Coding Gene SNP Mapping Reveals QTL Linked to Growth and Stress Response in Brook Charr (Salvelinus fontinalis)
International audience Growth performance and reduced stress response are traits of major interest in fish production. Growth and stress-related quantitative trait loci (QTL) have been already identified in several salmonid species, but little effort has been devoted to charrs (genus Salvelinus). Mo...
Published in: | G3 Genes|Genomes|Genetics |
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Main Authors: | , , , , |
Other Authors: | , , , , , , , , , |
Format: | Article in Journal/Newspaper |
Language: | English |
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HAL CCSD
2012
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Online Access: | https://hal.archives-ouvertes.fr/hal-01251103 https://hal.archives-ouvertes.fr/hal-01251103/document https://hal.archives-ouvertes.fr/hal-01251103/file/Sauvage,%20Vagner%20et%20al%202012b.pdf https://doi.org/10.1534/g3.112.001990 |
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Archive ouverte HAL (Hyper Article en Ligne, CCSD - Centre pour la Communication Scientifique Directe) |
op_collection_id |
ftccsdartic |
language |
English |
topic |
linkage mapping QTL detection single-nucleotide polymorphism growth stress response TROUT ONCORHYNCHUS-MYKISS INFECTIOUS PANCREATIC NECROSIS RAINBOW-TROUT BODY-WEIGHT SEXUAL-MATURATION GENOME ARCHITECTURE Salvelinus fontinalis QUANTITATIVE TRAIT LOCI SALMON SALMO-SALAR POPULATIONS [SDV]Life Sciences [q-bio] |
spellingShingle |
linkage mapping QTL detection single-nucleotide polymorphism growth stress response TROUT ONCORHYNCHUS-MYKISS INFECTIOUS PANCREATIC NECROSIS RAINBOW-TROUT BODY-WEIGHT SEXUAL-MATURATION GENOME ARCHITECTURE Salvelinus fontinalis QUANTITATIVE TRAIT LOCI SALMON SALMO-SALAR POPULATIONS [SDV]Life Sciences [q-bio] Sauvage, Christopher Vagner, Marie Derôme, Nicolas Audet, Céline Bernatchez, Louis Coding Gene SNP Mapping Reveals QTL Linked to Growth and Stress Response in Brook Charr (Salvelinus fontinalis) |
topic_facet |
linkage mapping QTL detection single-nucleotide polymorphism growth stress response TROUT ONCORHYNCHUS-MYKISS INFECTIOUS PANCREATIC NECROSIS RAINBOW-TROUT BODY-WEIGHT SEXUAL-MATURATION GENOME ARCHITECTURE Salvelinus fontinalis QUANTITATIVE TRAIT LOCI SALMON SALMO-SALAR POPULATIONS [SDV]Life Sciences [q-bio] |
description |
International audience Growth performance and reduced stress response are traits of major interest in fish production. Growth and stress-related quantitative trait loci (QTL) have been already identified in several salmonid species, but little effort has been devoted to charrs (genus Salvelinus). Moreover, most QTL studies to date focused on one or very few traits, and little investigation has been devoted to QTL identification for gene expression. Here, our objective was to identify QTL for 27 phenotypes related to growth and stress responses in brook charr (Salvelinus fontinalis), which is one of the most economically important freshwater aquaculture species in Canada. Phenotypes included 12 growth parameters, six blood and plasma variables , three hepatic variables, and one plasma hormone level as well as the relative expression measurements of five genes of interest linked to growth regulation. QTL analysis relied on a linkage map recently built from S. fontinalis consisting of both single-nucleotide polymorphism (SNP, n = 266) and microsatellite (n =81) markers in an F 2 interstrain hybrid population (n = 171). We identified 63 growth-related QTL and four stress-related QTL across 18 of the 40 linkage groups of the brook charr linkage map. Percent variance explained, confidence interval, and allelic QTL effects also were investigated to provide insight into the genetic architecture of growth-and stress-related QTL. QTL related to growth performance and stress response that were identified could be classified into two groups: (1) a group composed of the numerous, small-effect QTL associated with some traits related to growth (i.e., weight) that may be under the control of a large number of genes or pleiotropic genes, and (2) a group of less numerous QTL associated with growth (i.e., gene expression) and with stress-related QTL that display a larger effect, suggesting that these QTL are under the control of a limited number of genes of major effect. This study represents a first step toward the ... |
