How Linked Selection Shapes the Diversity Landscape in Ficedula Flycatchers

Genetics
Agnes RettelbachHans Ellegren

Abstract

There is an increasing awareness that selection affecting linked neutral sites strongly influences on how diversity is distributed across the genome. In particular, linked selection is likely involved in the formation of heterogenous landscapes of genetic diversity, including genomic regions with locally reduced effective population sizes that manifest as dips in diversity, and "islands" of differentiation between closely related populations or species. Linked selection can be in the form of background selection or selective sweeps, and a long-standing quest in population genetics has been to unveil the relative importance of these processes. Here, we analyzed the theoretically expected reduction of diversity caused by linked selection in the collared flycatcher (Ficedula albicollis) genome and compared this with population genomic data on the distribution of diversity across the flycatcher genome. By incorporating data on recombination rate variation and the density of target sites for selection (including both protein-coding genes and conserved noncoding elements), we found that background selection can explain most of the observed baseline variation in genetic diversity. However, positive selection was necessary to explain t...Continue Reading

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Citations

Sep 11, 2019·Molecular Biology and Evolution·Tuomas HämäläPeter Tiffin
Jan 25, 2020·G3 : Genes - Genomes - Genetics·Matthew Hartfield, Thomas Bataillon
Feb 20, 2020·Genetics·Raul TorresJeffrey Ross-Ibarra
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Jun 29, 2021·Evolutionary Applications·Samarth Mathur, J Andrew DeWoody
Oct 13, 2021·The New Phytologist·Yi-Ye LiangBaosheng Wang

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Software Mentioned

fwdpp
ANGSD
Ensembl

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