Detailed insights into pan-European population structure and inbreeding in wild and hatchery Pacific oysters (Crassostrea gigas) revealed by genome-wide SNP data
WOS:000459328300012 International audience Cultivated bivalves are important not only because of their economic value, but also due to their impacts on natural ecosystems. The Pacific oyster (Crassostrea gigas) is the world's most heavily cultivated shellfish species and has been introduced to...
Published in: | Evolutionary Applications |
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Main Authors: | , , , , , , , , |
Other Authors: | , , , , , , , , , , , , , , |
Format: | Article in Journal/Newspaper |
Language: | English |
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HAL CCSD
2019
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Online Access: | https://doi.org/10.1111/eva.12736 https://hal.archives-ouvertes.fr/hal-02920588/file/Vendrami_etal_EA_2019.pdf https://hal.archives-ouvertes.fr/hal-02920588 |
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record_format |
openpolar |
institution |
Open Polar |
collection |
Unknown |
op_collection_id |
fttriple |
language |
English |
topic |
ACL growth aquaculture Pacific oyster Crassostrea gigas shellfish traits microsatellite performance reproductive success depression genetic structure high-density genotyping array inbreeding invasion genetics r-package restriction site-associated DNA (RAD) sequencing single nucleotide polymorphism (SNP) tool set envir geo |
spellingShingle |
ACL growth aquaculture Pacific oyster Crassostrea gigas shellfish traits microsatellite performance reproductive success depression genetic structure high-density genotyping array inbreeding invasion genetics r-package restriction site-associated DNA (RAD) sequencing single nucleotide polymorphism (SNP) tool set envir geo Vendrami, David L. J. Houston, Ross D. Gharbi, Karim Telesca, Luca Gutierrez, Alejandro P. Gurney-Smith, Helen Hasegawa, Natsuki Boudry, Pierre Hoffman, Joseph I. Detailed insights into pan-European population structure and inbreeding in wild and hatchery Pacific oysters (Crassostrea gigas) revealed by genome-wide SNP data |
topic_facet |
ACL growth aquaculture Pacific oyster Crassostrea gigas shellfish traits microsatellite performance reproductive success depression genetic structure high-density genotyping array inbreeding invasion genetics r-package restriction site-associated DNA (RAD) sequencing single nucleotide polymorphism (SNP) tool set envir geo |
description |
WOS:000459328300012 International audience Cultivated bivalves are important not only because of their economic value, but also due to their impacts on natural ecosystems. The Pacific oyster (Crassostrea gigas) is the world's most heavily cultivated shellfish species and has been introduced to all continents except Antarctica for aquaculture. We therefore used a medium-density single nucleotide polymorphism (SNP) array to investigate the genetic structure of this species in Europe, where it was introduced during the 1960s and has since become a prolific invader of coastal ecosystems across the continent. We analyzed 21,499 polymorphic SNPs in 232 individuals from 23 localities spanning a latitudinal cline from Portugal to Norway and including the source populations of Japan and Canada. We confirmed the results of previous studies by finding clear support for a southern and a northern group, with the former being indistinguishable from the source populations indicating the absence of a pronounced founder effect. We furthermore conducted a large-scale comparison of oysters sampled from the wild and from hatcheries to reveal substantial genetic differences including significantly higher levels of inbreeding in some but not all of the sampled hatchery cohorts. These findings were confirmed by a smaller but representative SNP dataset generated using restriction site-associated DNA sequencing. We therefore conclude that genomic approaches can generate increasingly detailed insights into the genetics of wild and hatchery produced Pacific oysters. |
author2 |
Universität Bielefeld = Bielefeld University The Roslin Institute University of Edinburgh Edinburgh Genomics Department of Earth Sciences Cambridge, UK University of Cambridge UK (CAM) British Antarctic Survey (BAS) Natural Environment Research Council (NERC) Japan Fisheries Research and Education Agency (FRA) Laboratoire des Sciences de l'Environnement Marin (LEMAR) (LEMAR) Institut de Recherche pour le Développement (IRD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de Brest (UBO)-Institut Universitaire Européen de la Mer (IUEM) Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS) Institut Français de Recherche pour l'Exploitation de la Mer - Brest (IFREMER Centre de Bretagne) Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER) European Project: 605051,EC:FP7:PEOPLE,FP7-PEOPLE-2013-ITN,CACHE(2013) |
format |
Article in Journal/Newspaper |
author |
Vendrami, David L. J. Houston, Ross D. Gharbi, Karim Telesca, Luca Gutierrez, Alejandro P. Gurney-Smith, Helen Hasegawa, Natsuki Boudry, Pierre Hoffman, Joseph I. |
author_facet |
Vendrami, David L. J. Houston, Ross D. Gharbi, Karim Telesca, Luca Gutierrez, Alejandro P. Gurney-Smith, Helen Hasegawa, Natsuki Boudry, Pierre Hoffman, Joseph I. |
author_sort |
Vendrami, David L. J. |
title |
Detailed insights into pan-European population structure and inbreeding in wild and hatchery Pacific oysters (Crassostrea gigas) revealed by genome-wide SNP data |
title_short |
Detailed insights into pan-European population structure and inbreeding in wild and hatchery Pacific oysters (Crassostrea gigas) revealed by genome-wide SNP data |
title_full |
