Modular chromosome rearrangements reveal parallel and nonparallel adaptation in a marine fish
Abstract Genomic architecture and standing variation can play a key role in ecological adaptation and contribute to the predictability of evolution. In Atlantic cod (Gadus morhua), four large chromosomal rearrangements have been associated with ecological gradients and migratory behavior in regional...
Published in: | Ecology and Evolution |
---|---|
Main Authors: | , , , , , , , , , , |
Format: | Article in Journal/Newspaper |
Language: | English |
Published: |
Wiley
2020
|
Subjects: | |
Online Access: | https://doi.org/10.1002/ece3.5828 https://doaj.org/article/f67f5318c44c42a3b89760e39e6eac06 |
id |
ftdoajarticles:oai:doaj.org/article:f67f5318c44c42a3b89760e39e6eac06 |
---|---|
record_format |
openpolar |
spelling |
ftdoajarticles:oai:doaj.org/article:f67f5318c44c42a3b89760e39e6eac06 2023-05-15T15:26:55+02:00 Modular chromosome rearrangements reveal parallel and nonparallel adaptation in a marine fish Tony Kess Paul Bentzen Sarah J. Lehnert Emma V. A. Sylvester Sigbjørn Lien Matthew P. Kent Marion Sinclair‐Waters Corey Morris Brendan Wringe Robert Fairweather Ian R. Bradbury 2020-01-01T00:00:00Z https://doi.org/10.1002/ece3.5828 https://doaj.org/article/f67f5318c44c42a3b89760e39e6eac06 EN eng Wiley https://doi.org/10.1002/ece3.5828 https://doaj.org/toc/2045-7758 2045-7758 doi:10.1002/ece3.5828 https://doaj.org/article/f67f5318c44c42a3b89760e39e6eac06 Ecology and Evolution, Vol 10, Iss 2, Pp 638-653 (2020) Atlantic cod environmental association genomic architecture marine migration parallel evolution Ecology QH540-549.5 article 2020 ftdoajarticles https://doi.org/10.1002/ece3.5828 2022-12-31T11:23:50Z Abstract Genomic architecture and standing variation can play a key role in ecological adaptation and contribute to the predictability of evolution. In Atlantic cod (Gadus morhua), four large chromosomal rearrangements have been associated with ecological gradients and migratory behavior in regional analyses. However, the degree of parallelism, the extent of independent inheritance, and functional distinctiveness of these rearrangements remain poorly understood. Here, we use a 12K single nucleotide polymorphism (SNP) array to demonstrate extensive individual variation in rearrangement genotype within populations across the species range, suggesting that local adaptation to fine‐scale ecological variation is enabled by rearrangements with independent inheritance. Our results demonstrate significant association of rearrangements with migration phenotype and environmental gradients across the species range. Individual rearrangements exhibit functional modularity, but also contain loci showing multiple environmental associations. Clustering in genetic distance trees and reduced differentiation within rearrangements across the species range are consistent with shared variation as a source of contemporary adaptive diversity in Atlantic cod. Conversely, we also find that haplotypes in the LG12 and LG1 rearranged region have diverged across the Atlantic, despite consistent environmental associations. Exchange of these structurally variable genomic regions, as well as local selective pressures, has likely facilitated individual diversity within Atlantic cod stocks. Our results highlight the importance of genomic architecture and standing variation in enabling fine‐scale adaptation in marine species. Article in Journal/Newspaper atlantic cod Gadus morhua Directory of Open Access Journals: DOAJ Articles Ecology and Evolution 10 2 638 653 |
institution |
Open Polar |
collection |
Directory of Open Access Journals: DOAJ Articles |
op_collection_id |
ftdoajarticles |
language |
English |
topic |
Atlantic cod environmental association genomic architecture marine migration parallel evolution Ecology QH540-549.5 |
spellingShingle |
