Search

Your search keyword '"Muranty, Helene"' showing total 36 results
Start Over Author "Muranty, Helene"
36 results on '"Muranty, Helene"'

1. Genomic selection in apple: lessons from preliminary studies

Author

Muranty, Helene, Jung, Michaela, Roth, Morgane, Cazenave, Xabi, Patocchi, Andrea, Laurens, Francois, Durel, Charles-Eric, and MURANTY, Hélène

Subjects
[SDV.SA.HORT] Life Sciences [q-bio]/Agricultural sciences/Horticulture, [SDV.GEN.GPL] Life Sciences [q-bio]/Genetics/Plants genetics, [SDV.BV.AP] Life Sciences [q-bio]/Vegetal Biology/Plant breeding, Horticulture
Published
2023

2. Approaches to implement genomic selection in three Swiss apple breeding programs

Author

Jung, Michaela, Bühlmann-Schütz, Simone, Hodel, Marius, Kellerhals, Markus, Bolliger, Niklaus, Köhle, Moritz, Kobelt, Markus, Muranty, Helene, Studer, Bruno, Broggini, Giovanni A.L., Patocchi, Andrea, and MURANTY, Hélène

Subjects
[SDV.SA.HORT] Life Sciences [q-bio]/Agricultural sciences/Horticulture, [SDV.GEN.GPL] Life Sciences [q-bio]/Genetics/Plants genetics, [SDV.BV.AP] Life Sciences [q-bio]/Vegetal Biology/Plant breeding, Horticulture
Published
2023

5. Routine development of marker-assisted breeding (MAB) on apple and pear and new approaches for QTLs and major gene genotyping involved in disease resistance

Author

Petiteau, Aurélien, Denancé, Caroline, Durel, Charles-Eric, Muranty, Helene, Lebreton, François, Petit, Bernard, Laurens, François, and MURANTY, Hélène

Subjects
[SDV.SA.HORT] Life Sciences [q-bio]/Agricultural sciences/Horticulture, [SDV.GEN.GPL] Life Sciences [q-bio]/Genetics/Plants genetics, [SDV.BV.AP] Life Sciences [q-bio]/Vegetal Biology/Plant breeding
Published
2022

6. Optimizing predictions for applying genomic selection to texture in Apple

Author

Roth, Morgane, Di Guardo, Mario, Guerra, Walter, Muranty, Helene, Patocchi, Andrea, Costa, Fabrizio, Agroscope Changins-Wädenswil Research Station ACW, Fondazione Edmund Mach - Edmund Mach Foundation [Italie] (FEM), Research Centre Laimburg, Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-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)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)

Subjects
[SDV.GEN.GPL]Life Sciences [q-bio]/Genetics/Plants genetics, Genomics-informed breeding, [SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN], New breeding tools, Genetic variability, [SDV.SA.HORT]Life Sciences [q-bio]/Agricultural sciences/Horticulture, Crop evolution
Abstract

International audience; Although genomic selection promised to increase drastically breeding efficiency in perennial crops, it is not yet broadly applied in fruit trees. Among the several targets in apple breeding, fruit texture is an essential feature affecting both consumers’ appreciation and storage performance. Due to the fixation of alleles at the major genes underlying texture in modern breeding programs, the available genetic variability for this trait might rely on minor effect alleles, which can be targeted with genomic selection. In this study, we aimed to assess the feasibility of genomic selection for texture in a population of 537 individuals consisting in a collection of 259 individuals and 6 full-sib biparental families, all genotyped with 8,294 SNPs. We dissected the fruit texture complexity by measuring twelve acoustic and mechanical subtraits with a TA.XTplus texture analyzer. We applied different scenarios for the design of the training population with and without taking into account genetic parameters. The use of the entire collection to predict families was not the most efficient strategy, since families were best predicted using training populations composed of the 10 to 202 most related individuals. Training population optimization allowed increasing prediction accuracies by 0.17 on average, reaching a maximum accuracy of 0.78 for predicting the number of force peaks in the family ‘Gala x Pink Lady’. As the two first principal components of texture traits summarized firmness (PC1) and crispiness (PC2), we predicted these two synthetic traits and obtained maximum accuracies of 0.81 and 0.40, respectively. Furthermore, our results indicate that although genetic clustering may be correlated to texture profiles, genetic relatedness might already capture the clustering effect in predictions. Our work sheds light on the high potential for predicting texture in apple. The methods presented here also provide insights for efficiently designing genomic selection trials in fruit trees.

Published
2020

7. Genetic variation of the riparian pioneer tree species Populus nigra. 2: variation in susceptibility to the foliar rust Melampsora larici-populina

Author

Legionnet, Agnes, Muranty, Helene, and Lefevre, Francois

Subjects
France -- Environmental aspects, Poplar -- Research, Rust diseases -- Research, Biological sciences
Abstract

Some species of European black poplar in France are more resistant to foliar rust than others. No species was found to be completely resistant, with partial resistance split into epidemiological components. Up to 20% of resistance variation was found between the 9 regions studied, and up to 22% between stands.

