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11 results on '"Brunier, Joseph"'

1. Whole‐genome sequencing identifies interferon-induced protein IFI6/IFI27-like as a strong candidate gene for VNN resistance in European sea bass

Author

Delpuech, Emilie, Vandeputte, Marc, Morvezen, Romain, Bestin, Anastasia, Besson, Mathieu, Brunier, Joseph, Bajek, Aline, Imarazene, Boudjema, François, Yoannah, Bouchez, Olivier, Cousin, Xavier, Poncet, Charles, Morin, Thierry, Bruant, Jean-Sébastien, Chatain, Béatrice, Haffray, Pierrick, Phocas, Florence, and Allal, François

Published
2023
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2. Genome-wide association studies for resistance to viral nervous necrosis in three populations of European sea bass (Dicentrarchus labrax) using a novel 57k SNP array DlabChip

Author

Griot, Ronan, Allal, François, Phocas, Florence, Brard-Fudulea, Sophie, Morvezen, Romain, Bestin, Anastasia, Haffray, Pierrick, François, Yoannah, Morin, Thierry, Poncet, Charles, Vergnet, Alain, Cariou, Sophie, Brunier, Joseph, Bruant, Jean-Sébastien, Peyrou, Bruno, Gagnaire, Pierre-Alexandre, and Vandeputte, Marc

Published
2021
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3. Additional file 3 of Whole‐genome sequencing identifies interferon-induced protein IFI6/IFI27-like as a strong candidate gene for VNN resistance in European sea bass

Author

Delpuech, Emilie, Vandeputte, Marc, Morvezen, Romain, Bestin, Anastasia, Besson, Mathieu, Brunier, Joseph, Bajek, Aline, Imarazene, Boudjema, François, Yoannah, Bouchez, Olivier, Cousin, Xavier, Poncet, Charles, Morin, Thierry, Bruant, Jean-Sébastien, Chatain, Béatrice, Haffray, Pierrick, Phocas, Florence, and Allal, François

Abstract

Additional file 3: Flanking 50-bp sequences for the top associated SNPs in LG12_QTL_2. Genomic sequences flanking the IFI6/IFI27-like and ZDHHC14 SNPs computed from Dicentrarchus labrax genome (seabass_V1.0).

Published
2023
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4. Additional file 1 of Whole‐genome sequencing identifies interferon-induced protein IFI6/IFI27-like as a strong candidate gene for VNN resistance in European sea bass

Author

Delpuech, Emilie, Vandeputte, Marc, Morvezen, Romain, Bestin, Anastasia, Besson, Mathieu, Brunier, Joseph, Bajek, Aline, Imarazene, Boudjema, François, Yoannah, Bouchez, Olivier, Cousin, Xavier, Poncet, Charles, Morin, Thierry, Bruant, Jean-Sébastien, Chatain, Béatrice, Haffray, Pierrick, Phocas, Florence, and Allal, François

Abstract

Additional file 1: Figure S1. PCA on genotypes of commercial populations (pop A and pop B) and wild populations in the Atlantic (Atl) and Eastern Mediterranean (East-Med). Principal component analysis (PCA) using genotypic data from two commercial populations and two wild populations, one from the Atlantic strain (Atl) and the other from the West Mediterranean strain (East-Med).

Published
2023
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5. WHOLE GENOME SEQUENCING TO REFINE THE DETECTION OF QTL FOR VIRAL NERVOUS NECROSIS IN EUROPEAN SEA BASS (DICENTRARCHUS LABRAX)

Author

Delpuech, Emilie, Vandeputte, Marc, Phocas, Florence, Bestin, Anastasia, Besson, Mathieu, Bajek, Aline, Brunier, Joseph, Imarazene, Boudjema, Sourdioux, Michel, Haffray, Pierrick, Morvezen, Romain, Allal, François, Syndicat des Sélectionneurs Avicoles et Aquacoles Français (SYSAAF), MARine Biodiversity Exploitation and Conservation (UMR MARBEC), Institut de Recherche pour le Développement (IRD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM), Génétique Animale et Biologie Intégrative (GABI), AgroParisTech-Université Paris-Saclay-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Ecloserie Marine de Gravelines, and Ferme Marine du Douhet

Subjects
[SDV]Life Sciences [q-bio], viral nervous necrosis
Abstract

International audience

Published
2022

6. Whole‐genome sequencing identifies interferon induced protein IFI6 as a strong candidate gene for VNN resistance in European sea bass

Author

Delpuech, Emilie, primary, Vandeputte, Marc, additional, Morvezen, Romain, additional, Bestin, Anastasia, additional, Besson, Mathieu, additional, Brunier, Joseph, additional, Bajek, Aline, additional, Imarazene, Boudjema, additional, Francois, Yoannah, additional, Bouchez, Olivier, additional, Cousin, Xavier, additional, Poncet, Charles, additional, Morin, Thierry, additional, Bruant, Jean-Sebastien, additional, Chatain, Beatrice, additional, Haffray, Pierrick, additional, Phocas, Florence, additional, and Allal, Francois, additional

Published
2022
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7. Phenotypic and genomic correlations between feed efficiency and metabolic traits in European sea bass