author2 |
Génétique et Amélioration des Fruits et Légumes (GAFL) Institut National de la Recherche Agronomique (INRA) LIttoral ENvironnement et Sociétés - UMRi 7266 (LIENSs) Université de La Rochelle (ULR)-Centre National de la Recherche Scientifique (CNRS) Laboratoire Evolution, Génomes et Spéciation (LEGS) Centre National de la Recherche Scientifique (CNRS) Institut des Sciences de la MER de Rimouski (ISMER) Université du Québec à Rimouski (UQAR) Institut de Biologie Intégrative et des Systèmes Québec (IBIS) Natural Sciences and Engineering Research Council of Canada (NSERC); FQRNT (Fonds Quebecois pour la Recherche, Nature et Technologies) |
format |
Article in Journal/Newspaper |
author |
Sauvage, Christopher Vagner, Marie Derôme, Nicolas Audet, Céline Bernatchez, Louis |
author_facet |
Sauvage, Christopher Vagner, Marie Derôme, Nicolas Audet, Céline Bernatchez, Louis |
author_sort |
Sauvage, Christopher |
title |
Coding Gene SNP Mapping Reveals QTL Linked to Growth and Stress Response in Brook Charr (Salvelinus fontinalis) |
title_short |
Coding Gene SNP Mapping Reveals QTL Linked to Growth and Stress Response in Brook Charr (Salvelinus fontinalis) |
title_full |
Coding Gene SNP Mapping Reveals QTL Linked to Growth and Stress Response in Brook Charr (Salvelinus fontinalis) |
title_fullStr |
Coding Gene SNP Mapping Reveals QTL Linked to Growth and Stress Response in Brook Charr (Salvelinus fontinalis) |
title_full_unstemmed |
Coding Gene SNP Mapping Reveals QTL Linked to Growth and Stress Response in Brook Charr (Salvelinus fontinalis) |
title_sort |
coding gene snp mapping reveals qtl linked to growth and stress response in brook charr (salvelinus fontinalis) |
publisher |
HAL CCSD |
publishDate |
2012 |
url |
https://hal.archives-ouvertes.fr/hal-01251103 https://hal.archives-ouvertes.fr/hal-01251103/document https://hal.archives-ouvertes.fr/hal-01251103/file/Sauvage,%20Vagner%20et%20al%202012b.pdf https://doi.org/10.1534/g3.112.001990 |
geographic |
Canada |
geographic_facet |
Canada |
genre |
Salmo salar |
genre_facet |
Salmo salar |
op_source |
ISSN: 2160-1836 G3 https://hal.archives-ouvertes.fr/hal-01251103 G3, Genetics Society of America, 2012, 2 (6), pp.707 - 720. ⟨10.1534/g3.112.001990⟩ |
op_relation |
info:eu-repo/semantics/altIdentifier/doi/10.1534/g3.112.001990 hal-01251103 https://hal.archives-ouvertes.fr/hal-01251103 https://hal.archives-ouvertes.fr/hal-01251103/document https://hal.archives-ouvertes.fr/hal-01251103/file/Sauvage,%20Vagner%20et%20al%202012b.pdf PRODINRA: 214886 doi:10.1534/g3.112.001990 WOS: 000312454300009 |
op_rights |
http://creativecommons.org/licenses/by/ info:eu-repo/semantics/OpenAccess |
op_doi |
https://doi.org/10.1534/g3.112.001990 |
container_title |
G3 Genes|Genomes|Genetics |
container_volume |
2 |
container_issue |
6 |
container_start_page |
707 |
op_container_end_page |
720 |
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1766182741099937792 |
spelling |