Published
1999

8. The apple-REFPOP, an apple tree population dedicated to multi-trait genomic selection in a multi-environment design

Author

Roth, Morgane, Jung, Michaela, Bink, Marco C. A. M., Guerra, Walter, Durel, Charles Eric, Denance, Caroline, Ordidge, Matthew, Rymenants, Marijn, Auwerkerken, Annemarie, Lewandowski, Mariusz, Zurawicz, Edward, Dujak, Christian, Aranzana, Maria Jose, Laurens, Francois, Patocchi, Andrea, Muranty, Helene, Agroscope, Eidgenössische Technische Hochschule - Swiss Federal Institute of Technology [Zürich] (ETH Zürich), Hendrix Genetics, Research Centre Laimburg, Institut de Recherche en Horticulture et Semences (IRHS), AGROCAMPUS OUEST, 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)-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA), University of Reading (UOR), Better3Fruit N.V., Partenaires INRAE, Research Institute of Horticulture, Institute of Agrifood Research and Technology (IRTA), Breeding Research Group, the EU-H2020 project N°817970 INVITE, and ISHS.

Subjects
training population, [SDV.SA]Life Sciences [q-bio]/Agricultural sciences, genotype by environment interactions, genomic predictions, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, Malus domestica, [SDV.BV.PEP]Life Sciences [q-bio]/Vegetal Biology/Phytopathology and phytopharmacy
Abstract

International audience; Genomic selection has the potential to increase the efficiency of breeding programs in perennial crops. In apple, genomic predictions have been reported only in a limited number of studies and to our knowledge genomic selection is hardly applied. The very first step to build up an efficient genomic selection program is to develop an experimental design with adequate plant material to test predictions. In apple, this is now made possible with the joint efforts of the European FruitBreedomics Consortium in developing the apple REFPOP, a population dedicated to genomic predictions and genome wide association analyses, along with appropriate genotyping and phenotyping tools. Here, we present the long-term genomic selection apple project built around the apple REFPOP. This population is composed of 570 replicated genotypes planted in six countries and was phenotyped for the first time in 2018 at all six sites for yield, phenology and fruit quality traits. Phenotyping for these and additional traits will be repeated in the coming years. Genotyping data were available through FruitBreedomics for most of the genotypes and were obtained with the combination of a medium, 20K SNP array, and the high-density Axiom® Apple487K SNP Affymetrix array via imputation. We provide insights into the genetic features of the apple REFPOP with a specific focus on linkage disequilibrium and structural patterns. By combining several phenotypic variables recorded across countries and years and high-density genotyping, our goal is to use the apple REFPOP as a training population to predict the potential of applied populations in multiple environments and for multiple traits. To face the increasing complexity of the data collected, machine learning methods will be tested. Finally, we also discuss different strategies to calibrate and implement genomic prediction models into modern, climate-ready breeding programs. This work is partially funded by the EU-H2020 project N°817970 INVITE

Published
2019

9. Applications of SNP-based apple pedigree-identification to regionally specific germplasm collections and breeding programs

Author

Howard, Nicholas P., Luby, James, van de Weg, Eric W., Durel, Charles Eric, Denance, Caroline, Muranty, Helene, Larsen, Bjarne, Troggio, Michela, Ristel, Matthias, Albach, Dirk C., University of Oldenburg, University of Minnesota [Twin Cities] (UMN), University of Minnesota System, Wageningen University and Research Centre (WUR), Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, 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), University of Copenhagen = Københavns Universitet (KU), Centro Ricerca e Innovazione, Fondazione Edmund Mach, Instituto Agrario S. Michele all' Adige, Öko-Obstbau Norddeutschland, Partenaires INRAE, and International Society for Horticultural Science (ISHS). INT.

Subjects
[SDV]Life Sciences [q-bio], fungi, [SDE]Environmental Sciences, food and beverages, pedigree, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, Apple, germplasm
Abstract

International audience; A wealth of previously unknown pedigree information has been generated for apple (Malus × domestica) through recent publications and through an ongoing pedigree identification project using SNP array data. This information has been postulated to be useful in a number of ways for germplasm collections and breeding programs. For example, pedigree information is an important part of genetic characterization of material in germplasm collections. Germplasm collections often seek to preserve cultivars that currently lack commercial relevance but have regional or historical significance or are phenotypically interesting. Pedigree information is often limited on such material. With pedigree information, an accurate genetic structure of these collections can be conveyed to breeders who wish to incorporate novel germplasm into new cultivars.

