Covariation in levels of nucleotide diversity in homologous regions of the avian genome long after completion of lineage sorting

© 2017 The Authors.

Bibliographic Details
Published in:Proceedings. Biological sciences, Vol. 284, No. 1849 (2017)
Main Author: Dutoit, Ludovic (Author)
Other Involved Persons: Vijay, Nagarjun ; Mugal, Carina F ; Bossu, Christen M ; Burri, Reto ; Wolf, Jochen ; Ellegren, Hans
Format: electronic Article
Language:English
ISSN:1471-2954
Item Description:Date Completed 31.01.2018
Date Revised 02.12.2018
published: Print
Citation Status MEDLINE
Copyright: From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
Physical Description:Online-Ressource
DOI:10.1098/rspb.2016.2756
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Description:
  • © 2017 The Authors.
  • Closely related species may show similar levels of genetic diversity in homologous regions of the genome owing to shared ancestral variation still segregating in the extant species. However, after completion of lineage sorting, such covariation is not necessarily expected. On the other hand, if the processes that govern genetic diversity are conserved, diversity may potentially covary even among distantly related species. We mapped regions of conserved synteny between the genomes of two divergent bird species-collared flycatcher and hooded crow-and identified more than 600 Mb of homologous regions (66% of the genome). From analyses of whole-genome resequencing data in large population samples of both species we found nucleotide diversity in 200 kb windows to be well correlated (Spearman's ρ = 0.407). The correlation remained highly similar after excluding coding sequences. To explain this covariation, we suggest that a stable avian karyotype and a conserved landscape of recombination rate variation render the diversity-reducing effects of linked selection similar in divergent bird lineages. Principal component regression analysis of several potential explanatory variables driving heterogeneity in flycatcher diversity levels revealed the strongest effects from recombination rate variation and density of coding sequence targets for selection, consistent with linked selection. It is also possible that a stable karyotype is associated with a conserved genomic mutation environment contributing to covariation in diversity levels between lineages. Our observations imply that genetic diversity is to some extent predictable