ftccsdartic:oai:HAL:hal-01251103v1 2023-05-15T18:10:01+02:00 Coding Gene SNP Mapping Reveals QTL Linked to Growth and Stress Response in Brook Charr (Salvelinus fontinalis) Sauvage, Christopher Vagner, Marie Derôme, Nicolas Audet, Céline Bernatchez, Louis Génétique et Amélioration des Fruits et Légumes (GAFL) Institut National de la Recherche Agronomique (INRA) LIttoral ENvironnement et Sociétés - UMRi 7266 (LIENSs) Université de La Rochelle (ULR)-Centre National de la Recherche Scientifique (CNRS) Laboratoire Evolution, Génomes et Spéciation (LEGS) Centre National de la Recherche Scientifique (CNRS) Institut des Sciences de la MER de Rimouski (ISMER) Université du Québec à Rimouski (UQAR) Institut de Biologie Intégrative et des Systèmes Québec (IBIS) Natural Sciences and Engineering Research Council of Canada (NSERC); FQRNT (Fonds Quebecois pour la Recherche, Nature et Technologies) 2012 https://hal.archives-ouvertes.fr/hal-01251103 https://hal.archives-ouvertes.fr/hal-01251103/document https://hal.archives-ouvertes.fr/hal-01251103/file/Sauvage,%20Vagner%20et%20al%202012b.pdf https://doi.org/10.1534/g3.112.001990 en eng HAL CCSD Genetics Society of America info:eu-repo/semantics/altIdentifier/doi/10.1534/g3.112.001990 hal-01251103 https://hal.archives-ouvertes.fr/hal-01251103 https://hal.archives-ouvertes.fr/hal-01251103/document https://hal.archives-ouvertes.fr/hal-01251103/file/Sauvage,%20Vagner%20et%20al%202012b.pdf PRODINRA: 214886 doi:10.1534/g3.112.001990 WOS: 000312454300009 http://creativecommons.org/licenses/by/ info:eu-repo/semantics/OpenAccess ISSN: 2160-1836 G3 https://hal.archives-ouvertes.fr/hal-01251103 G3, Genetics Society of America, 2012, 2 (6), pp.707 - 720. ⟨10.1534/g3.112.001990⟩ linkage mapping QTL detection single-nucleotide polymorphism growth stress response TROUT ONCORHYNCHUS-MYKISS INFECTIOUS PANCREATIC NECROSIS RAINBOW-TROUT BODY-WEIGHT SEXUAL-MATURATION GENOME ARCHITECTURE Salvelinus fontinalis QUANTITATIVE TRAIT LOCI SALMON SALMO-SALAR POPULATIONS [SDV]Life Sciences [q-bio] info:eu-repo/semantics/article Journal articles 2012 ftccsdartic https://doi.org/10.1534/g3.112.001990 2021-10-24T10:57:40Z International audience Growth performance and reduced stress response are traits of major interest in fish production. Growth and stress-related quantitative trait loci (QTL) have been already identified in several salmonid species, but little effort has been devoted to charrs (genus Salvelinus). Moreover, most QTL studies to date focused on one or very few traits, and little investigation has been devoted to QTL identification for gene expression. Here, our objective was to identify QTL for 27 phenotypes related to growth and stress responses in brook charr (Salvelinus fontinalis), which is one of the most economically important freshwater aquaculture species in Canada. Phenotypes included 12 growth parameters, six blood and plasma variables , three hepatic variables, and one plasma hormone level as well as the relative expression measurements of five genes of interest linked to growth regulation. QTL analysis relied on a linkage map recently built from S. fontinalis consisting of both single-nucleotide polymorphism (SNP, n = 266) and microsatellite (n =81) markers in an F 2 interstrain hybrid population (n = 171). We identified 63 growth-related QTL and four stress-related QTL across 18 of the 40 linkage groups of the brook charr linkage map. Percent variance explained, confidence interval, and allelic QTL effects also were investigated to provide insight into the genetic architecture of growth-and stress-related QTL. QTL related to growth performance and stress response that were identified could be classified into two groups: (1) a group composed of the numerous, small-effect QTL associated with some traits related to growth (i.e., weight) that may be under the control of a large number of genes or pleiotropic genes, and (2) a group of less numerous QTL associated with growth (i.e., gene expression) and with stress-related QTL that display a larger effect, suggesting that these QTL are under the control of a limited number of genes of major effect. This study represents a first step toward the ... Article in Journal/Newspaper Salmo salar Archive ouverte HAL (Hyper Article en Ligne, CCSD - Centre pour la Communication Scientifique Directe) Canada G3 Genes|Genomes|Genetics 2 6 707 720 |