Relative genomic impacts of translocation history, hatchery practices, and farm selection in Pacific oyster Crassostrea gigas throughout the Northern Hemisphere
Abstract Pacific oyster Crassostrea gigas, endemic to coastal Asia, has been translocated globally throughout the past century, resulting in self‐sustaining introduced populations (naturalized). Oyster aquaculture industries in many parts of the world depend on commercially available seed (hatchery‐...
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ftdoajarticles:oai:doaj.org/article:38fda91053b443b9994be473f54c6278 2023-05-15T15:58:22+02:00 Relative genomic impacts of translocation history, hatchery practices, and farm selection in Pacific oyster Crassostrea gigas throughout the Northern Hemisphere Ben J. G. Sutherland Claire Rycroft Anne‐Laure Ferchaud Rob Saunders Li Li Sheng Liu Amy M. Chan Sarah P. Otto Curtis A. Suttle Kristina M. Miller 2020-07-01T00:00:00Z https://doi.org/10.1111/eva.12965 https://doaj.org/article/38fda91053b443b9994be473f54c6278 EN eng Wiley https://doi.org/10.1111/eva.12965 https://doaj.org/toc/1752-4571 1752-4571 doi:10.1111/eva.12965 https://doaj.org/article/38fda91053b443b9994be473f54c6278 Evolutionary Applications, Vol 13, Iss 6, Pp 1380-1399 (2020) aquaculture domestication farm selection genetic diversity hatchery marine genomics Evolution QH359-425 article 2020 ftdoajarticles https://doi.org/10.1111/eva.12965 2022-12-31T13:23:05Z Abstract Pacific oyster Crassostrea gigas, endemic to coastal Asia, has been translocated globally throughout the past century, resulting in self‐sustaining introduced populations (naturalized). Oyster aquaculture industries in many parts of the world depend on commercially available seed (hatchery‐farmed) or naturalized/wild oysters to move onto a farm (naturalized‐farmed). It is therefore important to understand genetic variation among populations and farm types. Here, we genotype naturalized/wild populations from France, Japan, China, and most extensively in coastal British Columbia, Canada. We also genotype cultured populations from throughout the Northern Hemisphere to compare with naturalized populations. In total, 16,942 markers were identified using double‐digest RAD‐sequencing in 182 naturalized, 112 hatchery‐farmed, and 72 naturalized‐farmed oysters (n = 366). Consistent with previous studies, very low genetic differentiation was observed around Vancouver Island (mean FST = 0.0019) and low differentiation between countries in the Japan–Canada–France historical translocation lineage (France–Canada FST = 0.0024; Japan–Canada FST = 0.0060). Chinese populations were more differentiated (China–Japan FST = 0.0241). Hatchery‐propagated populations had higher interindividual relatedness suggesting family structure. Within‐population inbreeding was not detected on farms, but nucleotide diversity and polymorphism rate were lower in one farm population. Moving oysters from nature onto farms did not result in strong within‐generation selection. Private alleles at substantial frequency were identified in several hatchery populations grown in BC, suggesting nonlocal origins. Tests of selection identified outlier loci consistent with selective differences associated with domestication, in some cases consistently identified in multiple farms. Top outlier candidates were nearby genes involved in calcium signaling and calmodulin activity. Implications of potential introgression from hatchery‐farmed oysters depend on ... Article in Journal/Newspaper Crassostrea gigas Pacific oyster Directory of Open Access Journals: DOAJ Articles British Columbia ENVELOPE(-125.003,-125.003,54.000,54.000) Canada Pacific Evolutionary Applications 13 6 1380 1399 |
institution |
Open Polar |
collection |
Directory of Open Access Journals: DOAJ Articles |
op_collection_id |
ftdoajarticles |
language |
English |
topic |
aquaculture domestication farm selection genetic diversity hatchery marine genomics Evolution QH359-425 |
spellingShingle |
aquaculture domestication farm selection genetic diversity hatchery marine genomics Evolution QH359-425 Ben J. G. Sutherland Claire Rycroft Anne‐Laure Ferchaud Rob Saunders Li Li Sheng Liu Amy M. Chan Sarah P. Otto Curtis A. Suttle Kristina M. Miller Relative genomic impacts of translocation history, hatchery practices, and farm selection in Pacific oyster Crassostrea gigas throughout the Northern Hemisphere |
topic_facet |