Author

Besson, Mathieu, Mckenzie, David J, Nati, Julie J.H, Germain, Salou, Vergnet, Alain, Brunier, Joseph, Bajek, Aline, Vandeputte, Marc, Allal, François, Syndicat des Sélectionneurs Avicoles et Aquacoles Français (SYSAAF), MARine Biodiversity Exploitation and Conservation (UMR MARBEC), Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Institut de Recherche pour le Développement (IRD), Ecloserie Marine de Gravelines, Aquanord, Génétique Animale et Biologie Intégrative (GABI), and Université Paris-Saclay-AgroParisTech-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)

Subjects
[SDV.GEN.GA]Life Sciences [q-bio]/Genetics/Animal genetics, [SDV.SA.SPA]Life Sciences [q-bio]/Agricultural sciences/Animal production studies, [SDV.SA.STP]Life Sciences [q-bio]/Agricultural sciences/Sciences and technics of fishery, [SDV.SA.ZOO]Life Sciences [q-bio]/Agricultural sciences/Zootechny, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2021

8. Corrigendum: Optimization of Genomic Selection to Improve Disease Resistance in Two Marine Fishes, The European Sea Bass (Dicentrarchus labrax) and the Gilthead Sea Bream (Sparus aurata)

Author

Griot, Ronan, primary, Allal, François, additional, Phocas, Florence, additional, Brard-Fudulea, Sophie, additional, Morvezen, Romain, additional, Haffray, Pierrick, additional, François, Yoannah, additional, Morin, Thierry, additional, Bestin, Anastasia, additional, Bruant, Jean-Sébastien, additional, Cariou, Sophie, additional, Peyrou, Bruno, additional, Brunier, Joseph, additional, and Vandeputte, Marc, additional

Published
2021
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9. Optimization of Genomic Selection to Improve Disease Resistance in Two Marine Fishes, the European Sea Bass (Dicentrarchus labrax) and the Gilthead Sea Bream (Sparus aurata)

Author

Griot, Ronan, primary, Allal, François, additional, Phocas, Florence, additional, Brard-Fudulea, Sophie, additional, Morvezen, Romain, additional, Haffray, Pierrick, additional, François, Yoannah, additional, Morin, Thierry, additional, Bestin, Anastasia, additional, Bruant, Jean-Sébastien, additional, Cariou, Sophie, additional, Peyrou, Bruno, additional, Brunier, Joseph, additional, and Vandeputte, Marc, additional

Published
2021
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10. Optimization of Genomic Selection to Improve Disease Resistance in Two Marine Fishes, the European Sea Bass (Dicentrarchus labrax) and the Gilthead Sea Bream (Sparus aurata)

Author

Griot, Ronan, Allal, Francois, Phocas, Florence, Brard-fudulea, Sophie, Morvezen, Romain, Haffray, Pierrick, François, Yoannah, Morin, Thierry, Bestin, Anastasia, Bruant, Jean-sébastien, Cariou, Sophie, Peyrou, Bruno, Brunier, Joseph, Vandeputte, Marc, Griot, Ronan, Allal, Francois, Phocas, Florence, Brard-fudulea, Sophie, Morvezen, Romain, Haffray, Pierrick, François, Yoannah, Morin, Thierry, Bestin, Anastasia, Bruant, Jean-sébastien, Cariou, Sophie, Peyrou, Bruno, Brunier, Joseph, and Vandeputte, Marc

Abstract

Disease outbreaks are a major threat to the aquaculture industry, and can be controlled by selective breeding. With the development of high-throughput genotyping technologies, genomic selection may become accessible even in minor species. Training population size and marker density are among the main drivers of the prediction accuracy, which both have a high impact on the cost of genomic selection. In this study, we assessed the impact of training population size as well as marker density on the prediction accuracy of disease resistance traits in European sea bass (Dicentrarchus labrax) and gilthead sea bream (Sparus aurata). We performed a challenge to nervous necrosis virus (NNV) in two sea bass cohorts, a challenge to Vibrio harveyi in one sea bass cohort and a challenge to Photobacterium damselae subsp. piscicida in one sea bream cohort. Challenged individuals were genotyped on 57K–60K SNP chips. Markers were sampled to design virtual SNP chips of 1K, 3K, 6K, and 10K markers. Similarly, challenged individuals were randomly sampled to vary training population size from 50 to 800 individuals. The accuracy of genomic-based (GBLUP model) and pedigree-based estimated breeding values (EBV) (PBLUP model) was computed for each training population size using Monte-Carlo cross-validation. Genomic-based breeding values were also computed using the virtual chips to study the effect of marker density. For resistance to Viral Nervous Necrosis (VNN), as one major QTL was detected, the opportunity of marker-assisted selection was investigated by adding a QTL effect in both genomic and pedigree prediction models. As training population size increased, accuracy increased to reach values in range of 0.51–0.65 for full density chips. The accuracy could still increase with more individuals in the training population as the accuracy plateau was not reached. When using only the 6K density chip, accuracy reached at least 90% of that obtained with the full density chip. Adding the QTL e

Published
2021
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