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1. Enhanced individual selection for selecting fast growing fish: the 'PROSPER' method, with application on brown trout (Salmo trutta fario)

Author

Vandeputte Marc, Hiseux Jean-Pierre, Fauré André, Labbé Laurent, Mambrini Muriel, Hollebecq Marie-Gwénola, Krieg Francine, Quillet Edwige, and Chevassus Bernard

Subjects
Salmo trutta, selective breeding, aquaculture, genetics, individual selection, Animal culture, SF1-1100, Genetics, QH426-470
Abstract

Abstract Growth rate is the main breeding goal of fish breeders, but individual selection has often shown poor responses in fish species. The PROSPER method was developed to overcome possible factors that may contribute to this low success, using (1) a variable base population and high number of breeders (Ne > 100), (2) selection within groups with low non-genetic effects and (3) repeated growth challenges. Using calculations, we show that individual selection within groups, with appropriate management of maternal effects, can be superior to mass selection as soon as the maternal effect ratio exceeds 0.15, when heritability is 0.25. Practically, brown trout were selected on length at the age of one year with the PROSPER method. The genetic gain was evaluated against an unselected control line. After four generations, the mean response per generation in length at one year was 6.2% of the control mean, while the mean correlated response in weight was 21.5% of the control mean per generation. At the 4th generation, selected fish also appeared to be leaner than control fish when compared at the same size, and the response on weight was maximal (≈130% of the control mean) between 386 and 470 days post fertilisation. This high response is promising, however, the key points of the method have to be investigated in more detail.

Published
2004
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2. A synthetic rainbow trout linkage map provides new insights into the salmonid whole genome duplication and the conservation of synteny among teleosts

Author

Guyomard René, Boussaha Mekki, Krieg Francine, Hervet Caroline, and Quillet Edwige

Subjects
Genetics, QH426-470
Abstract

Abstract Background Rainbow trout is an economically important fish and a suitable experimental organism in many fields of biology including genome evolution, owing to the occurrence of a salmonid specific whole-genome duplication (4th WGD). Rainbow trout is among some of the most studied teleosts and has benefited from substantial efforts to develop genomic resources (e.g., linkage maps. Here, we first generated a synthetic map by merging segregation data files derived from three independent linkage maps. Then, we used it to evaluate genome conservation between rainbow trout and three teleost models, medaka, stickleback and zebrafish and to further investigate the extent of the 4th WGD in trout genome. Results The INRA linkage map was updated by adding 211 new markers. After standardization of marker names, consistency of marker assignment to linkage groups and marker orders was checked across the three different data sets and only loci showing consistent location over all or almost all of the data sets were kept. This resulted in a synthetic map consisting of 2226 markers and 29 linkage groups spanning over 3600 cM. Blastn searches against medaka, stickleback, and zebrafish genomic databases resulted in 778, 824 and 730 significant hits respectively while blastx searches yielded 505, 513 and 510 significant hits. Homology search results revealed that, for most rainbow trout chromosomes, large syntenic regions encompassing nearly whole chromosome arms have been conserved between rainbow trout and its closest models, medaka and stickleback. Large conserved syntenies were also found between the genomes of rainbow trout and the reconstructed teleost ancestor. These syntenies consolidated the known homeologous affinities between rainbow trout chromosomes due to the 4th WGD and suggested new ones. Conclusions The synthetic map constructed herein further highlights the stability of the teleost genome over long evolutionary time scales. This map can be easily extended by incorporating new data sets and should help future rainbow trout whole genome sequence assembly. Finally, the persistence of large conserved syntenies across teleosts should facilitate the identification of candidate genes through comparative mapping, even if the occurrence of intra-chromosomal micro-rearrangement may hinder the accurate prediction their genomic location.

Published
2012
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3. Detection of QTL with effects on osmoregulation capacities in the rainbow trout (Oncorhynchus mykiss)

Author

Pottinger Thomas G, Bovenhuis Henk, Boussaha Mekki, Guyomard René, Filangi Olivier, Krieg Francine, Dechamp Nicolas, Le Bras Yvan, Prunet Patrick, Le Roy Pascale, and Quillet Edwige

Subjects
Genetics, QH426-470
Abstract

Abstract Background There is increasing evidence that the ability to adapt to seawater in teleost fish is modulated by genetic factors. Most studies have involved the comparison of species or strains and little is known about the genetic architecture of the trait. To address this question, we searched for QTL affecting osmoregulation capacities after transfer to saline water in a nonmigratory captive-bred population of rainbow trout. Results A QTL design (5 full-sib families, about 200 F2 progeny each) was produced from a cross between F0 grand-parents previously selected during two generations for a high or a low cortisol response after a standardized confinement stress. When fish were about 18 months old (near 204 g body weight), individual progeny were submitted to two successive hyper-osmotic challenges (30 ppt salinity) 14 days apart. Plasma chloride and sodium concentrations were recorded 24 h after each transfer. After the second challenge, fish were sacrificed and a gill index (weight of total gill arches corrected for body weight) was recorded. The genome scan was performed with 196 microsatellites and 85 SNP markers. Unitrait and multiple-trait QTL analyses were carried out on the whole dataset (5 families) through interval mapping methods with the QTLMap software. For post-challenge plasma ion concentrations, significant QTL (P < 0.05) were found on six different linkage groups and highly suggestive ones (P < 0.10) on two additional linkage groups. Most QTL affected concentrations of both chloride and sodium during both challenges, but some were specific to either chloride (2 QTL) or sodium (1 QTL) concentrations. Six QTL (4 significant, 2 suggestive) affecting gill index were discovered. Two were specific to the trait, while the others were also identified as QTL for post-challenge ion concentrations. Altogether, allelic effects were consistent for QTL affecting chloride and sodium concentrations but inconsistent for QTL affecting ion concentrations and gill morphology. There was no systematic lineage effect (grand-parental origin of QTL alleles) on the recorded traits. Conclusions For the first time, genomic loci associated with effects on major physiological components of osmotic adaptation to seawater in a nonmigratory fish were revealed. The results pave the way for further deciphering of the complex regulatory mechanisms underlying seawater adaptation and genes involved in osmoregulatory physiology in rainbow trout and other euryhaline fishes.