Published
2019

10. Reconstruction of multi-generation pedigrees involving numerous old apple cultivars thanks to whole-genome SNP data

Author

Muranty, Helene, Denancé, Caroline, Crépin, J.-L., Tartarini, Stefano, Ordidge, Matthew, Troggio, Michela, Lateur, Marc, Nybom, Hilde, Paprstein, Frantisek, Laurens, Francois, Durel, Charles-Eric, Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-AGROCAMPUS OUEST, 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)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Fondazione Edmund Mach - Edmund Mach Foundation [Italie] (FEM), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, 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), Les Croqueurs de Pommes du Confluent Ain-Isère-Savoie, Partenaires INRAE, Department of Agricultural Sciences, Alma Mater Studiorum University of Bologna (UNIBO), School of Agriculture, Policy and Development, University of Reading (UOR), Centro Ricerca e Innovazione, Fondazione Edmund Mach, Instituto Agrario S. Michele all' Adige, Plant Breeding & Biodiversity, Centre Wallon de Recherches Agronomiques (CRA-W), Department of Plant Breeding, Swedish University of Agricultural Sciences (SLU), Research and Breeding Institute of Pomology Holovousy (VSUO), and Université d'Angers (UA)-AGROCAMPUS OUEST-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)

Subjects
[SDV.BV.AP]Life Sciences [q-bio]/Vegetal Biology/Plant breeding, [SDV]Life Sciences [q-bio], [SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN], [SDE]Environmental Sciences, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology
Abstract

Acronyme de láffiliation = {INRA, INRA, INRA, , , INRA, , INRA, , , INRA, INRA}, Public visé = {Scientifique}, Type de lúnité = {UMR, UMR, UMR, , , UMR, , UMR, , , UMR, UMR}, Langue du titre = {eng}, Type dáctes = {Présentation orale}, Ville de lúnité = {Beaucouzé, Beaucouzé, Beaucouzé, , , Montpellier, , Montpellier, , , Beaucouzé, Beaucouzé, Laboratoire de lúnité = {UMR : Institut de Recherche en Horticulture et Semences, Beaucouzé, UMR : Institut de Recherche en Horticulture et Semences, Beaucouzé, UMR : Institut de Recherche en Horticulture et Semences, Beaucouzé, , , UMR : Amélioration Génétique et Adaptation des Plantes méditerranéennes et Tropicales, Montpellier, , UMR : Amélioration Génétique et Adaptation des Plantes méditerranéennes et Tropicales, Montpellier, , , UMR : Institut de Recherche en Horticulture et Semences, Beaucouzé, UMR : Institut de Recherche en Horticulture et Semences, Beaucouzé, Date de fin de l\'évenement = {2018-06-30; International audience; A number of European apple cultivars are old, some of them dating back to the Renaissance, Middle Ages or even earlier. Many other cultivars have been developed during subsequent times. In order to decipher the relationships that link some of these old cultivars, whole-genome SNP data (~ 250K) for over 1400 genotypes were analyzed to infer first-degree relationships and reconstruct pedigrees. We used simple exclusion tests based on a count of Mendelian error to identify up to a thousand potential parent-offspring duos, including 295 complete parent-offspring trios and a hundred duos that could be oriented. grand-parents for some missing parents could also be inferred. Combining all this information allowed us to reconstruct pedigrees (up to 6 generations) highlighting the central role of major founders such as ‘Reinette Franche’, ‘Margil’, and ‘Alexander’. Haplotypes were deduced from genotypic data and pedigrees, and used to measure haplotype sharing between supposedly unrelated cultivars, allowing investigating further links between them.To our knowledge, such a large analysis to reconstruct multigeneration pedigrees involving (very) old cultivars selected over such time has never before been performed in perennial fruit species.

Published
2018

11. Evaluer la sélection génomique au sein de croisements bi-parentaux d’espèces pérennes fruitières génotypés par séquençage : point d’étape du projet FruitSelGen

Author

Launay, Amandine, Denance, Caroline, Muranty, Helene, Audergon, Jean Marc, Confolent, Carole, Lambert, Patrick, Quilot-Turion, Bénédicte, Bert, Pierre-François, Marguerit, Elisa, Dirlewanger, Elisabeth, Quero-Garcia, José, Decroocq, Stephane, Decroocq, Veronique, Butterlin, Gisele, Duchêne, Eric, Costes, Evelyne, Kelner, Jean-Jacques, Pallas, Benoit, Mournet, Pierre, and Flutre, Timothée

Subjects
Vegetal Biology, sélection génomique, Biologie végétale
Published
2017

12. Analysis of genetic control of fruit size in apple using both multiple, pedigree-related and single full-sib families

Author

Muranty, Helene, Laurens, Francois, Bink, Marco C.A.M., Van de Weg, W. Eric, Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, 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), Biometris, Wageningen University and Research [Wageningen] (WUR), Hendrics Genetics, Partenaires INRAE, Plant Breeding, Institut National de Recherche Agronomique (INRA). UMR Institut de Recherche en Horticulture et Semences (1345)., and European Project: 265582,EC:FP7:KBBE,FP7-KBBE-2010-4,FRUIT BREEDOMICS(2011)

