Phylogenomics reveals ancient and contemporary gene flow contributing to the evolutionary history of sea ducks (Tribe Mergini)
Insight into complex evolutionary histories continues to build through broad comparative phylogenomic and population genomic studies. In particular, there is a need to understand the extent and scale that gene flow contributes to standing genomic diversity and the role introgression has played in ev...
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ftunivnebraskali:oai:digitalcommons.unl.edu:ncfwrustaff-1312 |
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record_format |
openpolar |
institution |
Open Polar |
collection |
University of Nebraska-Lincoln: DigitalCommons@UNL |
op_collection_id |
ftunivnebraskali |
language |
unknown |
topic |
Evolution Hybridization Phylogenetics Population genetics Sea ducks Animal Sciences Aquaculture and Fisheries Environmental Indicators and Impact Assessment Environmental Monitoring Environmental Sciences Natural Resource Economics Natural Resources and Conservation Water Resource Management |
spellingShingle |
Evolution Hybridization Phylogenetics Population genetics Sea ducks Animal Sciences Aquaculture and Fisheries Environmental Indicators and Impact Assessment Environmental Monitoring Environmental Sciences Natural Resource Economics Natural Resources and Conservation Water Resource Management Lavretsky, Philip Wilson, Robert E. Talbot, Sandra L. Sonsthagen, Sarah A. Phylogenomics reveals ancient and contemporary gene flow contributing to the evolutionary history of sea ducks (Tribe Mergini) |
topic_facet |
Evolution Hybridization Phylogenetics Population genetics Sea ducks Animal Sciences Aquaculture and Fisheries Environmental Indicators and Impact Assessment Environmental Monitoring Environmental Sciences Natural Resource Economics Natural Resources and Conservation Water Resource Management |
description |
Insight into complex evolutionary histories continues to build through broad comparative phylogenomic and population genomic studies. In particular, there is a need to understand the extent and scale that gene flow contributes to standing genomic diversity and the role introgression has played in evolutionary processes such as hybrid speciation. Here, we investigate the evolutionary history of the Mergini tribe (sea ducks) by coupling multi-species comparisons with phylogenomic analyses of thousands of nuclear ddRAD-seq loci, including Z-sex chromosome and autosomal linked loci, and the mitogenome assayed across all extant sea duck species in North America. All sea duck species are strongly structured across all sampled marker types (pair-wise species ΦST > 0.2), with clear genetic assignments of individuals to their respective species, and phylogenetic relationships recapitulate known relationships. Despite strong species integrity, we identify at least 18 putative hybrids; with all but one being late generational backcrosses. Most interesting, we provide the first evidence that an ancestral gene flow event between long-tailed ducks (Clangula hyemalis) and true Eiders (Somateria spp.) not only moved genetic material into the former species, but likely generated a novel species — the Steller’s eider (Polysticta stelleri) — via hybrid speciation. Despite generally low contemporary levels of gene flow, we conclude that hybridization has and continues to be an important process that shifts novel genetic variation between species within the tribe Mergini. Finally, we outline methods that permit researchers to contrast genomic patterns of contemporary versus ancestral gene flow when attempting to reconstruct potentially complex evolutionary histories. |
format |
Text |
author |
Lavretsky, Philip Wilson, Robert E. Talbot, Sandra L. Sonsthagen, Sarah A. |
author_facet |
Lavretsky, Philip Wilson, Robert E. Talbot, Sandra L. Sonsthagen, Sarah A. |
author_sort |
Lavretsky, Philip |
title |
Phylogenomics reveals ancient and contemporary gene flow contributing to the evolutionary history of sea ducks (Tribe Mergini) |
title_short |
Phylogenomics reveals ancient and contemporary gene flow contributing to the evolutionary history of sea ducks (Tribe Mergini) |
title_full |
Phylogenomics reveals ancient and contemporary gene flow contributing to the evolutionary history of sea ducks (Tribe Mergini) |
title_fullStr |
Phylogenomics reveals ancient and contemporary gene flow contributing to the evolutionary history of sea ducks (Tribe Mergini) |
title_full_unstemmed |
Phylogenomics reveals ancient and contemporary gene flow contributing to the evolutionary history of sea ducks (Tribe Mergini) |
title_sort |
phylogenomics reveals ancient and contemporary gene flow contributing to the evolutionary history of sea ducks (tribe mergini) |
publisher |
DigitalCommons@University of Nebraska - Lincoln |
publishDate |
2021 |
url |