Published
2011
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4. A first generation integrated map of the rainbow trout genome

Author

Tabet-Canale Kamila, Castaño-Sánchez Cecilia, Hu Yuqin, Gao Guangtu, Charlet Aurélie, Luo Ming-Cheng, Genet Carine, Palti Yniv, Krieg Francine, Yao Jianbo, Vallejo Roger L, and Rexroad Caird E

Subjects
Biotechnology, TP248.13-248.65, Genetics, QH426-470
Abstract

Abstract Background Rainbow trout (Oncorhynchus mykiss) are the most-widely cultivated cold freshwater fish in the world and an important model species for many research areas. Coupling great interest in this species as a research model with the need for genetic improvement of aquaculture production efficiency traits justifies the continued development of genomics research resources. Many quantitative trait loci (QTL) have been identified for production and life-history traits in rainbow trout. An integrated physical and genetic map is needed to facilitate fine mapping of QTL and the selection of positional candidate genes for incorporation in marker-assisted selection (MAS) programs for improving rainbow trout aquaculture production. Results The first generation integrated map of the rainbow trout genome is composed of 238 BAC contigs anchored to chromosomes of the genetic map. It covers more than 10% of the genome across segments from all 29 chromosomes. Anchoring of 203 contigs to chromosomes of the National Center for Cool and Cold Water Aquaculture (NCCCWA) genetic map was achieved through mapping of 288 genetic markers derived from BAC end sequences (BES), screening of the BAC library with previously mapped markers and matching of SNPs with BES reads. In addition, 35 contigs were anchored to linkage groups of the INRA (French National Institute of Agricultural Research) genetic map through markers that were not informative for linkage analysis in the NCCCWA mapping panel. The ratio of physical to genetic linkage distances varied substantially among chromosomes and BAC contigs with an average of 3,033 Kb/cM. Conclusions The integrated map described here provides a framework for a robust composite genome map for rainbow trout. This resource is needed for genomic analyses in this research model and economically important species and will facilitate comparative genome mapping with other salmonids and with model fish species. This resource will also facilitate efforts to assemble a whole-genome reference sequence for rainbow trout.

Published
2011
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5. A Type I and Type II microsatellite linkage map of Rainbow trout (Oncorhynchus mykiss) with presumptive coverage of all chromosome arms

Author

Krieg Francine, Genet Carine, Martineau Sylvain, Tabet-Canale Kamila, Mauger Stéphane, Guyomard René, and Quillet Edwige

Subjects
Biotechnology, TP248.13-248.65, Genetics, QH426-470
Abstract

Abstract Background The development of large genomic resources has become a prerequisite to elucidate the wide-scale evolution of genomes and the molecular basis of complex traits. Linkage maps represent a first level of integration and utilization of such resources and the primary framework for molecular analyses of quantitative traits. Previously published linkage maps have already outlined the main peculiarities of the rainbow trout meiosis and a correspondance between linkage groups and chromosome arms has been recently established using fluorescent in situ hybridization. The number of chromosome arms which were covered by these maps remained unknown. Results We report an updated linkage map based on segregation analysis of more than nine hundred microsatellite markers in two doubled haploid gynogenetic lines. These markers segregated into 31 linkage groups spanning an approximate total map length of 2750 cM. Centromeres were mapped for all the linkage groups using meiogenetic lines. For each of the 31 linkage groups, the meta or acrocentric structure infered from centromere mapping was identical with those recently found with fluorescent in situ hybridization results. The present map is therefore assumed to cover the 52 chromosome arms which constitute the rainbow trout karyotype. Our data confirm the occurrence of a high interference level in this species. Homeologous regions were identified in eleven linkage groups, reflecting the tetraploid nature of the salmonid genome. The data supported the assumption that gene orders are conserved between duplicated groups and that each group is located on a single chromosome arm. Overall, a high congruence with already published rainbow trout linkage maps was found for both gene syntenies and orders. Conclusion This new map is likely to cover the whole set of chromosome arms and should provide a useful framework to integrate existing or forthcoming rainbow trout linkage maps and other genomic resources. Since very large numbers of EST containing microsatellite sequences are available in databases, it becomes feasible to construct high-density linkage maps localizing known genes. This will facilitate comparative mapping and, eventually, identification of candidate genes in QTL studies.