Detailed insights into pan-European population structure and inbreeding in wild and hatchery Pacific oysters (Crassostrea gigas) revealed by genome-wide SNP data |
title_fullStr |
Detailed insights into pan-European population structure and inbreeding in wild and hatchery Pacific oysters (Crassostrea gigas) revealed by genome-wide SNP data |
title_full_unstemmed |
Detailed insights into pan-European population structure and inbreeding in wild and hatchery Pacific oysters (Crassostrea gigas) revealed by genome-wide SNP data |
title_sort |
detailed insights into pan-european population structure and inbreeding in wild and hatchery pacific oysters (crassostrea gigas) revealed by genome-wide snp data |
publisher |
HAL CCSD |
publishDate |
2019 |
url |
https://doi.org/10.1111/eva.12736 https://hal.archives-ouvertes.fr/hal-02920588/file/Vendrami_etal_EA_2019.pdf https://hal.archives-ouvertes.fr/hal-02920588 |
geographic |
Canada Norway Pacific |
geographic_facet |
Canada Norway Pacific |
genre |
Antarc* Antarctica Crassostrea gigas Pacific oyster |
genre_facet |
Antarc* Antarctica Crassostrea gigas Pacific oyster |
op_source |
Hyper Article en Ligne - Sciences de l'Homme et de la Société ISSN: 1752-4563 EISSN: 1752-4571 Evolutionary Applications Evolutionary Applications, Blackwell, 2019, 12 (3), pp.519-534. ⟨10.1111/eva.12736⟩ |
op_relation |
hal-02920588 doi:10.1111/eva.12736 10670/1.o4bvjf https://hal.archives-ouvertes.fr/hal-02920588/file/Vendrami_etal_EA_2019.pdf https://hal.archives-ouvertes.fr/hal-02920588 |
op_rights |
other |
op_doi |
https://doi.org/10.1111/eva.12736 |
container_title |
Evolutionary Applications |
container_volume |
12 |
container_issue |
3 |
container_start_page |
519 |
op_container_end_page |
534 |
_version_ |
1766268540701114368 |
spelling |
fttriple:oai:gotriple.eu:10670/1.o4bvjf 2023-05-15T13:59:46+02:00 Detailed insights into pan-European population structure and inbreeding in wild and hatchery Pacific oysters (Crassostrea gigas) revealed by genome-wide SNP data Vendrami, David L. J. Houston, Ross D. Gharbi, Karim Telesca, Luca Gutierrez, Alejandro P. Gurney-Smith, Helen Hasegawa, Natsuki Boudry, Pierre Hoffman, Joseph I. Universität Bielefeld = Bielefeld University The Roslin Institute University of Edinburgh Edinburgh Genomics Department of Earth Sciences Cambridge, UK University of Cambridge UK (CAM) British Antarctic Survey (BAS) Natural Environment Research Council (NERC) Japan Fisheries Research and Education Agency (FRA) Laboratoire des Sciences de l'Environnement Marin (LEMAR) (LEMAR) Institut de Recherche pour le Développement (IRD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de Brest (UBO)-Institut Universitaire Européen de la Mer (IUEM) Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS) Institut Français de Recherche pour l'Exploitation de la Mer - Brest (IFREMER Centre de Bretagne) Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER) European Project: 605051,EC:FP7:PEOPLE,FP7-PEOPLE-2013-ITN,CACHE(2013) 2019-03-01 https://doi.org/10.1111/eva.12736 https://hal.archives-ouvertes.fr/hal-02920588/file/Vendrami_etal_EA_2019.pdf https://hal.archives-ouvertes.fr/hal-02920588 en eng HAL CCSD Blackwell hal-02920588 doi:10.1111/eva.12736 10670/1.o4bvjf https://hal.archives-ouvertes.fr/hal-02920588/file/Vendrami_etal_EA_2019.pdf https://hal.archives-ouvertes.fr/hal-02920588 other Hyper Article en Ligne - Sciences de l'Homme et de la Société ISSN: 1752-4563 EISSN: 1752-4571 Evolutionary Applications Evolutionary Applications, Blackwell, 2019, 12 (3), pp.519-534. ⟨10.1111/eva.12736⟩ ACL growth aquaculture Pacific oyster Crassostrea gigas shellfish traits microsatellite performance reproductive success depression genetic structure high-density genotyping array inbreeding invasion genetics r-package restriction site-associated DNA (RAD) sequencing single nucleotide polymorphism (SNP) tool set envir geo Journal Article https://vocabularies.coar-repositories.org/resource_types/c_6501/ 2019 fttriple https://doi.org/10.1111/eva.12736 2023-01-22T18:34:52Z WOS:000459328300012 International audience Cultivated bivalves are important not only because of their economic value, but also due to their impacts on natural ecosystems. The Pacific oyster (Crassostrea gigas) is the world's most heavily cultivated shellfish species and has been introduced to all continents except Antarctica for aquaculture. We therefore used a medium-density single nucleotide polymorphism (SNP) array to investigate the genetic structure of this species in Europe, where it was introduced during the 1960s and has since become a prolific invader of coastal ecosystems across the continent. We analyzed 21,499 polymorphic SNPs in 232 individuals from 23 localities spanning a latitudinal cline from Portugal to Norway and including the source populations of Japan and Canada. We confirmed the results of previous studies by finding clear support for a southern and a northern group, with the former being indistinguishable from the source populations indicating the absence of a pronounced founder effect. We furthermore conducted a large-scale comparison of oysters sampled from the wild and from hatcheries to reveal substantial genetic differences including significantly higher levels of inbreeding in some but not all of the sampled hatchery cohorts. These findings were confirmed by a smaller but representative SNP dataset generated using restriction site-associated DNA sequencing. We therefore conclude that genomic approaches can generate increasingly detailed insights into the genetics of wild and hatchery produced Pacific oysters. Article in Journal/Newspaper Antarc* Antarctica Crassostrea gigas Pacific oyster Unknown Canada Norway Pacific Evolutionary Applications 12 3 519 534 |