Whole‐genome re‐sequencing provides key genomic insights in farmed Arctic charr ( Salvelinus alpinus) populations of anadromous and landlocked origin from Scandinavia
Abstract Arctic charr ( Salvelinus alpinus ) is a niche‐market high‐value species for Nordic aquaculture. Similar to other salmonids, both anadromous and landlocked populations are encountered. Whole‐genome re‐sequencing (22X coverage) was performed on two farmed populations of anadromous (Sigerfjor...
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Online Access: | http://dx.doi.org/10.1111/eva.13537 https://onlinelibrary.wiley.com/doi/pdf/10.1111/eva.13537 https://onlinelibrary.wiley.com/doi/full-xml/10.1111/eva.13537 |
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crwiley:10.1111/eva.13537 2024-06-02T08:00:03+00:00 Whole‐genome re‐sequencing provides key genomic insights in farmed Arctic charr ( Salvelinus alpinus) populations of anadromous and landlocked origin from Scandinavia Pappas, Fotis Kurta, Khrystyna Vanhala, Tytti Jeuthe, Henrik Hagen, Ørjan Beirão, José Palaiokostas, Christos Svenska Forskningsrådet Formas 2023 http://dx.doi.org/10.1111/eva.13537 https://onlinelibrary.wiley.com/doi/pdf/10.1111/eva.13537 https://onlinelibrary.wiley.com/doi/full-xml/10.1111/eva.13537 en eng Wiley http://creativecommons.org/licenses/by/4.0/ Evolutionary Applications volume 16, issue 4, page 797-813 ISSN 1752-4571 1752-4571 journal-article 2023 crwiley https://doi.org/10.1111/eva.13537 2024-05-03T12:01:02Z Abstract Arctic charr ( Salvelinus alpinus ) is a niche‐market high‐value species for Nordic aquaculture. Similar to other salmonids, both anadromous and landlocked populations are encountered. Whole‐genome re‐sequencing (22X coverage) was performed on two farmed populations of anadromous (Sigerfjord; n = 24) and landlocked (Arctic Superior; n = 24) origin from Norway and Sweden respectively. More than 5 million SNPs were used to study their genetic diversity and to scan for selection signatures. The two populations were clearly distinguished through principal component analysis, with the mean fixation index being ~0.12. Furthermore, the levels of genomic inbreeding estimated from runs of homozygosity were 6.23% and 8.66% for the Norwegian and the Swedish population respectively. Biological processes that could be linked to selection pressure associated primarily with the anadromous background and/or secondarily with domestication were suggested. Overall, our study provided insights regarding the genetic composition of two main strains of farmed Arctic charr from Scandinavia. At the same time, ample genomic resources were produced in the magnitude of millions of SNPs that could assist the transition of Nordic Arctic charr farming in the genomics era. Article in Journal/Newspaper Arctic charr Arctic Salvelinus alpinus Wiley Online Library Arctic Norway Sigerfjord ENVELOPE(15.512,15.512,68.644,68.644) Evolutionary Applications 16 4 797 813 |
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Open Polar |
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Wiley Online Library |
op_collection_id |
crwiley |
language |
English |
description |
Abstract Arctic charr ( Salvelinus alpinus ) is a niche‐market high‐value species for Nordic aquaculture. Similar to other salmonids, both anadromous and landlocked populations are encountered. Whole‐genome re‐sequencing (22X coverage) was performed on two farmed populations of anadromous (Sigerfjord; n = 24) and landlocked (Arctic Superior; n = 24) origin from Norway and Sweden respectively. More than 5 million SNPs were used to study their genetic diversity and to scan for selection signatures. The two populations were clearly distinguished through principal component analysis, with the mean fixation index being ~0.12. Furthermore, the levels of genomic inbreeding estimated from runs of homozygosity were 6.23% and 8.66% for the Norwegian and the Swedish population respectively. Biological processes that could be linked to selection pressure associated primarily with the anadromous background and/or secondarily with domestication were suggested. Overall, our study provided insights regarding the genetic composition of two main strains of farmed Arctic charr from Scandinavia. At the same time, ample genomic resources were produced in the magnitude of millions of SNPs that could assist the transition of Nordic Arctic charr farming in the genomics era. |
author2 |
Svenska Forskningsrådet Formas |
format |
Article in Journal/Newspaper |
author |
Pappas, Fotis Kurta, Khrystyna Vanhala, Tytti Jeuthe, Henrik Hagen, Ørjan Beirão, José Palaiokostas, Christos |
spellingShingle |
Pappas, Fotis Kurta, Khrystyna Vanhala, Tytti Jeuthe, Henrik Hagen, Ørjan Beirão, José Palaiokostas, Christos Whole‐genome re‐sequencing provides key genomic insights in farmed Arctic charr ( Salvelinus alpinus) populations of anadromous and landlocked origin from Scandinavia |
author_facet |
Pappas, Fotis Kurta, Khrystyna Vanhala, Tytti Jeuthe, Henrik Hagen, Ørjan Beirão, José Palaiokostas, Christos |
author_sort |
Pappas, Fotis |
title |
Whole‐genome re‐sequencing provides key genomic insights in farmed Arctic charr ( Salvelinus alpinus) populations of anadromous and landlocked origin from Scandinavia |
title_short |
Whole‐genome re‐sequencing provides key genomic insights in farmed Arctic charr ( Salvelinus alpinus) populations of anadromous and landlocked origin from Scandinavia |
title_full |
Whole‐genome re‐sequencing provides key genomic insights in farmed Arctic charr ( Salvelinus alpinus) populations of anadromous and landlocked origin from Scandinavia |
title_fullStr |
Whole‐genome re‐sequencing provides key genomic insights in farmed Arctic charr ( Salvelinus alpinus) populations of anadromous and landlocked origin from Scandinavia |
title_full_unstemmed |
Whole‐genome re‐sequencing provides key genomic insights in farmed Arctic charr ( Salvelinus alpinus) populations of anadromous and landlocked origin from Scandinavia |
title_sort |
whole‐genome re‐sequencing provides key genomic insights in farmed arctic charr ( salvelinus alpinus) populations of anadromous and landlocked origin from scandinavia |
publisher |
Wiley |
publishDate |
2023 |
url |
http://dx.doi.org/10.1111/eva.13537 https://onlinelibrary.wiley.com/doi/pdf/10.1111/eva.13537 https://onlinelibrary.wiley.com/doi/full-xml/10.1111/eva.13537 |
long_lat |
ENVELOPE(15.512,15.512,68.644,68.644) |
geographic |
Arctic Norway Sigerfjord |
geographic_facet |
Arctic Norway Sigerfjord |
genre |
Arctic charr Arctic Salvelinus alpinus |
genre_facet |
Arctic charr Arctic Salvelinus alpinus |
op_source |
Evolutionary Applications volume 16, issue 4, page 797-813 ISSN 1752-4571 1752-4571 |
op_rights |
http://creativecommons.org/licenses/by/4.0/ |
op_doi |
https://doi.org/10.1111/eva.13537 |
container_title |
Evolutionary Applications |
container_volume |
16 |
container_issue |
4 |
container_start_page |
797 |
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813 |
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1800744066364735488 |