Published
2006
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7. A first generation integrated map of the rainbow trout genome

Author

Palti, Yniv, Genet, Carine, Luo, Ming-Cheng, Charlet, Aurélie, Gao, Guangtu, Hu, Yuqin, Castaño-Sánchez, Cecilia, Tabet-Canale, Kamila, Krieg, Francine, Yao, Jianbo, Vallejo, Roger L, and Rexroad, Caird E

Abstract

Abstract Background Rainbow trout (Oncorhynchus mykiss) are the most-widely cultivated cold freshwater fish in the world and an important model species for many research areas. Coupling great interest in this species as a research model with the need for genetic improvement of aquaculture production efficiency traits justifies the continued development of genomics research resources. Many quantitative trait loci (QTL) have been identified for production and life-history traits in rainbow trout. An integrated physical and genetic map is needed to facilitate fine mapping of QTL and the selection of positional candidate genes for incorporation in marker-assisted selection (MAS) programs for improving rainbow trout aquaculture production. Results The first generation integrated map of the rainbow trout genome is composed of 238 BAC contigs anchored to chromosomes of the genetic map. It covers more than 10% of the genome across segments from all 29 chromosomes. Anchoring of 203 contigs to chromosomes of the National Center for Cool and Cold Water Aquaculture (NCCCWA) genetic map was achieved through mapping of 288 genetic markers derived from BAC end sequences (BES), screening of the BAC library with previously mapped markers and matching of SNPs with BES reads. In addition, 35 contigs were anchored to linkage groups of the INRA (French National Institute of Agricultural Research) genetic map through markers that were not informative for linkage analysis in the NCCCWA mapping panel. The ratio of physical to genetic linkage distances varied substantially among chromosomes and BAC contigs with an average of 3,033 Kb/cM. Conclusions The integrated map described here provides a framework for a robust composite genome map for rainbow trout. This resource is needed for genomic analyses in this research model and economically important species and will facilitate comparative genome mapping with other salmonids and with model fish species. This resource will also facilitate efforts to assemble a whole-genome reference sequence for rainbow trout.

Published
2011

8. Genetic determinism of spontaneous masculinisation in XX female rainbow trout: new insights using medium throughput genotyping and whole-genome sequencing

Author

Fraslin, Clémence, Phocas, Florence, Bestin, Anastasia, Charles, Mathieu, Bernard, Maria, Krieg, Francine, Dechamp, Nicolas, Ciobotaru, Céline, Hozé, Chris, Petitprez, Florent, Milhes, Marine, Lluch, Jérôme, Bouchez, Olivier, Poncet, Charles, Hocdé, Philippe, Haffray, Pierrick, Guiguen, Yann, and Quillet, Edwige

Published
2020
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12. A linkage map for brown trout (Salmo trutta): chromosome homeologies and comparative genome organization with other salmonid fish

Author

Gharbi, Karim, Gautier, Angelique, Danzmann, Roy G., Gharbi, Sonia, Sakamoto, Takashi, Hoyheim, Bj0rn, Taggart, John B., Cairney, Margaret, Powell, Richard, Krieg, Francine, Okamoto, Nobuaki, Ferguson, Moira M., Holm, Lars-Erik, and Guyomard, Rene

Subjects
Brown trout -- Comparative analysis, Brown trout -- Genetic aspects, Genomics -- Comparative analysis, Biological sciences
Abstract

We report on the construction of a linkage map for brown trout (Salmo trutta) and its comparison with those of other tetraploid-derivative fish ill the family Salmonidae, including Atlantic salmon (Salmo salar), rainbow trout (Oncorhynchus mykiss), and Arctic char (Salvelinus alpinus). Overall, we identified 37 linkage groups (2n = 80) from the analysis of 288 microsatellite polymorphisms, 13 allozyme markers, and phenotypic sex in four backcross families. Additionally, we used gene-centromere analysis to approximate the position of the centromere for 20 linkage groups and thus relate linkage arrangements to the physical morphology of chromosomes. Sex-specific maps derived from multiple parents were estimated to cover 346.4 and 912.5 cM of the male and female genomes, respectively. As previously observed in other salmonids, recombination rates showed large sex differences (average female-to-male ratio was 6.4), with male crossovers generally localized toward the distal end of linkage groups. Putative homeologous regions inherited from the salmonid tetraploid ancestor were identified for 10 pairs of linkage groups, including five chromosomes showing evidence of residual tetrasomy (pseudolinkage). Map alignments with orthologous regions in Atlantic salmon, rainbow trout, and Arctic char also revealed extensive conservation of syntenic blocks across species, which was generally consistent with chromosome divergence through Robertsonian translocations.

Published
2006

13. Genetic determinism of spontaneous masculinisation in XX female rainbow trout: new insights using medium throughput genotyping and whole-genome sequencing

Author

Fraslin, Clémence, primary, Phocas, Florence, additional, Bestin, Anastasia, additional, Charles, Mathieu, additional, Bernard, Maria, additional, Krieg, Francine, additional, Dechamp, Nicolas, additional, Ciobotaru, Céline, additional, Hozé, Chris, additional, Petitprez, Florent, additional, Milhes, Marine, additional, Lluch, Jérôme, additional, Bouchez, Olivier, additional, Poncet, Charles, additional, Hocdé, Philippe, additional, Haffray, Pierrick, additional, Guiguen, Yann, additional, and Quillet, Edwige, additional

Published
2020
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19. La greffe des cellules souches germinales permet la production de populations monosexes chez les salmonidés

