Selection and phylogenetics of salmonid MHC class I: wild brown trout (Salmo trutta) differ from a non-native introduced strain
We tested how variation at a gene of adaptive importance, MHC class I (UBA), in a wild, endemic Salmo trutta population compared to that in both a previously studied non-native S. trutta population and a co-habiting Salmo salar population ( a sister species). High allelic diversity is observed and a...
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ftunivcollcork:oai:cora.ucc.ie:10468/2379 2023-08-27T04:08:32+02:00 Selection and phylogenetics of salmonid MHC class I: wild brown trout (Salmo trutta) differ from a non-native introduced strain O'Farrell, Brian Benzie, John A. H. McGinnity, Philip de Eyto, Elvira Dillane, Eileen Coughlan, Jamie P. Cross, Thomas F. 2013 application/pdf image/tiff application/vnd.openxmlformats-officedocument.wordprocessingml.document application/vnd.openxmlformats-officedocument.spreadsheetml.sheet http://hdl.handle.net/10468/2379 https://doi.org/10.1371/journal.pone.0063035 en eng Public Library of Science info:eu-repo/grantAgreement/SFI/SFI Principal Investigator Programme (PI)/05/FE1/B882/IE/Microbial Phylogeography/ e63035 O'Farrell B, Benzie JAH, McGinnity P, de Eyto E, Dillane E, Coughlan J, et al. (2013) Selection and Phylogenetics of Salmonid MHC Class I: Wild Brown Trout (Salmo trutta) Differ from a Non-Native Introduced Strain. PLoS ONE 8(5): e63035. doi:10.1371/journal.pone.0063035 doi:10.1371/journal.pone.0063035 1932-6203 5 PLOS ONE http://hdl.handle.net/10468/2379 8 © 2013 O'Farrell et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited http://creativecommons.org/licenses/by/4.0/ Major histocompatibility complex Peptide binding region Rainbow trout Oncorhynchus mykiss Atlantic salmon Natural selection Balancing selection Transspecies polymorphism Convergent evolution Parasite resistance Article (peer-reviewed) 2013 ftunivcollcork https://doi.org/10.1371/journal.pone.0063035 2023-08-06T14:30:28Z We tested how variation at a gene of adaptive importance, MHC class I (UBA), in a wild, endemic Salmo trutta population compared to that in both a previously studied non-native S. trutta population and a co-habiting Salmo salar population ( a sister species). High allelic diversity is observed and allelic divergence is much higher than that noted previously for cohabiting S. salar. Recombination was found to be important to population-level divergence. The alpha 1 and alpha 2 domains of UBA demonstrate ancient lineages but novel lineages are also identified at both domains in this work. We also find examples of recombination between UBA and the non-classical locus, ULA. Evidence for strong diversifying selection was found at a discrete suite of S. trutta UBA amino acid sites. The pattern was found to contrast with that found in re-analysed UBA data from an artificially stocked S. trutta population. Article in Journal/Newspaper Atlantic salmon Salmo salar University College Cork, Ireland: Cork Open Research Archive (CORA) Ula ENVELOPE(-57.139,-57.139,-64.086,-64.086) PLoS ONE 8 5 e63035 |
institution |
Open Polar |
collection |
University College Cork, Ireland: Cork Open Research Archive (CORA) |
op_collection_id |
ftunivcollcork |
language |
English |
topic |
Major histocompatibility complex Peptide binding region Rainbow trout Oncorhynchus mykiss Atlantic salmon Natural selection Balancing selection Transspecies polymorphism Convergent evolution Parasite resistance |
spellingShingle |
Major histocompatibility complex Peptide binding region Rainbow trout Oncorhynchus mykiss Atlantic salmon Natural selection Balancing selection Transspecies polymorphism Convergent evolution Parasite resistance O'Farrell, Brian Benzie, John A. H. McGinnity, Philip de Eyto, Elvira Dillane, Eileen Coughlan, Jamie P. Cross, Thomas F. Selection and phylogenetics of salmonid MHC class I: wild brown trout (Salmo trutta) differ from a non-native introduced strain |
