Data from: Linking genotype to phenotype in a changing ocean: inferring the genomic architecture of a blue mussel stress response with genome-wide association
A key component to understanding the evolutionary response to a changing climate is linking underlying genetic variation to phenotypic variation in stress response. Here we use a genome-wide association approach (GWAS) to understand the genetic architecture of calcification rates under simulated cli...
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Online Access: | https://doi.org/10.5061/DRYAD.2D8B5 |
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fttriple:oai:gotriple.eu:50|dedup_wf_001::d5a0953cf2e5c979662630c0046b6a64 2023-05-15T17:52:09+02:00 Data from: Linking genotype to phenotype in a changing ocean: inferring the genomic architecture of a blue mussel stress response with genome-wide association Kingston, Sarah E. Martino, Pieter Melendy, Marko Reed, Floyd A. Carlon, David B. 2017-01-01 https://doi.org/10.5061/DRYAD.2D8B5 undefined unknown Dryad https://dx.doi.org/10.5061/DRYAD.2D8B5 http://dx.doi.org/10.5061/dryad.2d8b5 lic_creative-commons 10.5061/DRYAD.2D8B5 oai:services.nod.dans.knaw.nl:Products/dans:oai:easy.dans.knaw.nl:easy-dataset:100261 oai:easy.dans.knaw.nl:easy-dataset:100261 10|openaire____::9e3be59865b2c1c335d32dae2fe7b254 re3data_____::r3d100000044 10|eurocrisdris::fe4903425d9040f680d8610d9079ea14 10|re3data_____::84e123776089ce3c7a33db98d9cd15a8 10|re3data_____::94816e6421eeb072e7742ce6a9decc5f climate change genome-wide association genomic architecture calcification ocean acidification Gulf of Maine Mytilus Mytilus edulis Mytilus trossulus Life sciences medicine and health care envir geo Dataset https://vocabularies.coar-repositories.org/resource_types/c_ddb1/ 2017 fttriple https://doi.org/10.5061/DRYAD.2D8B5 https://doi.org/10.5061/dryad.2d8b5 2023-01-22T17:15:55Z A key component to understanding the evolutionary response to a changing climate is linking underlying genetic variation to phenotypic variation in stress response. Here we use a genome-wide association approach (GWAS) to understand the genetic architecture of calcification rates under simulated climate stress. We take advantage of the genomic gradient across the blue mussel hybrid zone (Mytilus edulis and Mytilus trossulus) in the Gulf of Maine (GOM) to link genetic variation with variance in calcification rates in response to simulated climate change. Falling calcium carbonate saturation states are predicted to negatively impact many marine organisms that build calcium carbonate shells - like blue mussels. We sampled wild mussels and measured net calcification phenotypes after exposing mussels to a “climate change” common garden, where we raised temperature 3°C, decreased pH by 0.2 units, and limited food supply by filtering out planktonic particles > 5 μm, compared to ambient GOM conditions in the summer. This climate change exposure greatly increased phenotypic variation in net calcification rates compared to ambient conditions. We then used regression models to link the phenotypic variation with over 170,000 single nucleotide polymorphism loci (SNPs) generated by genotype by sequencing to identify genomic locations associated with calcification phenotype, and estimate heritability and architecture of the trait. We identified at least one of potentially 2-10 genomic regions responsible for 30% of the phenotypic variation in calcification rates that are potential targets of natural selection by climate change. Our simulations suggest a power of 13.7% with our study's average effective sample size of 118 individuals and rare alleles, but a power of > 90% when effective sample size is 900. Stress calcification phenotypes and sampling populationsText file containing standardized change in buoyant weight (calcification rate) as well as sampling population origin for each mussel. Mussels that did not survive ... Dataset Ocean acidification Unknown |
institution |
Open Polar |
collection |
Unknown |
op_collection_id |
fttriple |
language |
unknown |
topic |
climate change genome-wide association genomic architecture calcification ocean acidification Gulf of Maine Mytilus Mytilus edulis Mytilus trossulus Life sciences medicine and health care envir geo |
spellingShingle |
climate change genome-wide association genomic architecture calcification ocean acidification Gulf of Maine Mytilus Mytilus edulis Mytilus trossulus Life sciences medicine and health care envir geo Kingston, Sarah E. Martino, Pieter Melendy, Marko Reed, Floyd A. Carlon, David B. Data from: Linking genotype to phenotype in a changing ocean: inferring the genomic architecture of a blue mussel stress response with genome-wide association |