Author

Trempont, Sarah, Goupil, Anne-Sophie, Terrenne, Tina, Dechamp, Nicolas, Labbé, Laurent, Hocdé, Philippe, Krieg, Francine, Goardon, Lionel, Lareyre, Jean-Jacques, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Pisciculture Expérimentale INRA des Monts d'Arrée (PEIMA), Institut National de la Recherche Agronomique (INRA), Génétique Animale et Biologie Intégrative (GABI), AgroParisTech-Institut National de la Recherche Agronomique (INRA), Pisciculture Charles Murgat, and FEAMP 2017 [mesure 47 - Innovation aquaculture]

Subjects
[SDV.GEN]Life Sciences [q-bio]/Genetics, [SDV.GEN.GA]Life Sciences [q-bio]/Genetics/Animal genetics, [SDV]Life Sciences [q-bio], [INFO]Computer Science [cs], multipotence, ComputingMilieux_MISCELLANEOUS
Abstract

National audience

Published
2019

20. Towards improving the practicability of germ stem cell grafting in commercial salmonids farms

Author

Trempont, Sarah, Goupil, Anne-Sophie, Terrenne, Tina, Krieg, Francine, Bideau, Marjorie, Dechamp, Nicolas, Labbé, Laurent, Hocde, Philippe, Goardon, Lionel, Lareyre, Jean-Jacques, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Pisciculture Expérimentale INRA des Monts d'Arrée (PEIMA), Institut National de la Recherche Agronomique (INRA), Génétique Animale et Biologie Intégrative (GABI), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, European Maritime and Fisheries Fund (FEAMP 2014-2020) under the BioGerm grant, AgroParisTech-Institut National de la Recherche Agronomique (INRA), and European Project: 652831,H2020,H2020-INFRAIA-2014-2015,AQUAEXCEL2020(2015)

Subjects
Rainbow trout, [SDV]Life Sciences [q-bio], education, germinal chimera, Arctic char, germ stem cell, transplantation
Abstract

Towards improving the practicability of germ stem cell grafting in commercial salmonids farms. 7. International Workshop on the Biology of Fish Gametes

Published
2019

21. Développement d’une procédure de production de populations monosexes femelles chez lessalmonidés sans utilisation d’hormone exogène

Author

Trempont, Sarah, Terrenne, Tina, Goupil, Anne-Sophie, Krieg, Francine, BIDEAU, Marjorie, Dechamp, Nicolas, Labbé, Laurent, Hocdé, Philippe, Goardon, Lionel, Lareyre, Jean-Jacques, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Pisciculture Expérimentale INRA des Monts d'Arrée (PEIMA), Institut National de la Recherche Agronomique (INRA), Génétique Animale et Biologie Intégrative (GABI), AgroParisTech-Institut National de la Recherche Agronomique (INRA), Pisciculture Charles Murgat, Fonds Européens des Affaires Maritimes et de la Pêche (FEAMP), Institut Technique de l'Aviculture et des Elevages de Petits Animaux (ITAVI). FRA., and Institut National de la Recherche Agronomique (INRA)-AgroParisTech

Subjects
fish, salmonidae, mode of production, [SDV]Life Sciences [q-bio], ovaire, sex control, reproduction, population monosexe, poisson, femelle, salmonids, contrôle du sexe, pisciculture, mode de production, ovary, greffe cellulaire, hormone trh exogène, fish farming, procédure
Abstract

Session : Reproduction; Développement d’une procédure de production de populations monosexes femelles chez lessalmonidés sans utilisation d’hormone exogène. 6. Journées de la Recherche Filière Piscicole

Published
2019

22. Régénération de lignées de truite par transplantation de cellules souches germinales

Author

Goupil, Anne-Sophie, Krieg, Francine, Maouche, Ahmed, Depince, Alexandra, Duret, Cécile, Dechamp, Nicolas, Goardon, Lionel, Quillet, Edwige, Le Gac, Florence, Lareyre, Jean-Jacques, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Génétique Animale et Biologie Intégrative (GABI), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Pisciculture Expérimentale INRA des Monts d'Arrée (PEIMA), Institut National de la Recherche Agronomique (INRA), Institut Technique de l'Aviculture et des Elevages de Petits Animaux (ITAVI). FRA., and European Project: 652831,H2020,H2020-INFRAIA-2014-2015,AQUAEXCEL2020(2015)

Subjects
[SDV.GEN]Life Sciences [q-bio]/Genetics, [SDV.GEN.GA]Life Sciences [q-bio]/Genetics/Animal genetics, [SDV]Life Sciences [q-bio], [INFO]Computer Science [cs], ComputingMilieux_MISCELLANEOUS
Abstract

Session : Reproduction; National audience

Published
2019

23. Enquête sur la masculinisation spontanée dans les élevages français de truite arc-en-ciel monosexe femelle

Author

Bestin, Anastasia, Enez, Florian, Krieg, Francine, Denis, Catherine, Le Coat, Robert, Hocdé, Philippe, Barbaza, Jacques Antoine, Guiguen, Yann, Haffray, Pierrick, Quillet, Edwige, Syndicat des Sélectionneurs Avicoles et Aquacoles Français (SYSAAF), Génétique Animale et Biologie Intégrative (GABI), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Les Aquaculteurs Bretons, Pisciculture Charles Murgat, Pisciculture de Font Rome, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Fonds Européens des Affaires Maritimes et de la Pêche (FEAMP) Neobio - France AgriMer, Institut Technique de l'Aviculture et des Elevages de Petits Animaux (ITAVI). FRA., Syndicat des Sélectionneurs Avicoles et Aquacoles Français, AgroParisTech-Institut National de la Recherche Agronomique (INRA), and Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA)

