Data from: Region-wide and ecotype-specific differences in demographic histories of threespine stickleback populations, estimated from whole genome sequences
We analysed 81 whole genome sequences of threespine sticklebacks from Pacific North America, Greenland and Northern Europe, representing 16 populations. Principal component analysis of nuclear SNPs grouped populations according to geographical location, with Pacific populations being more divergent...
Main Authors: | , , |
---|---|
Language: | unknown |
Published: |
2016
|
Subjects: | |
Online Access: | http://nbn-resolving.org/urn:nbn:nl:ui:13-a5-kqsj https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:95016 |
id |
ftdans:oai:easy.dans.knaw.nl:easy-dataset:95016 |
---|---|
record_format |
openpolar |
spelling |
ftdans:oai:easy.dans.knaw.nl:easy-dataset:95016 2023-07-02T03:32:25+02:00 Data from: Region-wide and ecotype-specific differences in demographic histories of threespine stickleback populations, estimated from whole genome sequences Liu, Shenglin Hansen, Michael M. Jacobsen, Magnus W. 2016-08-29T16:02:25.000+02:00 http://nbn-resolving.org/urn:nbn:nl:ui:13-a5-kqsj https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:95016 unknown doi:10.5061/dryad.46fb1/1 doi:10.5061/dryad.46fb1/2 doi:10.1111/mec.13827 PMID:27569902 http://nbn-resolving.org/urn:nbn:nl:ui:13-a5-kqsj doi:10.5061/dryad.46fb1 https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:95016 OPEN_ACCESS: The data are archived in Easy, they are accessible elsewhere through the DOI https://dans.knaw.nl/en/about/organisation-and-policy/legal-information/DANSLicence.pdf Life sciences medicine and health care 2016 ftdans https://doi.org/10.5061/dryad.46fb1/110.5061/dryad.46fb1/210.1111/mec.1382710.5061/dryad.46fb1 2023-06-13T12:40:33Z We analysed 81 whole genome sequences of threespine sticklebacks from Pacific North America, Greenland and Northern Europe, representing 16 populations. Principal component analysis of nuclear SNPs grouped populations according to geographical location, with Pacific populations being more divergent from each other relative to European and Greenlandic populations. Analysis of mitogenome sequences showed Northern European populations to represent a single phylogeographical lineage, whereas Greenlandic and particularly Pacific populations showed admixture between lineages. We estimated demographic history using a genomewide coalescence with recombination approach. The Pacific populations showed gradual population expansion starting >100 Kya, possibly reflecting persistence in cryptic refuges near the present distributional range, although we do not rule out possible influence of ancient admixture. Sharp population declines ca. 14–15 Kya were suggested to reflect founding of freshwater populations by marine ancestors. In Greenland and Northern Europe, demographic expansion started ca. 20–25 Kya coinciding with the end of the Last Glacial Maximum. In both regions, marine and freshwater populations started to show different demographic trajectories ca. 8–9 Kya, suggesting that this was the time of recolonization. In Northern Europe, this estimate was surprisingly late, but found support in subfossil evidence for presence of several freshwater fish species but not sticklebacks 12 Kya. The results demonstrate distinctly different demographic histories across geographical regions with potential consequences for adaptive processes. They also provide empirical support for previous assumptions about freshwater populations being founded independently from large, coherent marine populations, a key element in the Transporter Hypothesis invoked to explain the widespread occurrence of parallel evolution across freshwater stickleback populations. Other/Unknown Material Greenland greenlandic Data Archiving and Networked Services (DANS): EASY (KNAW - Koninklijke Nederlandse Akademie van Wetenschappen) Greenland Pacific Kya ENVELOPE(8.308,8.308,63.772,63.772) |
institution |
Open Polar |
collection |
Data Archiving and Networked Services (DANS): EASY (KNAW - Koninklijke Nederlandse Akademie van Wetenschappen) |
op_collection_id |
ftdans |
language |
unknown |
topic |
Life sciences medicine and health care |
spellingShingle |