Atlantic cod environmental association genomic architecture marine migration parallel evolution Ecology QH540-549.5 Tony Kess Paul Bentzen Sarah J. Lehnert Emma V. A. Sylvester Sigbjørn Lien Matthew P. Kent Marion Sinclair‐Waters Corey Morris Brendan Wringe Robert Fairweather Ian R. Bradbury Modular chromosome rearrangements reveal parallel and nonparallel adaptation in a marine fish |
topic_facet |
Atlantic cod environmental association genomic architecture marine migration parallel evolution Ecology QH540-549.5 |
description |
Abstract Genomic architecture and standing variation can play a key role in ecological adaptation and contribute to the predictability of evolution. In Atlantic cod (Gadus morhua), four large chromosomal rearrangements have been associated with ecological gradients and migratory behavior in regional analyses. However, the degree of parallelism, the extent of independent inheritance, and functional distinctiveness of these rearrangements remain poorly understood. Here, we use a 12K single nucleotide polymorphism (SNP) array to demonstrate extensive individual variation in rearrangement genotype within populations across the species range, suggesting that local adaptation to fine‐scale ecological variation is enabled by rearrangements with independent inheritance. Our results demonstrate significant association of rearrangements with migration phenotype and environmental gradients across the species range. Individual rearrangements exhibit functional modularity, but also contain loci showing multiple environmental associations. Clustering in genetic distance trees and reduced differentiation within rearrangements across the species range are consistent with shared variation as a source of contemporary adaptive diversity in Atlantic cod. Conversely, we also find that haplotypes in the LG12 and LG1 rearranged region have diverged across the Atlantic, despite consistent environmental associations. Exchange of these structurally variable genomic regions, as well as local selective pressures, has likely facilitated individual diversity within Atlantic cod stocks. Our results highlight the importance of genomic architecture and standing variation in enabling fine‐scale adaptation in marine species. |
format |
Article in Journal/Newspaper |
author |
Tony Kess Paul Bentzen Sarah J. Lehnert Emma V. A. Sylvester Sigbjørn Lien Matthew P. Kent Marion Sinclair‐Waters Corey Morris Brendan Wringe Robert Fairweather Ian R. Bradbury |
author_facet |
Tony Kess Paul Bentzen Sarah J. Lehnert Emma V. A. Sylvester Sigbjørn Lien Matthew P. Kent Marion Sinclair‐Waters Corey Morris Brendan Wringe Robert Fairweather Ian R. Bradbury |
author_sort |
Tony Kess |
title |
Modular chromosome rearrangements reveal parallel and nonparallel adaptation in a marine fish |
title_short |
Modular chromosome rearrangements reveal parallel and nonparallel adaptation in a marine fish |
title_full |
Modular chromosome rearrangements reveal parallel and nonparallel adaptation in a marine fish |
title_fullStr |
Modular chromosome rearrangements reveal parallel and nonparallel adaptation in a marine fish |
title_full_unstemmed |
Modular chromosome rearrangements reveal parallel and nonparallel adaptation in a marine fish |
title_sort |
modular chromosome rearrangements reveal parallel and nonparallel adaptation in a marine fish |
publisher |
Wiley |
publishDate |
2020 |
url |
https://doi.org/10.1002/ece3.5828 https://doaj.org/article/f67f5318c44c42a3b89760e39e6eac06 |
genre |
atlantic cod Gadus morhua |
genre_facet |
atlantic cod Gadus morhua |
op_source |
Ecology and Evolution, Vol 10, Iss 2, Pp 638-653 (2020) |
op_relation |
https://doi.org/10.1002/ece3.5828 https://doaj.org/toc/2045-7758 2045-7758 doi:10.1002/ece3.5828 https://doaj.org/article/f67f5318c44c42a3b89760e39e6eac06 |
op_doi |
https://doi.org/10.1002/ece3.5828 |
container_title |
Ecology and Evolution |
container_volume |
10 |
container_issue |
2 |
container_start_page |
638 |
op_container_end_page |
653 |
_version_ |
1766357385833611264 |