Subjects
fish, salmonidae, trout, oncorhynchus mykiss, masculinisation, [SDV]Life Sciences [q-bio], marqueur génétique, gène déterminant majeur du sexe, rainbow trout, reproduction, poisson, femelle, rainbow, salmonids, pisciculture, sélection, virilization, fish farming, truite arc en ciel
Abstract

Session : Reproduction; Enquête sur la masculinisation spontanée dans les élevages français de truite arc-en-ciel monosexe femelle. 6. Journées de la Recherche Filière Piscicole

Published
2019

24. Additional file 1: of Genetic and transcriptomic analyses provide new insights on the early antiviral response to VHSV in resistant and susceptible rainbow trout

Author

Verrier, Eloi, Genet, Carine, LaloĂŤ, Denis, Jaffrezic, Florence, Rau, Andrea, Esquerre, Diane, Dechamp, Nicolas, CĂŠline Ciobotaru, Hervet, Caroline, Krieg, Francine, Jouneau, Luc, Klopp, Christophe, Quillet, Edwige, and Boudinot, Pierre

Abstract

Similar transcriptional response dynamics in B57 and A22 cells. The distribution of the fold change of all induced genes, or only ISG as defined for Fig. 2, was represented across the basal level of gene expression. (PDF 360 kb)

Published
2018
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25. MOESM3 of Quantitative trait loci for resistance to Flavobacterium psychrophilum in rainbow trout: effect of the mode of infection and evidence of epistatic interactions

Author

Fraslin, Clémence, Dechamp, Nicolas, Bernard, Maria, Krieg, Francine, Hervet, Caroline, Guyomard, René, Esquerré, Diane, Barbieri, Johanna, Kuchly, Claire, Duchaud, Eric, Boudinot, Pierre, Rochat, Tatiana, Jean-François Bernardet, and Quillet, Edwige

Abstract

Additional file 3: Figure S2. Evolution of the rate of hererozygosity along chromosomes (mean values for the 24 individuals with an overall rate of heterozygosity higher than 1%). Description: Metacentric chromosomes (a): under the hypothesis of spontaneous retention of the second polar body during meiosis, the rate of heterozygosity is expected to be lower around the centromere (—) than in telomeric regions (- - - -). Acrocentric chromosomes (b): under the hypothesis of spontaneous retention of the second polar body during meiosis, the rate of heterozygosity is expected to increase along the chromosome from the centromeric region to the telomere. Data are illustrated for 15 chromosomes.

Published
2018
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26. Cartographie par rad-sequencing de QTL à l'origine de neomales spontanés chez la truite arc-en-ciel

Author

Guyomard, René, Bernard, Maria, Dechamp, Nicolas, Charlet, Aurélie, Hervet, C., Chantry-Darmon, Céline, Krieg, Francine, Guiguen, Yann, Quillet, Edwige, Génétique Animale et Biologie Intégrative (GABI), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, SIGENAE, Institut National de la Recherche Agronomique (INRA), Centre National de Ressources Génomiques Végétales (CNRGV), Laboratoire d'Analyse Génétique pour les Espèces Animales (LABOGENA), Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Institut Technique de l'Aviculture et des Elevages de Petits Animaux (ITAVI). FRA., and ANR-08-GENM-0031,SEXYTROUT,Caractérisation génétique et fonctionelle de la mutation masculinisante 'mal' chez la truite arc-en-ciel(2008)

Subjects
[SDV]Life Sciences [q-bio], [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, [INFO]Computer Science [cs], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2016

27. QTL associated to bacterial cold water disease in rainbow trout

Author

Quillet, Edwige, Dechamp, Nicolas, Hervet, Caroline, Krieg, Francine, Chantry-Darmon, Céline, Boussaha, Mekki, Berard, Aurélie, Laurens, V., Rochat, Tatiana, Duchaud, Éric, Boudinot, Pierre, Bernardet, Jean Francois, Michel, Christel, Génétique Animale et Biologie Intégrative (GABI), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Laboratoire d'Analyse Génétique pour les Espèces Animales (LABOGENA), Institut National de la Recherche Agronomique (INRA), Etude du Polymorphisme des Génomes Végétaux (EPGV), Lipides - Nutrition - Cancer (U866) (LNC), Université de Bourgogne (UB)-Institut National de la Santé et de la Recherche Médicale (INSERM)-AgroSup Dijon - Institut National Supérieur des Sciences Agronomiques, de l'Alimentation et de l'Environnement-Ecole Nationale Supérieure de Biologie Appliquée à la Nutrition et à l'Alimentation de Dijon (ENSBANA), Unité de recherche Virologie et Immunologie Moléculaires (VIM), Unité de recherche Virologie et Immunologie Moléculaires (VIM (UR 0892)), AgroParisTech-Institut National de la Recherche Agronomique (INRA), Génétique Animale et Biologie Intégrative ( GABI ), Institut National de la Recherche Agronomique ( INRA ) -AgroParisTech, Laboratoire d'Analyse Génétique pour les Espèces Animales ( LABOGENA ), Institut National de la Recherche Agronomique ( INRA ), Etude du Polymorphisme des Génomes Végétaux ( EPGV ), Lipides - Nutrition - Cancer (U866) ( LNC ), Université de Bourgogne ( UB ) -Institut National de la Santé et de la Recherche Médicale ( INSERM ) -AgroSup Dijon - Institut National Supérieur des Sciences Agronomiques, de l'Alimentation et de l'Environnement-Ecole Nationale Supérieure de Biologie Appliquée à la Nutrition et à l'Alimentation de Dijon ( ENSBANA ), Unité de recherche Virologie et Immunologie Moléculaires ( VIM ), and ProdInra, Archive Ouverte

