also induces a shared evolutionary history that is not captured by the species phylogeny, potentially complicating evolutionary an...

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Autores principales:	Mark S Hibbins, Matthew W Hahn
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2021
Materias:	Genetics QH426-470
Acceso en línea:	https://doaj.org/article/71803bbefe1f47018779e0c3c509a489
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spelling	oai:doaj.org-article:71803bbefe1f47018779e0c3c509a4892021-12-02T20:03:16ZThe effects of introgression across thousands of quantitative traits revealed by gene expression in wild tomatoes.1553-73901553-740410.1371/journal.pgen.1009892https://doaj.org/article/71803bbefe1f47018779e0c3c509a4892021-11-01T00:00:00Zhttps://doi.org/10.1371/journal.pgen.1009892https://doaj.org/toc/1553-7390https://doaj.org/toc/1553-7404It is now understood that introgression can serve as powerful evolutionary force, providing genetic variation that can shape the course of trait evolution. Introgression also induces a shared evolutionary history that is not captured by the species phylogeny, potentially complicating evolutionary analyses that use a species tree. Such analyses are often carried out on gene expression data across species, where the measurement of thousands of trait values allows for powerful inferences while controlling for shared phylogeny. Here, we present a Brownian motion model for quantitative trait evolution under the multispecies network coalescent framework, demonstrating that introgression can generate apparently convergent patterns of evolution when averaged across thousands of quantitative traits. We test our theoretical predictions using whole-transcriptome expression data from ovules in the wild tomato genus Solanum. Examining two sub-clades that both have evidence for post-speciation introgression, but that differ substantially in its magnitude, we find patterns of evolution that are consistent with histories of introgression in both the sign and magnitude of ovule gene expression. Additionally, in the sub-clade with a higher rate of introgression, we observe a correlation between local gene tree topology and expression similarity, implicating a role for introgressed cis-regulatory variation in generating these broad-scale patterns. Our results reveal a general role for introgression in shaping patterns of variation across many thousands of quantitative traits, and provide a framework for testing for these effects using simple model-informed predictions.Mark S HibbinsMatthew W HahnPublic Library of Science (PLoS)articleGeneticsQH426-470ENPLoS Genetics, Vol 17, Iss 11, p e1009892 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Genetics QH426-470
spellingShingle	Genetics QH426-470 Mark S Hibbins Matthew W Hahn The effects of introgression across thousands of quantitative traits revealed by gene expression in wild tomatoes.
description	It is now understood that introgression can serve as powerful evolutionary force, providing genetic variation that can shape the course of trait evolution. Introgression also induces a shared evolutionary history that is not captured by the species phylogeny, potentially complicating evolutionary analyses that use a species tree. Such analyses are often carried out on gene expression data across species, where the measurement of thousands of trait values allows for powerful inferences while controlling for shared phylogeny. Here, we present a Brownian motion model for quantitative trait evolution under the multispecies network coalescent framework, demonstrating that introgression can generate apparently convergent patterns of evolution when averaged across thousands of quantitative traits. We test our theoretical predictions using whole-transcriptome expression data from ovules in the wild tomato genus Solanum. Examining two sub-clades that both have evidence for post-speciation introgression, but that differ substantially in its magnitude, we find patterns of evolution that are consistent with histories of introgression in both the sign and magnitude of ovule gene expression. Additionally, in the sub-clade with a higher rate of introgression, we observe a correlation between local gene tree topology and expression similarity, implicating a role for introgressed cis-regulatory variation in generating these broad-scale patterns. Our results reveal a general role for introgression in shaping patterns of variation across many thousands of quantitative traits, and provide a framework for testing for these effects using simple model-informed predictions.
format	article
author	Mark S Hibbins Matthew W Hahn
author_facet	Mark S Hibbins Matthew W Hahn
author_sort	Mark S Hibbins
title	The effects of introgression across thousands of quantitative traits revealed by gene expression in wild tomatoes.
title_short	The effects of introgression across thousands of quantitative traits revealed by gene expression in wild tomatoes.
title_full	The effects of introgression across thousands of quantitative traits revealed by gene expression in wild tomatoes.
title_fullStr	The effects of introgression across thousands of quantitative traits revealed by gene expression in wild tomatoes.
title_full_unstemmed	The effects of introgression across thousands of quantitative traits revealed by gene expression in wild tomatoes.
title_sort	effects of introgression across thousands of quantitative traits revealed by gene expression in wild tomatoes.
publisher	Public Library of Science (PLoS)
publishDate	2021
url	https://doaj.org/article/71803bbefe1f47018779e0c3c509a489
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The effects of introgression across thousands of quantitative traits revealed by gene expression in wild tomatoes.

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