topic_facet |
Major histocompatibility complex Peptide binding region Rainbow trout Oncorhynchus mykiss Atlantic salmon Natural selection Balancing selection Transspecies polymorphism Convergent evolution Parasite resistance |
description |
We tested how variation at a gene of adaptive importance, MHC class I (UBA), in a wild, endemic Salmo trutta population compared to that in both a previously studied non-native S. trutta population and a co-habiting Salmo salar population ( a sister species). High allelic diversity is observed and allelic divergence is much higher than that noted previously for cohabiting S. salar. Recombination was found to be important to population-level divergence. The alpha 1 and alpha 2 domains of UBA demonstrate ancient lineages but novel lineages are also identified at both domains in this work. We also find examples of recombination between UBA and the non-classical locus, ULA. Evidence for strong diversifying selection was found at a discrete suite of S. trutta UBA amino acid sites. The pattern was found to contrast with that found in re-analysed UBA data from an artificially stocked S. trutta population. |
format |
Article in Journal/Newspaper |
author |
O'Farrell, Brian Benzie, John A. H. McGinnity, Philip de Eyto, Elvira Dillane, Eileen Coughlan, Jamie P. Cross, Thomas F. |
author_facet |
O'Farrell, Brian Benzie, John A. H. McGinnity, Philip de Eyto, Elvira Dillane, Eileen Coughlan, Jamie P. Cross, Thomas F. |
author_sort |
O'Farrell, Brian |
title |
Selection and phylogenetics of salmonid MHC class I: wild brown trout (Salmo trutta) differ from a non-native introduced strain |
title_short |
Selection and phylogenetics of salmonid MHC class I: wild brown trout (Salmo trutta) differ from a non-native introduced strain |
title_full |
Selection and phylogenetics of salmonid MHC class I: wild brown trout (Salmo trutta) differ from a non-native introduced strain |
title_fullStr |
Selection and phylogenetics of salmonid MHC class I: wild brown trout (Salmo trutta) differ from a non-native introduced strain |
title_full_unstemmed |
Selection and phylogenetics of salmonid MHC class I: wild brown trout (Salmo trutta) differ from a non-native introduced strain |
title_sort |
selection and phylogenetics of salmonid mhc class i: wild brown trout (salmo trutta) differ from a non-native introduced strain |
publisher |
Public Library of Science |
publishDate |
2013 |
url |
http://hdl.handle.net/10468/2379 https://doi.org/10.1371/journal.pone.0063035 |
long_lat |
ENVELOPE(-57.139,-57.139,-64.086,-64.086) |
geographic |
Ula |
geographic_facet |
Ula |
genre |
Atlantic salmon Salmo salar |
genre_facet |
Atlantic salmon Salmo salar |
op_relation |
info:eu-repo/grantAgreement/SFI/SFI Principal Investigator Programme (PI)/05/FE1/B882/IE/Microbial Phylogeography/ e63035 O'Farrell B, Benzie JAH, McGinnity P, de Eyto E, Dillane E, Coughlan J, et al. (2013) Selection and Phylogenetics of Salmonid MHC Class I: Wild Brown Trout (Salmo trutta) Differ from a Non-Native Introduced Strain. PLoS ONE 8(5): e63035. doi:10.1371/journal.pone.0063035 doi:10.1371/journal.pone.0063035 1932-6203 5 PLOS ONE http://hdl.handle.net/10468/2379 8 |
op_rights |
© 2013 O'Farrell et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited http://creativecommons.org/licenses/by/4.0/ |
op_doi |
https://doi.org/10.1371/journal.pone.0063035 |
container_title |
PLoS ONE |
container_volume |
8 |
container_issue |
5 |
container_start_page |
e63035 |
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1775349342204329984 |