Shared ancestral polymorphism and chromosomal rearrangements as potential drivers of local adaptation in a marine fish
Gene flow has tremendous importance on local adaptation, by influencing the fate of de novo mutations, maintaining standing genetic variation, and driving adaptive introgression. Furthermore, structural variation as chromosomal rearrangements may facilitate adaptation despite high gene flow. However...
Published in: | Molecular Ecology |
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2020
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Online Access: | https://orbit.dtu.dk/en/publications/79dc19ac-0b4d-4eab-b769-aab709897a35 https://doi.org/10.1111/mec.15499 https://backend.orbit.dtu.dk/ws/files/215032317/BERAT_mec.15499.pdf |
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ftdtupubl:oai:pure.atira.dk:publications/79dc19ac-0b4d-4eab-b769-aab709897a35 2024-09-15T18:26:23+00:00 Shared ancestral polymorphism and chromosomal rearrangements as potential drivers of local adaptation in a marine fish Cayuela, Hugo Rougemont, Quentin Laporte, Martin Mérot, Claire Normandeau, Eric Dorant, Yann Tørresen, Ole K. Hoff, Siv Nam Khang Jentoft, Sissel Sirois, Pascal Castonguay, Martin Jansen, Teunis Praebel, Kim Clément, Marie Bernatchez, Louis 2020 application/pdf https://orbit.dtu.dk/en/publications/79dc19ac-0b4d-4eab-b769-aab709897a35 https://doi.org/10.1111/mec.15499 https://backend.orbit.dtu.dk/ws/files/215032317/BERAT_mec.15499.pdf eng eng https://orbit.dtu.dk/en/publications/79dc19ac-0b4d-4eab-b769-aab709897a35 info:eu-repo/semantics/openAccess Cayuela , H , Rougemont , Q , Laporte , M , Mérot , C , Normandeau , E , Dorant , Y , Tørresen , O K , Hoff , S N K , Jentoft , S , Sirois , P , Castonguay , M , Jansen , T , Praebel , K , Clément , M & Bernatchez , L 2020 , ' Shared ancestral polymorphism and chromosomal rearrangements as potential drivers of local adaptation in a marine fish ' , Molecular Ecology , vol. 29 , no. 13 , pp. 2379-2398 . https://doi.org/10.1111/mec.15499 Speciation Population genomics RAD Joint site frequency spectrum Fish Mallotus villosus Inversion ai /dk/atira/pure/sustainabledevelopmentgoals/life_below_water name=SDG 14 - Life Below Water article 2020 ftdtupubl https://doi.org/10.1111/mec.15499 2024-07-08T23:51:45Z Gene flow has tremendous importance on local adaptation, by influencing the fate of de novo mutations, maintaining standing genetic variation, and driving adaptive introgression. Furthermore, structural variation as chromosomal rearrangements may facilitate adaptation despite high gene flow. However, our understanding of evolutionary mechanisms impending or favoring local adaptation in the presence of gene flow is still limited to a restricted number of study systems. In this study, we examined how demographic history, shared ancestral polymorphism, and gene flow among glacial lineages contribute to local adaptation to sea conditions in a marine fish, the capelin ( Mallotus villosus ). We first assembled a 490 Mbp draft genome of M. villosus to map our RAD sequence reads. Then, we used a large dataset of genome-wide single nucleotide polymorphisms (25,904 filtered SNPs) genotyped in 1,310 individuals collected from 31 spawning sites in the northwest Atlantic. We reconstructed the history of divergence among three glacial lineages and showed that they likely diverged from 3.8 to 1.8 MyA and experienced secondary contacts. Within each lineage, our analyses provided evidence for large Ne and high gene flow among spawning sites. Within the NWA lineage, we detected a polymorphic chromosomal rearrangement leading to the occurrence of three haplogroups. Genotype-environment associations revealed molecular signatures of local adaptation to environmental conditions prevailing at spawning sites. Our study also suggests that, both shared polymorphism among lineages, resulting from standing genetic variation or introgression, and chromosomal rearrangements may contribute to local adaptation in the presence of high gene flow. Article in Journal/Newspaper Northwest Atlantic Technical University of Denmark: DTU Orbit Molecular Ecology 29 13 2379 2398 |
institution |
Open Polar |
collection |
Technical University of Denmark: DTU Orbit |
op_collection_id |
ftdtupubl |
language |
English |
topic |
Speciation Population genomics RAD Joint site frequency spectrum Fish Mallotus villosus Inversion ai /dk/atira/pure/sustainabledevelopmentgoals/life_below_water name=SDG 14 - Life Below Water |
spellingShingle |
