Data from: Genomic signatures of parasite-driven natural selection in north European Atlantic salmon (Salmo salar)
Understanding the genomic basis of host-parasite adaptation is important for predicting the long-term viability of species and developing successful management practices. However, in wild populations, identifying specific signatures of parasite-driven selection often presents a challenge, as it is d...
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ftdans:oai:easy.dans.knaw.nl:easy-dataset:102772 2023-07-02T03:31:41+02:00 Data from: Genomic signatures of parasite-driven natural selection in north European Atlantic salmon (Salmo salar) Zueva, Ksenia J Lumme, Jaakko Veselov, Alexei E Kent, Matthew P Primmer, Craig R 2018-04-10T21:53:27.000+02:00 http://nbn-resolving.org/urn:nbn:nl:ui:13-m3-q37p https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:102772 unknown doi:10.5061/dryad.4k2t07s/1 doi:10.5061/dryad.4k2t07s/2 doi:10.5061/dryad.4k2t07s/3 doi:10.1016/j.margen.2018.01.001 http://nbn-resolving.org/urn:nbn:nl:ui:13-m3-q37p doi:10.5061/dryad.4k2t07s https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:102772 OPEN_ACCESS: The data are archived in Easy, they are accessible elsewhere through the DOI https://dans.knaw.nl/en/about/organisation-and-policy/legal-information/DANSLicence.pdf Life sciences medicine and health care 2018 ftdans https://doi.org/10.5061/dryad.4k2t07s/110.5061/dryad.4k2t07s/210.5061/dryad.4k2t07s/310.1016/j.margen.2018.01.00110.5061/dryad.4k2t07s 2023-06-13T13:28:41Z Understanding the genomic basis of host-parasite adaptation is important for predicting the long-term viability of species and developing successful management practices. However, in wild populations, identifying specific signatures of parasite-driven selection often presents a challenge, as it is difficult to unravel the molecular signatures of selection driven by different, but correlated, environmental factors. Furthermore, separating parasite-mediated selection from similar signatures due to genetic drift and population history can also be difficult. Populations of Atlantic salmon (Salmo salar L.) from northern Europe have pronounced differences in their reactions to the parasitic flatworm Gyrodactylus salaris Malmberg 1957 and are therefore a good model to search for specific genomic regions underlying inter-population differences in pathogen response. We used a dense Atlantic salmon SNP array, along with extensive sampling of 43 salmon populations representing the two G. salaris response extremes (extreme susceptibility vs resistant), to screen the salmon genome for signatures of directional selection while attempting to separate the parasite effect from other factors. After combining the results from two independent genome scan analyses, 57 candidate genes potentially under positive selection were identified, out of which 50 were functionally annotated. This candidate gene set was shown to be functionally enriched for lymph node development, focal adhesion genes and anti-viral response, which suggests that the regulation of both innate and acquired immunity might be an important mechanism for salmon response to G. salaris. Overall, our results offer insights into the apparently complex genetic basis of pathogen susceptibility in salmon and highlight methodological challenges for separating the effects of various environmental factors Other/Unknown Material Atlantic salmon Salmo salar Data Archiving and Networked Services (DANS): EASY (KNAW - Koninklijke Nederlandse Akademie van Wetenschappen) |
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Data Archiving and Networked Services (DANS): EASY (KNAW - Koninklijke Nederlandse Akademie van Wetenschappen) |
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Life sciences medicine and health care |
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Life sciences medicine and health care Zueva, Ksenia J Lumme, Jaakko Veselov, Alexei E Kent, Matthew P Primmer, Craig R Data from: Genomic signatures of parasite-driven natural selection in north European Atlantic salmon (Salmo salar) |
topic_facet |
Life sciences medicine and health care |
description |
Understanding the genomic basis of host-parasite adaptation is important for predicting the long-term viability of species and developing successful management practices. However, in wild populations, identifying specific signatures of parasite-driven selection often presents a challenge, as it is difficult to unravel the molecular signatures of selection driven by different, but correlated, environmental factors. Furthermore, separating parasite-mediated selection from similar signatures due to genetic drift and population history can also be difficult. Populations of Atlantic salmon (Salmo salar L.) from northern Europe have pronounced differences in their reactions to the parasitic flatworm Gyrodactylus salaris Malmberg 1957 and are therefore a good model to search for specific genomic regions underlying inter-population differences in pathogen response. We used a dense Atlantic salmon SNP array, along with extensive sampling of 43 salmon populations representing the two G. salaris response extremes (extreme susceptibility vs resistant), to screen the salmon genome for signatures of directional selection while attempting to separate the parasite effect from other factors. After combining the results from two independent genome scan analyses, 57 candidate genes potentially under positive selection were identified, out of which 50 were functionally annotated. This candidate gene set was shown to be functionally enriched for lymph node development, focal adhesion genes and anti-viral response, which suggests that the regulation of both innate and acquired immunity might be an important mechanism for salmon response to G. salaris. Overall, our results offer insights into the apparently complex genetic basis of pathogen susceptibility in salmon and highlight methodological challenges for separating the effects of various environmental factors |
author |
Zueva, Ksenia J Lumme, Jaakko Veselov, Alexei E Kent, Matthew P Primmer, Craig R |
author_facet |
Zueva, Ksenia J Lumme, Jaakko Veselov, Alexei E Kent, Matthew P Primmer, Craig R |
author_sort |
Zueva, Ksenia J |
title |
Data from: Genomic signatures of parasite-driven natural selection in north European Atlantic salmon (Salmo salar) |
title_short |
Data from: Genomic signatures of parasite-driven natural selection in north European Atlantic salmon (Salmo salar) |
title_full |
Data from: Genomic signatures of parasite-driven natural selection in north European Atlantic salmon (Salmo salar) |
title_fullStr |
Data from: Genomic signatures of parasite-driven natural selection in north European Atlantic salmon (Salmo salar) |
title_full_unstemmed |
Data from: Genomic signatures of parasite-driven natural selection in north European Atlantic salmon (Salmo salar) |
title_sort |
data from: genomic signatures of parasite-driven natural selection in north european atlantic salmon (salmo salar) |
publishDate |
2018 |
url |
http://nbn-resolving.org/urn:nbn:nl:ui:13-m3-q37p https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:102772 |
genre |
Atlantic salmon Salmo salar |
genre_facet |
Atlantic salmon Salmo salar |
op_relation |
doi:10.5061/dryad.4k2t07s/1 doi:10.5061/dryad.4k2t07s/2 doi:10.5061/dryad.4k2t07s/3 doi:10.1016/j.margen.2018.01.001 http://nbn-resolving.org/urn:nbn:nl:ui:13-m3-q37p doi:10.5061/dryad.4k2t07s https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:102772 |
op_rights |
OPEN_ACCESS: The data are archived in Easy, they are accessible elsewhere through the DOI https://dans.knaw.nl/en/about/organisation-and-policy/legal-information/DANSLicence.pdf |
op_doi |
https://doi.org/10.5061/dryad.4k2t07s/110.5061/dryad.4k2t07s/210.5061/dryad.4k2t07s/310.1016/j.margen.2018.01.00110.5061/dryad.4k2t07s |
_version_ |
1770271074316976128 |