Life sciences medicine and health care Liu, Shenglin Hansen, Michael M. Jacobsen, Magnus W. Data from: Region-wide and ecotype-specific differences in demographic histories of threespine stickleback populations, estimated from whole genome sequences |
topic_facet |
Life sciences medicine and health care |
description |
We analysed 81 whole genome sequences of threespine sticklebacks from Pacific North America, Greenland and Northern Europe, representing 16 populations. Principal component analysis of nuclear SNPs grouped populations according to geographical location, with Pacific populations being more divergent from each other relative to European and Greenlandic populations. Analysis of mitogenome sequences showed Northern European populations to represent a single phylogeographical lineage, whereas Greenlandic and particularly Pacific populations showed admixture between lineages. We estimated demographic history using a genomewide coalescence with recombination approach. The Pacific populations showed gradual population expansion starting >100 Kya, possibly reflecting persistence in cryptic refuges near the present distributional range, although we do not rule out possible influence of ancient admixture. Sharp population declines ca. 14–15 Kya were suggested to reflect founding of freshwater populations by marine ancestors. In Greenland and Northern Europe, demographic expansion started ca. 20–25 Kya coinciding with the end of the Last Glacial Maximum. In both regions, marine and freshwater populations started to show different demographic trajectories ca. 8–9 Kya, suggesting that this was the time of recolonization. In Northern Europe, this estimate was surprisingly late, but found support in subfossil evidence for presence of several freshwater fish species but not sticklebacks 12 Kya. The results demonstrate distinctly different demographic histories across geographical regions with potential consequences for adaptive processes. They also provide empirical support for previous assumptions about freshwater populations being founded independently from large, coherent marine populations, a key element in the Transporter Hypothesis invoked to explain the widespread occurrence of parallel evolution across freshwater stickleback populations. |
author |
Liu, Shenglin Hansen, Michael M. Jacobsen, Magnus W. |
author_facet |
Liu, Shenglin Hansen, Michael M. Jacobsen, Magnus W. |
author_sort |
Liu, Shenglin |
title |
Data from: Region-wide and ecotype-specific differences in demographic histories of threespine stickleback populations, estimated from whole genome sequences |
title_short |
Data from: Region-wide and ecotype-specific differences in demographic histories of threespine stickleback populations, estimated from whole genome sequences |
title_full |
Data from: Region-wide and ecotype-specific differences in demographic histories of threespine stickleback populations, estimated from whole genome sequences |
title_fullStr |
Data from: Region-wide and ecotype-specific differences in demographic histories of threespine stickleback populations, estimated from whole genome sequences |
title_full_unstemmed |
Data from: Region-wide and ecotype-specific differences in demographic histories of threespine stickleback populations, estimated from whole genome sequences |
title_sort |
data from: region-wide and ecotype-specific differences in demographic histories of threespine stickleback populations, estimated from whole genome sequences |
publishDate |
2016 |
url |
http://nbn-resolving.org/urn:nbn:nl:ui:13-a5-kqsj https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:95016 |
long_lat |
ENVELOPE(8.308,8.308,63.772,63.772) |
geographic |
Greenland Pacific Kya |
geographic_facet |
Greenland Pacific Kya |
genre |
Greenland greenlandic |
genre_facet |
Greenland greenlandic |
op_relation |
doi:10.5061/dryad.46fb1/1 doi:10.5061/dryad.46fb1/2 doi:10.1111/mec.13827 PMID:27569902 http://nbn-resolving.org/urn:nbn:nl:ui:13-a5-kqsj doi:10.5061/dryad.46fb1 https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:95016 |
op_rights |
OPEN_ACCESS: The data are archived in Easy, they are accessible elsewhere through the DOI https://dans.knaw.nl/en/about/organisation-and-policy/legal-information/DANSLicence.pdf |
op_doi |
https://doi.org/10.5061/dryad.46fb1/110.5061/dryad.46fb1/210.1111/mec.1382710.5061/dryad.46fb1 |
_version_ |
1770272002437808128 |