Speciation Population genomics RAD Joint site frequency spectrum Fish Mallotus villosus Inversion ai /dk/atira/pure/sustainabledevelopmentgoals/life_below_water name=SDG 14 - Life Below Water Cayuela, Hugo Rougemont, Quentin Laporte, Martin Mérot, Claire Normandeau, Eric Dorant, Yann Tørresen, Ole K. Hoff, Siv Nam Khang Jentoft, Sissel Sirois, Pascal Castonguay, Martin Jansen, Teunis Praebel, Kim Clément, Marie Bernatchez, Louis Shared ancestral polymorphism and chromosomal rearrangements as potential drivers of local adaptation in a marine fish |
topic_facet |
Speciation Population genomics RAD Joint site frequency spectrum Fish Mallotus villosus Inversion ai /dk/atira/pure/sustainabledevelopmentgoals/life_below_water name=SDG 14 - Life Below Water |
description |
Gene flow has tremendous importance on local adaptation, by influencing the fate of de novo mutations, maintaining standing genetic variation, and driving adaptive introgression. Furthermore, structural variation as chromosomal rearrangements may facilitate adaptation despite high gene flow. However, our understanding of evolutionary mechanisms impending or favoring local adaptation in the presence of gene flow is still limited to a restricted number of study systems. In this study, we examined how demographic history, shared ancestral polymorphism, and gene flow among glacial lineages contribute to local adaptation to sea conditions in a marine fish, the capelin ( Mallotus villosus ). We first assembled a 490 Mbp draft genome of M. villosus to map our RAD sequence reads. Then, we used a large dataset of genome-wide single nucleotide polymorphisms (25,904 filtered SNPs) genotyped in 1,310 individuals collected from 31 spawning sites in the northwest Atlantic. We reconstructed the history of divergence among three glacial lineages and showed that they likely diverged from 3.8 to 1.8 MyA and experienced secondary contacts. Within each lineage, our analyses provided evidence for large Ne and high gene flow among spawning sites. Within the NWA lineage, we detected a polymorphic chromosomal rearrangement leading to the occurrence of three haplogroups. Genotype-environment associations revealed molecular signatures of local adaptation to environmental conditions prevailing at spawning sites. Our study also suggests that, both shared polymorphism among lineages, resulting from standing genetic variation or introgression, and chromosomal rearrangements may contribute to local adaptation in the presence of high gene flow. |
format |
Article in Journal/Newspaper |
author |
Cayuela, Hugo Rougemont, Quentin Laporte, Martin Mérot, Claire Normandeau, Eric Dorant, Yann Tørresen, Ole K. Hoff, Siv Nam Khang Jentoft, Sissel Sirois, Pascal Castonguay, Martin Jansen, Teunis Praebel, Kim Clément, Marie Bernatchez, Louis |
author_facet |
Cayuela, Hugo Rougemont, Quentin Laporte, Martin Mérot, Claire Normandeau, Eric Dorant, Yann Tørresen, Ole K. Hoff, Siv Nam Khang Jentoft, Sissel Sirois, Pascal Castonguay, Martin Jansen, Teunis Praebel, Kim Clément, Marie Bernatchez, Louis |
author_sort |
Cayuela, Hugo |
title |
Shared ancestral polymorphism and chromosomal rearrangements as potential drivers of local adaptation in a marine fish |
title_short |
Shared ancestral polymorphism and chromosomal rearrangements as potential drivers of local adaptation in a marine fish |
title_full |
Shared ancestral polymorphism and chromosomal rearrangements as potential drivers of local adaptation in a marine fish |
title_fullStr |
Shared ancestral polymorphism and chromosomal rearrangements as potential drivers of local adaptation in a marine fish |
title_full_unstemmed |
Shared ancestral polymorphism and chromosomal rearrangements as potential drivers of local adaptation in a marine fish |
title_sort |
shared ancestral polymorphism and chromosomal rearrangements as potential drivers of local adaptation in a marine fish |
publishDate |
2020 |
url |
https://orbit.dtu.dk/en/publications/79dc19ac-0b4d-4eab-b769-aab709897a35 https://doi.org/10.1111/mec.15499 https://backend.orbit.dtu.dk/ws/files/215032317/BERAT_mec.15499.pdf |
genre |
Northwest Atlantic |
genre_facet |
Northwest Atlantic |
op_source |
Cayuela , H , Rougemont , Q , Laporte , M , Mérot , C , Normandeau , E , Dorant , Y , Tørresen , O K , Hoff , S N K , Jentoft , S , Sirois , P , Castonguay , M , Jansen , T , Praebel , K , Clément , M & Bernatchez , L 2020 , ' Shared ancestral polymorphism and chromosomal rearrangements as potential drivers of local adaptation in a marine fish ' , Molecular Ecology , vol. 29 , no. 13 , pp. 2379-2398 . https://doi.org/10.1111/mec.15499 |
op_relation |
https://orbit.dtu.dk/en/publications/79dc19ac-0b4d-4eab-b769-aab709897a35 |
op_rights |
info:eu-repo/semantics/openAccess |
op_doi |
https://doi.org/10.1111/mec.15499 |
container_title |
Molecular Ecology |
container_volume |
29 |
container_issue |
13 |
container_start_page |
2379 |
op_container_end_page |
2398 |
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1810466874338574336 |