Subjects
[SDV] Life Sciences [q-bio], resistance, disease, [ SDV ] Life Sciences [q-bio], [SDV]Life Sciences [q-bio], rainbow trout
Abstract

absent

Published
2014

28. Cartographie RADtag d’haploïdes doubles de truite arc-en-ciel et détection d’un QTL de couleur de la robe

Author

Guyomard, René, Bernard, Maria, Hervet, Caroline, Krieg, Francine, Guiguen, Yann, Quillet, Edwige, Génétique Animale et Biologie Intégrative (GABI), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Contrat ANR Sexytrout, and AgroParisTech-Institut National de la Recherche Agronomique (INRA)

Subjects
[SDV]Life Sciences [q-bio]
Abstract

absent

Published
2014

30. Determinism of spontaneous masculinization in XX rainbow trout females

Author

Guyomard, René, Guiguen, Yann, Charlet, Aurélie, Dechamp, Nicolas, Hervet, Caroline, Krieg, Francine, Quillet, Edwige, Génétique Animale et Biologie Intégrative (GABI), AgroParisTech-Institut National de la Recherche Agronomique (INRA), Laboratoire de Physiologie et Génomique des Poissons (LPGP), Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), and Auburn University. USA.

Subjects
[SDV]Life Sciences [q-bio]
Abstract

absent

Published
2012

31. Cartographie comparée de la truite commune et de la truite : évolution du génome des salmonidés par fusions robertsoniennes

Author

Guyomard, René, Canale-Tabet, Kamila, Martineau, Sylvain, Mauger, S., ANDRIAMANGA, Martine, Krieg, Francine, Hervet, Caroline, Quillet, Edwige, Génétique Animale et Biologie Intégrative (GABI), and Institut National de la Recherche Agronomique (INRA)-AgroParisTech

Subjects
COMPARATIVE MAPPING, ROBERTSONIAN TRANSLOCATION, RAINBOW TROUTS, GENETIC MAPS, [SDV]Life Sciences [q-bio], BROWN TROUTS, TRANSLOCATION ROBERTSONNIENNE
Published
2009

33. From functional genomic to genetic: search for genetic factors involved in stress-resistance in rainbow trout

Author

Prunet, Patrick, Lepage, Olivier, Le Borgne, Guenievre, Mativet, Sandrine, Krieg, Francine, Quillet, Edwige, Station commune de Recherches en Ichtyophysiologie, Biodiversité et Environnement (SCRIBE), Institut National de la Recherche Agronomique (INRA), Unité de recherche Génétique des Poissons (UGP), and ProdInra, Migration

Subjects
[SDV] Life Sciences [q-bio], [SDV]Life Sciences [q-bio], genomics, [INFO]Computer Science [cs], [INFO] Computer Science [cs], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2008

34. Analyse génétique de la résistance à un rhabdovirus chez la truite arc-en-ciel

Author

Quillet, Edwige, Genet, Carine, Krieg, Francine, Launay, Amandine, Le Guillou, Sandrine, Mauger, Stéphane, Canale-Tabet, Kamila, Boudinot, Pierre, Prunet, Patrick, Génétique Animale et Biologie Intégrative (GABI), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Unité de recherche Génétique des Poissons (UGP), Institut National de la Recherche Agronomique (INRA), Unité de recherche Virologie et Immunologie Moléculaires (VIM (UR 0892)), Station commune de Recherches en Ichtyophysiologie, Biodiversité et Environnement (SCRIBE), Unité de recherche Virologie et Immunologie Moléculaires (VIM), Laboratoire de Physiologie et Génomique des Poissons (LPGP), and Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )

Subjects
résistance aux maladies, trout, disease resistance, [SDV]Life Sciences [q-bio], truite
Abstract

absent

Published
2008

35. Etat des lieux et perspectives de la cartographie du génome de la truite

Author

Genet, Carine, Guyomard, René, Mauger, Stéphane, Canale-Tabet, Kamila, Krieg, Francine, Guiguen, Yann, Quillet, Edwige, Unité de recherche Génétique des Poissons (UGP), Institut National de la Recherche Agronomique (INRA), Amélioration des Plantes et Biotechnologies Végétales (APBV), Institut National de la Recherche Agronomique (INRA)-Université de Rennes (UR)-AGROCAMPUS OUEST, Station commune de Recherches en Ichtyophysiologie, Biodiversité et Environnement (SCRIBE), Institut National de la Recherche Agronomique (INRA)-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-AGROCAMPUS OUEST, and Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)

Subjects
[SDV]Life Sciences [q-bio], salmonid, genetics, [INFO]Computer Science [cs], ComputingMilieux_MISCELLANEOUS
Abstract

Chantier qualité spécifique "Auteurs Externes" département de Génétique animale : uniquement liaison auteur au référentiel HR-Access; National audience

Published
2007

37. Production spontanée d'ovules non réduits par endomitose préméiotique chez un hybride interspécifique Oncorhynchus mykiss (femelle) x O.Clarki (mâle)