aquaculture domestication farm selection genetic diversity hatchery marine genomics Evolution QH359-425 |
description |
Abstract Pacific oyster Crassostrea gigas, endemic to coastal Asia, has been translocated globally throughout the past century, resulting in self‐sustaining introduced populations (naturalized). Oyster aquaculture industries in many parts of the world depend on commercially available seed (hatchery‐farmed) or naturalized/wild oysters to move onto a farm (naturalized‐farmed). It is therefore important to understand genetic variation among populations and farm types. Here, we genotype naturalized/wild populations from France, Japan, China, and most extensively in coastal British Columbia, Canada. We also genotype cultured populations from throughout the Northern Hemisphere to compare with naturalized populations. In total, 16,942 markers were identified using double‐digest RAD‐sequencing in 182 naturalized, 112 hatchery‐farmed, and 72 naturalized‐farmed oysters (n = 366). Consistent with previous studies, very low genetic differentiation was observed around Vancouver Island (mean FST = 0.0019) and low differentiation between countries in the Japan–Canada–France historical translocation lineage (France–Canada FST = 0.0024; Japan–Canada FST = 0.0060). Chinese populations were more differentiated (China–Japan FST = 0.0241). Hatchery‐propagated populations had higher interindividual relatedness suggesting family structure. Within‐population inbreeding was not detected on farms, but nucleotide diversity and polymorphism rate were lower in one farm population. Moving oysters from nature onto farms did not result in strong within‐generation selection. Private alleles at substantial frequency were identified in several hatchery populations grown in BC, suggesting nonlocal origins. Tests of selection identified outlier loci consistent with selective differences associated with domestication, in some cases consistently identified in multiple farms. Top outlier candidates were nearby genes involved in calcium signaling and calmodulin activity. Implications of potential introgression from hatchery‐farmed oysters depend on ... |
format |
Article in Journal/Newspaper |
author |
Ben J. G. Sutherland Claire Rycroft Anne‐Laure Ferchaud Rob Saunders Li Li Sheng Liu Amy M. Chan Sarah P. Otto Curtis A. Suttle Kristina M. Miller |
author_facet |
Ben J. G. Sutherland Claire Rycroft Anne‐Laure Ferchaud Rob Saunders Li Li Sheng Liu Amy M. Chan Sarah P. Otto Curtis A. Suttle Kristina M. Miller |
author_sort |
Ben J. G. Sutherland |
title |
Relative genomic impacts of translocation history, hatchery practices, and farm selection in Pacific oyster Crassostrea gigas throughout the Northern Hemisphere |
title_short |
Relative genomic impacts of translocation history, hatchery practices, and farm selection in Pacific oyster Crassostrea gigas throughout the Northern Hemisphere |
title_full |
Relative genomic impacts of translocation history, hatchery practices, and farm selection in Pacific oyster Crassostrea gigas throughout the Northern Hemisphere |
title_fullStr |
Relative genomic impacts of translocation history, hatchery practices, and farm selection in Pacific oyster Crassostrea gigas throughout the Northern Hemisphere |
title_full_unstemmed |
Relative genomic impacts of translocation history, hatchery practices, and farm selection in Pacific oyster Crassostrea gigas throughout the Northern Hemisphere |
title_sort |
relative genomic impacts of translocation history, hatchery practices, and farm selection in pacific oyster crassostrea gigas throughout the northern hemisphere |
publisher |
Wiley |
publishDate |
2020 |
url |
https://doi.org/10.1111/eva.12965 https://doaj.org/article/38fda91053b443b9994be473f54c6278 |
long_lat |
ENVELOPE(-125.003,-125.003,54.000,54.000) |
geographic |
British Columbia Canada Pacific |
geographic_facet |
British Columbia Canada Pacific |
genre |
Crassostrea gigas Pacific oyster |
genre_facet |
Crassostrea gigas Pacific oyster |
op_source |
Evolutionary Applications, Vol 13, Iss 6, Pp 1380-1399 (2020) |
op_relation |
https://doi.org/10.1111/eva.12965 https://doaj.org/toc/1752-4571 1752-4571 doi:10.1111/eva.12965 https://doaj.org/article/38fda91053b443b9994be473f54c6278 |
op_doi |
https://doi.org/10.1111/eva.12965 |
container_title |
Evolutionary Applications |
container_volume |
13 |
container_issue |
6 |
container_start_page |
1380 |
op_container_end_page |
1399 |
_version_ |
1766394090752049152 |