topic_facet |
climate change genome-wide association genomic architecture calcification ocean acidification Gulf of Maine Mytilus Mytilus edulis Mytilus trossulus Life sciences medicine and health care envir geo |
description |
A key component to understanding the evolutionary response to a changing climate is linking underlying genetic variation to phenotypic variation in stress response. Here we use a genome-wide association approach (GWAS) to understand the genetic architecture of calcification rates under simulated climate stress. We take advantage of the genomic gradient across the blue mussel hybrid zone (Mytilus edulis and Mytilus trossulus) in the Gulf of Maine (GOM) to link genetic variation with variance in calcification rates in response to simulated climate change. Falling calcium carbonate saturation states are predicted to negatively impact many marine organisms that build calcium carbonate shells - like blue mussels. We sampled wild mussels and measured net calcification phenotypes after exposing mussels to a “climate change” common garden, where we raised temperature 3°C, decreased pH by 0.2 units, and limited food supply by filtering out planktonic particles > 5 μm, compared to ambient GOM conditions in the summer. This climate change exposure greatly increased phenotypic variation in net calcification rates compared to ambient conditions. We then used regression models to link the phenotypic variation with over 170,000 single nucleotide polymorphism loci (SNPs) generated by genotype by sequencing to identify genomic locations associated with calcification phenotype, and estimate heritability and architecture of the trait. We identified at least one of potentially 2-10 genomic regions responsible for 30% of the phenotypic variation in calcification rates that are potential targets of natural selection by climate change. Our simulations suggest a power of 13.7% with our study's average effective sample size of 118 individuals and rare alleles, but a power of > 90% when effective sample size is 900. Stress calcification phenotypes and sampling populationsText file containing standardized change in buoyant weight (calcification rate) as well as sampling population origin for each mussel. Mussels that did not survive ... |
format |
Dataset |
author |
Kingston, Sarah E. Martino, Pieter Melendy, Marko Reed, Floyd A. Carlon, David B. |
author_facet |
Kingston, Sarah E. Martino, Pieter Melendy, Marko Reed, Floyd A. Carlon, David B. |
author_sort |
Kingston, Sarah E. |
title |
Data from: Linking genotype to phenotype in a changing ocean: inferring the genomic architecture of a blue mussel stress response with genome-wide association |
title_short |
Data from: Linking genotype to phenotype in a changing ocean: inferring the genomic architecture of a blue mussel stress response with genome-wide association |
title_full |
Data from: Linking genotype to phenotype in a changing ocean: inferring the genomic architecture of a blue mussel stress response with genome-wide association |
title_fullStr |
Data from: Linking genotype to phenotype in a changing ocean: inferring the genomic architecture of a blue mussel stress response with genome-wide association |
title_full_unstemmed |
Data from: Linking genotype to phenotype in a changing ocean: inferring the genomic architecture of a blue mussel stress response with genome-wide association |
title_sort |
data from: linking genotype to phenotype in a changing ocean: inferring the genomic architecture of a blue mussel stress response with genome-wide association |
publisher |
Dryad |
publishDate |
2017 |
url |
https://doi.org/10.5061/DRYAD.2D8B5 |
genre |
Ocean acidification |
genre_facet |
Ocean acidification |
op_source |
10.5061/DRYAD.2D8B5 oai:services.nod.dans.knaw.nl:Products/dans:oai:easy.dans.knaw.nl:easy-dataset:100261 oai:easy.dans.knaw.nl:easy-dataset:100261 10|openaire____::9e3be59865b2c1c335d32dae2fe7b254 re3data_____::r3d100000044 10|eurocrisdris::fe4903425d9040f680d8610d9079ea14 10|re3data_____::84e123776089ce3c7a33db98d9cd15a8 10|re3data_____::94816e6421eeb072e7742ce6a9decc5f |
op_relation |
https://dx.doi.org/10.5061/DRYAD.2D8B5 http://dx.doi.org/10.5061/dryad.2d8b5 |
op_rights |
lic_creative-commons |
op_doi |
https://doi.org/10.5061/DRYAD.2D8B5 https://doi.org/10.5061/dryad.2d8b5 |
_version_ |
1766159506642829312 |