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

National audience

Published
2016

13. Deciphering the genetic determinism of flowering/harvest period and several fruit sensory quality traits in apple by a Genome-Wide Association approach

Author

Urrestarazu, Jorge, Moriya, Shigeki, Muranty, Helene, Denance, Caroline, Leforestier, Diane, Ravon, Elisa, Guyader, Arnaud, Guisnel, Rémi, Feugey, Laurence, Tartarini, Stefano, Dondini, Luca, Grégori, R., Lateur, Marc, Houben, P., Sedlak, J., Paprstein, F., Ordidge, Matthew, Nybom, H., Garkava-Gustavsson, L., Troggio, Michela, Bianco, Luca, Velasco, R., Poncet, Charles, Theron, Anthony, Bink, Marco C. A. M., Laurens, Francois, Durel, Charles Eric, Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, 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), Alma Mater Studiorum Università di Bologna [Bologna] (UNIBO), Centre Wallon de Recherches Agronomiques (CRA-W), Research and Breeding Institute of Pomology Holovousy (VSUO), University of Reading (UOR), Swedish University of Agricultural Sciences (SLU), Centro Ricerca e Innovazione, Fondazione Edmund Mach, Instituto Agrario S. Michele all' Adige, Génétique Diversité et Ecophysiologie des Céréales (GDEC), Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de la Recherche Agronomique (INRA), Wageningen University and Research Centre (WUR), Institut National de Recherche Agronomique (INRA). UMR Institut de Recherche en Horticulture et Semences (1345)., and Institut National de la Recherche Agronomique (INRA)-Université Blaise Pascal - Clermont-Ferrand 2 (UBP)

Subjects
[SDV]Life Sciences [q-bio], [SDE]Environmental Sciences, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, ComputingMilieux_MISCELLANEOUS
Abstract

National audience

Published
2016

14. Genomic selection in apple: a multi ‐ year pilot study

Author

Muranty, Helene, Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, 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), UE, Wageningen University and Research Centre (WUR). Wageningen, NLD., and European Project: 265582,EC:FP7:KBBE,FP7-KBBE-2010-4,FRUIT BREEDOMICS(2011)

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

International audience

Published
2015

15. Genome Wide Association Study of two phenology traits (flowering time and maturity date) in apple

Author

Muranty, Helene, Urrestarazu, Jorge, Denance, Caroline, Leforestier, Diane, RAVON, ELISA, Guyader, Arnaud, Guisnel, Rémi, Feugey, Laurence, Tartarini, S., Dondini, L., Grégori, R., Lateur, M., Houben, P., Sedlak, J., Paprstein, T., Ordidge, Matthew, Nybom, H., Garkava-Gustavsson, L., Troggio, M., Bianco, Luca, Velasco, R., Bink, M. C. A. M., Laurens, Francois, Durel, Charles Eric, Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, Alma Mater Studiorum Università di Bologna [Bologna] (UNIBO), Centre Wallon de Recherches Agronomiques (CRA-W), University of Reading (UOR), Swedish University of Agricultural Sciences (SLU), Centro Ricerca e Innovazione, Fondazione Edmund Mach, Instituto Agrario S. Michele all' Adige, Wageningen UR Biometris, Wageningen University and Research [Wageningen] (WUR), UE, European Project: 265582,EC:FP7:KBBE,FP7-KBBE-2010-4,FRUIT BREEDOMICS(2011), 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.BV]Life Sciences [q-bio]/Vegetal Biology, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2015

16. Genomic selection in apple: a multiple years pilot study on quantitative and ordinal traits

Author

Muranty, Helene, Troggio, Michela, BEN SADOK, Inès, Al Rifai, Mehdi, Auwerkerken, Annemarie, Banchi, Elisa, Velasco, Riccardo, Stevanato, Piergiorgio, Van de Weg, Eric, Di Guardo, Mario, Laurens, Francois, Bink, Marco C. A. M., Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, Res & Innovat Ctr, Edmund Mach Foundation (FEM), NOVADI, Better3Fruit, Universita degli Studi di Padova, Plant Breeding, Wageningen University and Research Centre [Wageningen] (WUR), Biometris, UE, European Project: 265582, AGROCAMPUS OUEST-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA), Université d'Angers (UA)-AGROCAMPUS OUEST, 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)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Wageningen University and Research [Wageningen] (WUR), Université d'Angers (UA)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-INSTITUT AGRO Agrocampus Ouest, 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), and Università degli Studi di Padova = University of Padua (Unipd)