Author

Krieg, Francine, Guyomard, René, Quillet, Edwige, Jalabert, Bernard, Chevassus-Au-Louis, Bernard, Unité de recherche Génétique des Poissons (UGP), Institut National de la Recherche Agronomique (INRA), Station commune de Recherches en Ichtyophysiologie, Biodiversité et Environnement (SCRIBE), and Muséum national d'Histoire naturelle (MNHN)

Subjects
[SDV]Life Sciences [q-bio], [INFO]Computer Science [cs], ONCORHYNCHUS CLARKI, GENETIQUE, ComputingMilieux_MISCELLANEOUS
Abstract

National audience

Published
2003

38. Premeiotic endomitosis and production of diploid ova in interspecific hybrid females Oncorhynchus mykiss (femelle) x O. Clarki (male)

Author

Krieg, Francine, Guyomard, René, Quillet, Edwige, Jalabert, Bernard, Chevassus-Au-Louis, Bernard, ProdInra, Migration, Unité de recherche Génétique des Poissons (UGP), Institut National de la Recherche Agronomique (INRA), and Station commune de Recherches en Ichtyophysiologie, Biodiversité et Environnement (SCRIBE)

Subjects
[SDV] Life Sciences [q-bio], [SDV]Life Sciences [q-bio], [INFO]Computer Science [cs], ONCORHYNCHUS CLARKI, GENETIQUE, [INFO] Computer Science [cs], ComputingMilieux_MISCELLANEOUS, SALMONIDE
Abstract

International audience

Published
2003

39. Variabilité génétique des écotypes sympatriques migrateurs et sédentaires de truite commune (Salmo trutta L.) des lacs alpins

Author

Krieg, Francine, Guyomard, René, Champigneulle, Alexis, Launey, Sophie, Unité de recherche Génétique des Poissons (UGP), Institut National de la Recherche Agronomique (INRA), Centre Alpin de Recherche sur les Réseaux Trophiques et Ecosystèmes Limniques (CARRTEL), Institut National de la Recherche Agronomique (INRA)-Université Savoie Mont Blanc (USMB [Université de Savoie] [Université de Chambéry]), and ProdInra, Migration

Subjects
[SDV] Life Sciences [q-bio], [SDV]Life Sciences [q-bio], LAC LEMAN, GENETIQUE DES POISSONS
Abstract

*INRA Laboratoire de génétique des poissons 78352 Jouy-en-Josas (FRA) Diffusion du document : INRA Laboratoire de génétique des poissons 78352 Jouy-en-Josas (FRA); National audience

Published
2001

40. Mitochondrial DNA variation in European populations of Silurus glanis

Author

Krieg, Francine, Triantafyllidis, A., Guyomard, René, Unité de recherche Génétique des Poissons (UGP), Institut National de la Recherche Agronomique (INRA), and ProdInra, Migration

Subjects
[SDV.SA]Life Sciences [q-bio]/Agricultural sciences, [SDV.SA] Life Sciences [q-bio]/Agricultural sciences, GENETIQUE DES POISSONS
Abstract

33 ref.; International audience

Published
2000

41. Detection of QTL with effects on osmoregulation capacities in the rainbow trout (Oncorhynchus mykiss)

Author

Le Bras, Yvan, Dechamp, Nicolas, Krieg, Francine, Filangi, Olivier, Guyomard, Rene, Boussaha, Mekki, Bovenhuis, Henk, Pottinger, Thomas G., Prunet, Patrick, Le Roy, Pascale, Quillet, Edwige, Le Bras, Yvan, Dechamp, Nicolas, Krieg, Francine, Filangi, Olivier, Guyomard, Rene, Boussaha, Mekki, Bovenhuis, Henk, Pottinger, Thomas G., Prunet, Patrick, Le Roy, Pascale, and Quillet, Edwige

Abstract

Background There is increasing evidence that the ability to adapt to seawater in teleost fish is modulated by genetic factors. Most studies have involved the comparison of species or strains and little is known about the genetic architecture of the trait. To address this question, we searched for QTL affecting osmoregulation capacities after transfer to saline water in a nonmigratory captive-bred population of rainbow trout. Results A QTL design (5 full-sib families, about 200 F2 progeny each) was produced from a cross between F0 grand-parents previously selected during two generations for a high or a low cortisol response after a standardized confinement stress. When fish were about 18 months old (204 g body weight), individual progeny were submitted to two successive hyper-osmotic challenges (30g of salt/L) at a 14 d interval. Plasma chloride and sodium concentrations were recorded 24h after each transfer. After the second challenge, fish were sacrificed and gill index (weight of total gill arches corrected for body weight) was recorded. The genome scan was performed using 200 microsatellites and 88 SNP markers. Unitrait and multitrait QTL analyses evidenced a total of 15 and 7 different QTL (P<0.10) for plasma ion concentrations and gill index respectively. Among the most significant QTL, three affected concentrations of both chloride and sodium during both challenges, two were specific to either chloride or sodium concentrations, three QTL were specific to gill index, and three affected both gill index and ionic concentrations in plasma. Altogether, allelic effects were consistent for QTL affecting chloride and sodium concentrations but inconsistent for QTL affecting ionic concentrations and gill morphology. There was no systematic lineage effect (grand-parental origin of QTL alleles) on the recorded traits. Conclusions For the first time, genomic loci associated with effects on major physiological components of osmotic adaptation to seawater in a nonmigratory f

