Relative genomic impacts of translocation history, hatchery practices, and farm selection in Pacific oysterCrassostrea gigasthroughout the Northern Hemisphere
Pacific oysterCrassostrea 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...
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Language: | English |
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Online Access: | http://ir.qdio.ac.cn/handle/337002/167926 https://doi.org/10.1111/eva.12965 |
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ftchinacasciocas:oai:ir.qdio.ac.cn:337002/167926 2023-05-15T15:59:04+02:00 Relative genomic impacts of translocation history, hatchery practices, and farm selection in Pacific oysterCrassostrea gigasthroughout the Northern Hemisphere Sutherland, Ben J. G. Rycroft, Claire Ferchaud, Anne-Laure Saunders, Rob Li, Li Liu, Sheng Chan, Amy M. Otto, Sarah P. Suttle, Curtis A. Miller, Kristina M. 2020-07-01 http://ir.qdio.ac.cn/handle/337002/167926 https://doi.org/10.1111/eva.12965 英语 eng WILEY EVOLUTIONARY APPLICATIONS http://ir.qdio.ac.cn/handle/337002/167926 doi:10.1111/eva.12965 aquaculture domestication farm selection genetic diversity hatchery marine genomics oyster oyster farming Pacific oyster Evolutionary Biology OYSTERS CRASSOSTREA-GIGAS R-PACKAGE PAIRWISE RELATEDNESS REPRODUCTIVE SUCCESS GENETIC LOAD POPULATION LOCI POLYMORPHISMS ASSOCIATION 期刊论文 2020 ftchinacasciocas https://doi.org/10.1111/eva.12965 2022-06-27T05:42:55Z Pacific oysterCrassostrea 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 (meanF(ST) = 0.0019) and low differentiation between countries in the Japan-Canada-France historical translocation lineage (France-CanadaF(ST) = 0.0024; Japan-CanadaF(ST) = 0.0060). Chinese populations were more differentiated (China-JapanF(ST) = 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 whether ... Report Crassostrea gigas Pacific oyster Institute of Oceanology, Chinese Academy of Sciences: IOCAS-IR British Columbia ENVELOPE(-125.003,-125.003,54.000,54.000) Canada Pacific Evolutionary Applications 13 6 1380 1399 |
institution |
Open Polar |
collection |
Institute of Oceanology, Chinese Academy of Sciences: IOCAS-IR |
op_collection_id |
ftchinacasciocas |
language |
English |
topic |
aquaculture domestication farm selection genetic diversity hatchery marine genomics oyster oyster farming Pacific oyster Evolutionary Biology OYSTERS CRASSOSTREA-GIGAS R-PACKAGE PAIRWISE RELATEDNESS REPRODUCTIVE SUCCESS GENETIC LOAD POPULATION LOCI POLYMORPHISMS ASSOCIATION |
spellingShingle |
aquaculture domestication farm selection genetic diversity hatchery marine genomics oyster oyster farming Pacific oyster Evolutionary Biology OYSTERS CRASSOSTREA-GIGAS R-PACKAGE PAIRWISE RELATEDNESS REPRODUCTIVE SUCCESS GENETIC LOAD POPULATION LOCI POLYMORPHISMS ASSOCIATION Sutherland, Ben J. G. Rycroft, Claire Ferchaud, Anne-Laure Saunders, Rob Li, Li Liu, Sheng Chan, Amy M. Otto, Sarah P. Suttle, Curtis A. Miller, Kristina M. Relative genomic impacts of translocation history, hatchery practices, and farm selection in Pacific oysterCrassostrea gigasthroughout the Northern Hemisphere |
topic_facet |
aquaculture domestication farm selection genetic diversity hatchery marine genomics oyster oyster farming Pacific oyster Evolutionary Biology OYSTERS CRASSOSTREA-GIGAS R-PACKAGE PAIRWISE RELATEDNESS REPRODUCTIVE SUCCESS GENETIC LOAD POPULATION LOCI POLYMORPHISMS ASSOCIATION |
description |
Pacific oysterCrassostrea 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 (meanF(ST) = 0.0019) and low differentiation between countries in the Japan-Canada-France historical translocation lineage (France-CanadaF(ST) = 0.0024; Japan-CanadaF(ST) = 0.0060). Chinese populations were more differentiated (China-JapanF(ST) = 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 whether ... |
format |
Report |
author |
Sutherland, Ben J. G. Rycroft, Claire Ferchaud, Anne-Laure Saunders, Rob Li, Li Liu, Sheng Chan, Amy M. Otto, Sarah P. Suttle, Curtis A. Miller, Kristina M. |
author_facet |
Sutherland, Ben J. G. Rycroft, Claire Ferchaud, Anne-Laure Saunders, Rob Li, Li Liu, Sheng Chan, Amy M. Otto, Sarah P. Suttle, Curtis A. Miller, Kristina M. |
author_sort |
Sutherland, Ben J. G. |
title |
Relative genomic impacts of translocation history, hatchery practices, and farm selection in Pacific oysterCrassostrea gigasthroughout the Northern Hemisphere |
title_short |
Relative genomic impacts of translocation history, hatchery practices, and farm selection in Pacific oysterCrassostrea gigasthroughout the Northern Hemisphere |
title_full |
Relative genomic impacts of translocation history, hatchery practices, and farm selection in Pacific oysterCrassostrea gigasthroughout the Northern Hemisphere |
title_fullStr |
Relative genomic impacts of translocation history, hatchery practices, and farm selection in Pacific oysterCrassostrea gigasthroughout the Northern Hemisphere |
title_full_unstemmed |
Relative genomic impacts of translocation history, hatchery practices, and farm selection in Pacific oysterCrassostrea gigasthroughout the Northern Hemisphere |
title_sort |
relative genomic impacts of translocation history, hatchery practices, and farm selection in pacific oystercrassostrea gigasthroughout the northern hemisphere |
publisher |
WILEY |
publishDate |
2020 |
url |
http://ir.qdio.ac.cn/handle/337002/167926 https://doi.org/10.1111/eva.12965 |
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_relation |
EVOLUTIONARY APPLICATIONS http://ir.qdio.ac.cn/handle/337002/167926 doi:10.1111/eva.12965 |
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_ |
1766394844141322240 |