Subjects
relatedness, education, markers, apple, crab apples, ordinal traits, humanities, genomic selection, pomme, multivariate analysis, analyse multivariable, [SDV.IDA]Life Sciences [q-bio]/Food engineering, sélection génomique, health care economics and organizations, genomic prediction
Abstract

Genomic selection in apple: a multiple years pilot study on quantitative and ordinal traits. 14. International Eucarpia Fruit Breeding and Genetics Symposium

Published
2015

17. A population genomics approach for unraveling the genetic bases of differentiation between dessert and cider apples

Author

Leforestier, Diane, RAVON, ELISA, Muranty, Helene, Berard, Aurélie, Brunel, Dominique, Le Paslier, Marie-Christine, Lemaire, Christophe, Branca, Antoine, Giraud, Tatiana, Durel, Charles Eric, Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, 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), Etude du Polymorphisme des Génomes Végétaux (EPGV), Institut National de la Recherche Agronomique (INRA), Université Paris-Sud - Paris 11 (UP11), Clemson University. Clemson, USA., ProdInra, Archive Ouverte, and AGROCAMPUS OUEST-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA)

Subjects
signatures of selection, fungi, genetic structure, bacteria, food and beverages, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, [SDV.BV] Life Sciences [q-bio]/Vegetal Biology, Malus x domestica
Abstract

Understanding the processes that occurred during domestication remains one of the central questions in genetics. In addition to fundamental importance, it can indeed provide knowledge on the genetic bases for further crop improvement. As an example, apple is one of the most important fruit crops in temperate regions, having both an economic and a cultural value. Dessert apples are used for consumption as fruits while cider apples are used to produce cider. Yet few traits are known to be different, despite overlapping between dessert and cider apples, namely fruit size and bitterness. A population genomics approach was used for detecting loci involved in the differentiation between cider and dessert apples, on two core collections of old cultivars, one for dessert apples and one for cider apples. A set of 96 gene fragments, localized in 6 areas of the apple genome bearing QTLs for traits of agronomic interest, was re-sequenced and the Illumina 8K SNP chip was used to genotype these two collections. The low estimates of per locus differentiation (ie Fst) between dessert and cider apples indicated that these two pools recently derive from common ancestors, except for 2 genomic regions exhibiting higher Fst values and potentially involved in selective processes. Departure from neutrality was also tested for each “population” using Tajima’s D and Fu and Li’s D and several areas of the genome were found to have significant decrease of both. Such knowledge could be helpful in new selection programs, bringing their efficiency to a higher level.

Published
2014

18. Progress and challenges in pedigree-based QTL analysis utilizing high density marker data on related full sib families: A case study on fruit firmness in apple

Author

Bink, Marco C. A. M., Kruisselbrink, Johannes, Jansen, Hans, Voorrips, Roeland, Iezzoni, Amy, Peace, Cameron, Koehorst-van Putten, Herma, Longhi, Sara, Di Guardo, Mario, Troggio, Michela, Costa, F., Di Pierro, Erica, Gianfranceschi, L., Letschka, Thomas, Lozano-Luis, Lidia, Tartarini, Stefano, Pagliarani, Giulia, Gustavsson, Larisa, Keulemans, Wannes, Costes, Evelyne, Allard, Alix, BEN SADOK, Inès, Laurens, Francois, Muranty, Helene, Van de Weg, Eric, Biometris, Wageningen University and Research Centre [Wageningen] (WUR), Plant Breeding, Michigan State University [East Lansing], Michigan State University System, Washington State University (WSU), Edmund Mach Foundation (FEM), Department of Biosciences, University of Milan, Research Centre for Agriculture and Forestry Laimburg, Department of Agricultural Sciences, Alma Mater Studiorum University of Bologna (UNIBO), Swedish University of Agricultural Sciences (SLU), Université Catholique de Louvain (UCL), Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de la Recherche Agronomique (INRA)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro), Institut de Recherche en Horticulture et Semences (IRHS), AGROCAMPUS OUEST-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA), European Project: 265582, Wageningen University and Research [Wageningen] (WUR), Università degli Studi di Milano = University of Milan (UNIMI), Université Catholique de Louvain = Catholic University of Louvain (UCL), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Architecture et Fonctionnement des Espèces Fruitières [AGAP] (AFEF), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, Clemson University. Washington, USA., 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), 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)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), 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)-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA)

Subjects
genotype probabilities, Bayesian analysis, food and beverages, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, identity by descent (IBD), genomic breeding values, VisualFlexQTL software
Abstract