Published
2011

42. L'amélioration génétique des performances zootechniques des poissons

Author

CHEVASSUS, B., BLANC, J.M., Chourrout, Daniel, Guyomard, René, Hollebecq, Marie Guenola, Krieg, Francine, Quillet, Edwige, ProdInra, Migration, Unité de recherche Génétique des Poissons (UGP), Institut National de la Recherche Agronomique (INRA), and Station d'hydrobiologie

Subjects
[SDV] Life Sciences [q-bio], [SDV]Life Sciences [q-bio], GENETIQUE, POOL GENIQUE, ComputingMilieux_MISCELLANEOUS
Abstract

National audience

Published
1996

43. Effets du repeuplement sur les caracteristiques biologiques des populations naturelles autochtones de truite commune : presentation d'une etude realisee en ruisseau experimental et perspectives offertes par ce type d'approche

Author

Krieg, Francine, Héland, Michel, Presa, P., Vignes, J.C., ANDRIAMANGA, Martine, Guyomard, René, ProdInra, Migration, Unité de recherche Génétique des Poissons (UGP), Institut National de la Recherche Agronomique (INRA), and Station d'hydrobiologie

Subjects
[SDV] Life Sciences [q-bio], [SDV]Life Sciences [q-bio], BIOLOGIE, GENETIQUE, CARACTERISTIQUE DU PEUPLEMENT, ComputingMilieux_MISCELLANEOUS, ECOLOGIE
Abstract

National audience

Published
1996

45. Assessment of introgression effects on the early dispersal in brown trout using microsatellite markers

Author

Krieg, Francine, Héland, Michel, Vignes, J.C., ANDRIAMANGA, Martine, Presa, P., Guyomard, René, Unité de recherche Génétique des Poissons (UGP), Institut National de la Recherche Agronomique (INRA), Station d'hydrobiologie, and ProdInra, Migration

Subjects
[SDV] Life Sciences [q-bio], [SDV]Life Sciences [q-bio], GENETIQUE, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
1994

46. Diversite et gestion genetique de la truite commune : apport de l'etude du polymorphisme des locus proteiques et microsatellites

Author

Presa, P., Krieg, Francine, Estoup, Arnaud, Guyomard, René, Unité de recherche Génétique des Poissons (UGP), and Institut National de la Recherche Agronomique (INRA)

Subjects
[SDV.GEN]Life Sciences [q-bio]/Genetics, GENETIQUE
Abstract

National audience; The electrophoretic polymorphism at 47 protein loci was studied in 24 domesticated and natural French brown trout populations. The variation at 5 microsatellite loci in 4 of these populations was also investigated. The total proportion of polymorphic loci was 57% for all the populations analysed and mnged from 0 to 37% between populations. This polymorphism allowed us to distinguish 2 subspecies which occupy the Atlantic and Mediterranean areas, respectively. The average standard genetic distance between these 2 groups was estimated to be 0.10. The genetic diversity of the Atlantic populations was substantially higher than that of the Mediterranean populations and showed some geographic structuration. All the domesticated stocks originated from the Atlantic area. The 5 microsatellite loci were polymorphic with a total number of alleles per locus ranging from 2 to 8 and heteroxygosity was between 0 and 74 %. These microsatellite loci also allowed us to distinguish the Mediterranean population from the 3 populations originating from the Atlantic area. The value of these results for the genetic management of brown trout is briefly discussed.; Nous avons examiné le polymorphisme électrophorétique de 47 locus enzymatiques dans 24 populations naturelles et domestiques de truite commune de France ainsi que la variabilité à 5 locus microsatellites dans 4 de ces populations. La proportion de locus enzymatiques polymorphes sur l’ensemble des échantillons est de 57% et varie de 0 à 37% entre populations. Ce polymorphisme permet de distinguer 2 sous-espèces distinctes occupant respectivement les bassins atlantique et méditerranéen et dont la distance génétique standard (Nei) s’établit, en moyenne, à 0,10. La variabilité des populations atlantiques s’avère nettement plus élevée que celle des populations méditerranéennes et présente un certain degré de structuration géographique. Toutes les souches domestiques étudiées ont une origine atlantique. Les 5 locus microsatellites examinés se sont avérés polymorphes avec un nombre d’allèles variant de 2 à 8 et des taux d’hétérozygotie intrapopulation de 0 à 74%. Ils permettent aussi de distinguer la population méditerranéenne étudiée des 3 populations d’origine atlantique. L’intérêt de ces résultats pour la gestion de la diversité génétique des populations naturelles de truite commune est brièvement présenté.

Published
1993

47. The genetics of the brown trout : twenty years of French research

Author

Chevassus, B., Krieg, Francine, Guyomard, René, Blanc, J.M., Quillet, Edwige, Unité de recherche Génétique des Poissons (UGP), Institut National de la Recherche Agronomique (INRA), Station d'hydrobiologie, and ProdInra, Migration

Subjects
[SDV] Life Sciences [q-bio], [SDV]Life Sciences [q-bio], GENETIQUE, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
1992

49. The potential of brown trout (Salmo trutta L.) for mariculture in temperate waters

Author

Quillet, Edwige, Fauré, André, CHEVASSUS, B., Krieg, Francine, Harache, Yves, Arzel, J., Boeuf, Gilles, Unité de recherche Génétique des Poissons (UGP), Institut National de la Recherche Agronomique (INRA), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), and ProdInra, Migration

Subjects
[SDV] Life Sciences [q-bio], [SDV]Life Sciences [q-bio], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
1991

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