University of Oulu

Tiina M. Mattila, Jaakko Tyrmi, Tanja Pyhäjärvi, Outi Savolainen, Genome-Wide Analysis of Colonization History and Concomitant Selection in Arabidopsis lyrata, Molecular Biology and Evolution, Volume 34, Issue 10, October 2017, Pages 2665–2677, https://doi.org/10.1093/molbev/msx193

Genome-wide analysis of colonization history and concomitant selection in Arabidopsis lyrata

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Author: Mattila, Tiina M.1; Tyrmi, Jaakko1,2; Pyhäjärvi, Tanja1,2;
Organizations: 1Department of Ecology and Genetics, University of Oulu, 90014 Oulu, Finland
2Biocenter Oulu, University of Oulu, Oulu, Finland
Format: article
Version: accepted version
Access: open
Online Access: PDF Full Text (PDF, 2.2 MB)
Persistent link: http://urn.fi/urn:nbn:fi-fe2019040411070
Language: English
Published: Oxford University Press, 2017
Publish Date: 2019-04-04
Description:

Abstract

The high climatic variability in the past hundred thousand years has affected the demographic and adaptive processes in many species, especially in boreal and temperate regions undergoing glacial cycles. This has also influenced the patterns of genome-wide nucleotide variation, but the details of these effects are largely unknown. Here we study the patterns of genome-wide variation to infer colonization history and patterns of selection of the perennial herb species Arabidopsis lyrata, in locally adapted populations from different parts of its distribution range (Germany, UK, Norway, Sweden, and USA) representing different environmental conditions. Using site frequency spectra based demographic modeling, we found strong reduction in the effective population size of the species in general within the past 100,000 years, with more pronounced effects in the colonizing populations. We further found that the northwestern European A. lyrata populations (UK and Scandinavian) are more closely related to each other than with the Central European populations, and coalescent based population split modeling suggests that western European and Scandinavian populations became isolated relatively recently after the glacial retreat. We also highlighted loci showing evidence for local selection associated with the Scandinavian colonization. The results presented here give new insights into postglacial Scandinavian colonization history and its genome-wide effects.

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Series: Molecular biology and evolution
ISSN: 0737-4038
ISSN-E: 1537-1719
ISSN-L: 0737-4038
Volume: 34
Issue: 10
Pages: 2665 - 2677
DOI: 10.1093/molbev/msx193
OADOI: https://oadoi.org/10.1093/molbev/msx193
Type of Publication: A1 Journal article – refereed
Field of Science: 1184 Genetics, developmental biology, physiology
3111 Biomedicine
Subjects:
Funding: This work was financially supported by the Population Genetics Doctoral Programme (Academy of Finland) and the Emil Aaltonen Foundation (to T.M.M); the Research council for Biosciences of Finland (decision 132611 to O.S.) and Biocenter Oulu (to O.S). The University of Oulu graduate school (UniOGS) and the Population Genetics Doctoral Programme (Academy of Finland) are acknowledged for travel grants to T.M.M.
Copyright information: © The Author 2017. This is a pre-copyedited, author-produced version of an article accepted for publication in Molecular Biology and Evolution following peer review. The version of record Tiina M. Mattila, Jaakko Tyrmi, Tanja Pyhäjärvi, Outi Savolainen, Genome-Wide Analysis of Colonization History and Concomitant Selection in Arabidopsis lyrata, Molecular Biology and Evolution, Volume 34, Issue 10, October 2017, Pages 2665–2677, is available online at: https://doi.org/10.1093/molbev/msx193