The power to identify, map and quantify QTL underlying complex traits may substantially increase when considering multiple segregating progenies simultaneously. The relatedness among these progenies can be fully exploited when the pedigree is known and the ancestors are available for genotyping. Previously, we successfully used the lexQTL software to map QTL in such a Pedigree Based Analysis (PBA) approach to a large pedigreed population in apple with only 87 SSR markers (Bink et al. 2014). The current availability of high-throughput SNP genotyping infrastructures allows marker genotyping at much higher densities, which will contribute to higher mapping resolution and more accurate QTL characterization but also poses challenges to the QTL mapping software. Within the framework of the projects SCRI-RosBREED (#2009-51181-05808) and EU-FP7 FruitBreedomics (#FP7- 65582), we have improved and extended functionality of the FlexQTL software to better handle large numbers of SNP markers with regard to computation time, the phasing of the lowly-informative SNPs in complex pedigrees (e.g., inbreeding loops). Furthermore visualization tools were added to inspect recombination events. Furthermore, highly informative multi-allelic haplotypes can now be built comprising consecutive low informative SNPs, which will reduce computational effort without losing information from the high density marker data. The progress and challenges on utilizing high density SNP data in Rosaceae crops will be highlighted via a case study, i.e., applying the new version of FlexQTL software to fruit firmness trait on a large 20K genotyped apple population as available from the FruitBreedomics project.

Published
2014

19. Genome-wide selection in apple: A pilot study in European breeding programs

Author

Muranty, Helene, Troggio, Michela, BEN SADOK, Inès, Al Rifai, Mehdi, Auwerkerken, Annemarie, Banchi, Elisa, Stevanato, Piergiorgio, Van de Weg, Eric, Di Guardo, Mario, Laurens, Francois, Bink, Marco C. A. M., Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, Edmund Mach Foundation (FEM), Better3Fruit, Universita degli Studi di Padova, Plant Breeding, Wageningen University and Research Centre [Wageningen] (WUR), Biometris, European Project: 265582, Université d'Angers (UA)-AGROCAMPUS OUEST, 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)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), 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), Wageningen University and Research [Wageningen] (WUR), Clemson University. Clemson, USA., Université d'Angers (UA)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-INSTITUT AGRO Agrocampus Ouest, Università degli Studi di Padova = University of Padua (Unipd), and AGROCAMPUS OUEST-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA)

Subjects
relatedness, fruit quality, accuracy of prediction, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, breeding strategy, 20K SNP array
Abstract

The tremendous increase in throughput of genotyping techniques opened appealing perspectives for genome-wide selection (GWS), which could enhance breeding efficiency by decreasing generation interval and increasing selection intensity and/or accuracy of breeding values. In GWS a large training population with both phenotypic and genotypic data is used to construct a statistical prediction model which is then applied to estimate Genomic Breeding Values (GBV) of individuals that only have genotypic data. In the EU-FP7 project FruitBreedomics, we performed a pilot study of GWS in apple. The two main objectives were to provide proof of principle and to evaluate the accuracy of prediction with respect to the relatedness between the test and the training populations. Hereto the phenotypic means of the 50 best and 50 worst predicted individuals of a test progeny comprising 700 individuals were compared and correlations between predicted GBV and phenotypic data were compared for smaller full-sib families of different relatedness.The training population included 20 full-sib families comprising 992 individuals genotyped with an Illumina 20K SNP array and phenotyped for fruit quality traits. The test population comprised four progenies from commercial breeding programs totaling 1500 individuals that were genotyped with 512 SNP that had been selected among the 20K for heterozygosity in the parents of the test population and genome-wide coverage. SNP genotypes were completed through imputation and fed into the calibrated prediction model to obtain GBV on the 1500 offspring. We will present the results and discuss challenges remaining to bring GWS into practice in Rosaceae species.

Published
2014

20. A pipeline for robust marker calling from Infinium SNP arrays for diploid crops

Author

Van de Weg, W. Eric, Di Guardo, Mario, Koehorst-van Putten, Herma, Longhi, Sara, Noordijk, Y., Muranty, Helene, Banchi, Elisa, Bianco, Luca, Troggio, Michela, Velasco, Ricardo, Costa, F., Visser, Richard G. F., Plant Breeding, Wageningen University and Research Centre [Wageningen] (WUR), Edmund Mach Foundation & Plant Breeding, Institut de Recherche en Horticulture et Semences (IRHS), AGROCAMPUS OUEST-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA), Edmund Mach Foundation (FEM), European Project: 265582, Wageningen University and Research [Wageningen] (WUR), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, 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), and International Society for Horticultural Science (ISHS). Leuven, INT.

