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  Genomics of divergence along a continuum of parapatric population differentiation

Feulner, P. G. D., Chain, F. J. J., Panchal, M., Huang, Y., Eizaguirre, C., Kalbe, M., et al. (2015). Genomics of divergence along a continuum of parapatric population differentiation. PLoS Genetics, 11(2): e1004966. doi:10.1371/journal.pgen.1004966.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-0025-04BB-2 Version Permalink: http://hdl.handle.net/11858/00-001M-0000-0025-04BC-F
Genre: Journal Article

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© 2015 Feulner et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited

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Description:
Speciation Genomics in Sticklebacks

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 Creators:
Feulner, Philine G. D.1, Author              
Chain, Frédéric J. J.1, Author              
Panchal, Mahesh1, Author              
Huang, Yun1, Author              
Eizaguirre, Christophe, Author
Kalbe, Martin1, Author              
Lenz, Tobias L.1, Author              
Samonte, Irene E.1, Author              
Stoll, Monika, Author
Bornberg-Bauer, Erich, Author
Reusch, Thorsten B. H., Author
Milinski, Manfred1, Author              
Affiliations:
1Department Evolutionary Ecology, Max Planck Institute for Evolutionary Biology, Max Planck Society, ou_1445634              

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Free keywords: Genome evolution; Lakes; Rivers; Gene flow; Population genetics; Comparative genomics; Evolutionary ecology; Fresh water
 Abstract: The patterns of genomic divergence during ecological speciation are shaped by a combination of evolutionary forces. Processes such as genetic drift, local reduction of gene flow around genes causing reproductive isolation, hitchhiking around selected variants, variation in recombination and mutation rates are all factors that can contribute to the heterogeneity of genomic divergence. On the basis of 60 fully sequenced three-spined stickleback genomes, we explore these different mechanisms explaining the heterogeneity of genomic divergence across five parapatric lake and river population pairs varying in their degree of genetic differentiation. We find that divergent regions of the genome are mostly specific for each population pair, while their size and abundance are not correlated with the extent of genome-wide population differentiation. In each pair-wise comparison, an analysis of allele frequency spectra reveals that 25–55% of the divergent regions are consistent with a local restriction of gene flow. Another large proportion of divergent regions (38–75%) appears to be mainly shaped by hitchhiking effects around positively selected variants. We provide empirical evidence that alternative mechanisms determining the evolution of genomic patterns of divergence are not mutually exclusive, but rather act in concert to shape the genome during population differentiation, a first necessary step towards ecological speciation. Authors Summary A variety of evolutionary forces influence the genomic landscape of divergence during ecological speciation. Here we characterize the evolution of genomic divergence patterns based on 60 fully sequenced three-spined stickleback genomes, contrasting lake and river populations that differ in parasite abundance. Our comparison of the size and abundance of divergent regions in the genomes across a continuum of population differentiation suggests that selection and the hitchhiking effect on neutral sites mainly contributes to the observed heterogeneous patterns of genomic divergence. Additional divergent regions of the genome can be explained by a local reduction of gene flow. Our description of genomic divergence patterns across a continuum of population differentiation combined with an analysis of molecular signatures of evolution highlights how adaptation shapes the differentiation of sticklebacks in freshwater habitats.

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Language(s): eng - English
 Dates: 2014-06-242014-12-192015-02-13
 Publication Status: Published online
 Pages: -
 Publishing info: -
 Table of Contents: -
 Rev. Method: Peer
 Identifiers: DOI: 10.1371/journal.pgen.1004966
 Degree: -

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Title: PLoS Genetics
  Other : PLoS Genet.
Source Genre: Journal
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Publ. Info: San Francisco, CA : Public Library of Science
Pages: 18 S. Volume / Issue: 11 (2) Sequence Number: e1004966 Start / End Page: - Identifier: ISSN: 1553-7390
CoNE: /journals/resource/1000000000017180