https://digitalcommons.unl.edu/ncfwrustaff/311 https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals.pdf https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/filename/0/type/additional/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals_SUPPL_1.xlsx https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/filename/1/type/additional/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals_SUPPL_2.xlsx https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/filename/2/type/additional/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals_SUPPL_3.xlsx https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/filename/3/type/additional/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals_SUPPL_4.docx https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/filename/4/type/additional/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals_SUPPL_5.xlsx |
genre |
Polysticta stelleri steller’s eider |
genre_facet |
Polysticta stelleri steller’s eider |
op_source |
Nebraska Cooperative Fish & Wildlife Research Unit -- Staff Publications |
op_relation |
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1782339393633124352 |
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ftunivnebraskali:oai:digitalcommons.unl.edu:ncfwrustaff-1312 2023-11-12T04:24:58+01:00 Phylogenomics reveals ancient and contemporary gene flow contributing to the evolutionary history of sea ducks (Tribe Mergini) Lavretsky, Philip Wilson, Robert E. Talbot, Sandra L. Sonsthagen, Sarah A. 2021-01-01T08:00:00Z application/pdf https://digitalcommons.unl.edu/ncfwrustaff/311 https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals.pdf https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/filename/0/type/additional/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals_SUPPL_1.xlsx https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/filename/1/type/additional/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals_SUPPL_2.xlsx https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/filename/2/type/additional/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals_SUPPL_3.xlsx https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/filename/3/type/additional/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals_SUPPL_4.docx https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/filename/4/type/additional/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals_SUPPL_5.xlsx unknown DigitalCommons@University of Nebraska - Lincoln https://digitalcommons.unl.edu/ncfwrustaff/311 https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals.pdf https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/filename/0/type/additional/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals_SUPPL_1.xlsx https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/filename/1/type/additional/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals_SUPPL_2.xlsx https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/filename/2/type/additional/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals_SUPPL_3.xlsx https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/filename/3/type/additional/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals_SUPPL_4.docx https://digitalcommons.unl.edu/context/ncfwrustaff/article/1312/filename/4/type/additional/viewcontent/Lavretsky_MPE_2021_Phylogenomics_reveals_SUPPL_5.xlsx Nebraska Cooperative Fish & Wildlife Research Unit -- Staff Publications Evolution Hybridization Phylogenetics Population genetics Sea ducks Animal Sciences Aquaculture and Fisheries Environmental Indicators and Impact Assessment Environmental Monitoring Environmental Sciences Natural Resource Economics Natural Resources and Conservation Water Resource Management text 2021 ftunivnebraskali 2023-10-30T12:08:11Z Insight into complex evolutionary histories continues to build through broad comparative phylogenomic and population genomic studies. In particular, there is a need to understand the extent and scale that gene flow contributes to standing genomic diversity and the role introgression has played in evolutionary processes such as hybrid speciation. Here, we investigate the evolutionary history of the Mergini tribe (sea ducks) by coupling multi-species comparisons with phylogenomic analyses of thousands of nuclear ddRAD-seq loci, including Z-sex chromosome and autosomal linked loci, and the mitogenome assayed across all extant sea duck species in North America. All sea duck species are strongly structured across all sampled marker types (pair-wise species ΦST > 0.2), with clear genetic assignments of individuals to their respective species, and phylogenetic relationships recapitulate known relationships. Despite strong species integrity, we identify at least 18 putative hybrids; with all but one being late generational backcrosses. Most interesting, we provide the first evidence that an ancestral gene flow event between long-tailed ducks (Clangula hyemalis) and true Eiders (Somateria spp.) not only moved genetic material into the former species, but likely generated a novel species — the Steller’s eider (Polysticta stelleri) — via hybrid speciation. Despite generally low contemporary levels of gene flow, we conclude that hybridization has and continues to be an important process that shifts novel genetic variation between species within the tribe Mergini. Finally, we outline methods that permit researchers to contrast genomic patterns of contemporary versus ancestral gene flow when attempting to reconstruct potentially complex evolutionary histories. Text Polysticta stelleri steller’s eider University of Nebraska-Lincoln: DigitalCommons@UNL |