Subjects
Settore BIO/11 - BIOLOGIA MOLECOLARE, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology
Abstract

Single-nucleotide polymorphisms (SNPs) have been recognized as the marker of choice in genetic studies on mapping populations due to their suitability for high throughput genome-wide genotyping. Several SNP genotyping platforms and related software for genotype calling are commercially available, including Illumina Infinium platform and the Genome Studio software from Illumina. Although the SNP genotyping can benefit of a high automation rate, SNP-allele calling is far from being fully automatized and, equally important, a common approach for filtering of well performing markers has not been published yet. Moreover, the application of a 20K array on diploid apple learned that around 7% of the markers were incorrectly called due to limitations in the genotyping software. All this made the genotyping a timeconsuming procedure with an unnecessary high error rate. In this poster we present a semi-automatized, pipeline for SNP filtering and calling of progenies of mapping populations based on Excel using Genome Studio derived data as input. This pipeline efficiently distinguishes between robust informative markers and markers that are problematic or truly monomorphic. It also resolves miss-callings that are due to the presence of paralogous loci, null alleles, or of additional SNP at the primer site. The final set of SNP markers are grouped based on their segregation pattern and genotype calls are adjusted to JoinMap format. Completion of the pipeline from start to finish takes just 2-3 hours. The pipeline has been calibrated by the use of three mapping populations and has been applied on another ten populations. It showed to be highly efficient, as 99.7% of the filtered polymorphic markers mapped easily. This work was performed in the framework of the EU-FruitBreedomics project, a central goal of which is to accelerate and increase the efficiency of Rosaceous cultivar release through the delivery of molecular markers that are of use for marker assisted breeding

Published
2013

21. QTL mapping for fire blight and pear psylla resistance in an interspecific pear population

Author

Montanari, Sara, RENAULT, Déborah, Guérif, Philippe, RAVON, ELISA, Denance, Caroline, Muranty, Helene, Robert, Philippe, Braud, Ferreol, Lespinasse, Yves, Bus, V.G.M., Brewer, Lester, Chagne, David, Velasco, Ricardo, Perchepied, Laure, Durel, Charles Eric, Centro Ricerca e innovazione, Istituto Agrario di San Michele all'Adige (IASMA), Institut de Recherche en Horticulture et Semences (IRHS), AGROCAMPUS OUEST-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA), AGROCAMPUS OUEST, Retraité, Institut National de la Recherche Agronomique (INRA), Plant food & research, Hawkes Bay Research Centre, Plant & food research, Motueka Research Centre, New Zealand Institute for Plant and Food Research Limited, Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, 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), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Plant & Food Research, and Societa Italiana di Genetica Agraria (SIGA). Portici, ITA.

Subjects
resistance, QTL mapping, fungi, food and beverages, Cacopsylla pyri, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, pear, fire blight
Abstract

Fire blight, caused by the bacterium Erwinia amylovora, is a serious disease of European pear (Pyrus communis) and is widely distributed over the world. The chemical control of fire blight is problematic, as the use of antibiotics is not allowed in many countries, and the eradication of infected plants remains the most effective method. Cacopsylla pyri (Hemiptera, Psyllidae) is an endemic and damaging pest in European pear orchards. Pesticides are used to fight C. pyri, but the insect has shown resistance to a number of compounds and many insecticides are toxic to its natural predators. In this scenario, the development of pear cultivars with sources of resistance is an efficient strategy to enable durable pest and disease control. An inter-specific segregating population between P128R068T003 (Pyrus x bretschneideri x P. communis) and ‘Moonglow’ (P. communis) was created in order to study the genetics of pear resistance to four diseases and pests. Asian pears are usually less susceptible to psylla than their European relatives and P128R068T003 was previously demonstrated to be a source of resistance toC. pyri. ‘Moonglow’ originated from five P. communis cultivars, two of them being [0]resistant tofire blight: ‘Roi Charles Würtemberg’ and ‘Seckel’. Here we describe the phenotyping of this population for fire blight and C. pyri resistance at INRA in Angers (France) and the detection of Quantitative Trait Loci (QTLs) by using a linkage map constructed for the P128R068T003 x ‘Moonglow’ population.

Published
2013

22. A case study in marker‐assisted breeding for disease resistance

Author

Muranty, Helene, Jorge, Véronique, Dowkiw, Arnaud, Guérin, Vanina, Faivre-Rampant, Patricia, Bresson, Alois, Labbé, Jessy, Tuskan, Gerald A., Sanchez Rodriguez, Leopoldo, Bastien, Catherine, Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Institut National de la Recherche Agronomique (INRA), Unité de recherche en génomique végétale (URGV), Institut National de la Recherche Agronomique (INRA)-Université d'Évry-Val-d'Essonne (UEVE)-Centre National de la Recherche Scientifique (CNRS), BioSciences Division [Oak Ridge], Oak Ridge National Laboratory [Oak Ridge] (ORNL), UT-Battelle, LLC-UT-Battelle, LLC, European Community's Seventh Framework Programme (FP7/ 2007‐2013) under the grant agreement n° 211868 (Project Noveltree), Finnish Forest Research Institute (METLA). JOENSUU, FIN., European Project: 211868, Unité de recherche Amélioration, Génétique et Physiologie Forestières (UAGPF), and Centre National de la Recherche Scientifique (CNRS)-Université d'Évry-Val-d'Essonne (UEVE)-Institut National de la Recherche Agronomique (INRA)

Subjects
[SDV.BV]Life Sciences [q-bio]/Vegetal Biology
Abstract

absent

Published
2012

23. METAGENE, a simulation tool based on finite loci approaches: new developments to consider phenotypic plasticity in forest tree breeding

Author

Sanchez Rodriguez, Leopoldo, Niango, Apha, Bastien, Catherine, Muranty, Helene, Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Institut National de la Recherche Agronomique (INRA), Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, 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), Finnish Forest Research Institute (METLA). Joensuu, FIN., European Project: 211868, Unité de recherche Amélioration, Génétique et Physiologie Forestières (UAGPF), and AGROCAMPUS OUEST-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA)

Subjects
epistasis, métagénomique, metagenomics, regulatory gene, Vegetal Biology, withdrawal, variance epistatique, plasticité phénotypique, genotype environment interaction, allèle, stratégie de sélection, échantillonnage, simulation, phenotypic plasticity, interaction génotype environnement, épistasie, pleiotropy, loci, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, Finite allele model, Biologie végétale, gène régulateur
Abstract

METAGENE, a simulation tool based on finite loci approaches: new developments to consider phenotypic plasticity in forest tree breeding. Final Conference Noveltree project "Tree Breeding, Genomics and Evolutionary Biology"

Published
2012

24. A case study in marker‐assisted breeding for disease resistance : the building of complex resistance to Melampsora larici – populina in hybrid poplar

Author

Muranty, Helene, Jorge, Véronique, Dowkiw, Arnaud, Guérin, Vanina, Faivre-Rampant, Patricia, Bresson, Alois, Labbé, Jessy, Tuskan, Gerald A., Sanchez Rodriguez, Leopoldo, and Bastien, Catherine

Subjects
résistance aux maladies, sélection assisté par marqueurs, Vegetal Biology, melampsora larici populina, analyse phénotypique, résistance aux agents pathogènes, populus deltoide, melampsora larici, rouille du peuplier, gène de résistance, Biologie végétale, rouille foliaire
Published
2012

25. Sélection génomique: quelles données, comment les traiter ... ou l'alphabet Bayésien des généticiens

Author

Muranty, Helene, Sanchez Rodriguez, Leopoldo, Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), and Institut National de la Recherche Agronomique (INRA)

Subjects
structure génétique des populations, marquage, Bioinformatics, statistique bayésienne, polymorphisme, approche bayésienne, Modélisation et simulation, [INFO.INFO-MO]Computer Science [cs]/Modeling and Simulation, phénotype, [MATH.MATH-ST]Mathematics [math]/Statistics [math.ST], Modeling and Simulation, génotypage, Bio-informatique, Statistiques (Mathématiques), sélection génomique, génotype, [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], traitement de données, ComputingMilieux_MISCELLANEOUS
Abstract

National audience

Published
2011

26. Advances and Prospects in Wheat Eyespot Research: Contributions from Genetics and Molecular Tools

Author

Wei, Le, Muranty, Helene, Zhang, Huaigang, Chinese Academy of Sciences (CAS), Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), and Institut National de la Recherche Agronomique (INRA)

Subjects
résistance aux maladies, GENE TAGGING, OCULIMACULA, TAPESIA, PSEUDOCERCOSPORELLA, DISEASE RESISTANCE, GENETICS, ETIQUETAGE DE GENES, ble tendre, Phytopathology and phytopharmacy, génétique moléculaire, champignon pathogène, Phytopathologie et phytopharmacie, [SDV.BV.PEP]Life Sciences [q-bio]/Vegetal Biology/Phytopathology and phytopharmacy, triticum aestivum
Abstract

International audience; Eyespot disease caused by the soil-borne facultative fungi Oculimacula yallundae and O. acuformis is the major component of the stem-base disease complex of wheat in temperate regions of the world with a cool and wet climate. In this review, we focus on results of genetic studies concerning both partners of the host–pathogen interaction. This comprises analyses of genetic diversity of the pathogen and identification of particular genes within it, evaluation and screening methods for host resistance, resistance sources and genetics of these resistances, breeding of resistant cultivars in wheat, and application of genetic markers in tagging and tracking of eyespot resistance genes. We also attempt to foresee some of the key issues and developments that may occur in future. The identification of markers tightly linked to eyespot resistance genes is the important research focus opening the door to marker-assisted selection of resistant varieties.

Published
2011

27. Towards marker informed poplar breeding

Author

Faivre-Rampant, Patricia, Jorge, Véronique, Muranty, Helene, Sanchez Rodriguez, Leopoldo, Dowkiw, Arnaud, Villar, Marc, Paolucci, Isabella, Bitton, Frederique, Le Paslier, Marie-Christine, Brunel, Dominique, Berard, A., Bastien, Catherine, Unité de recherche en génomique végétale (URGV), Institut National de la Recherche Agronomique (INRA)-Université d'Évry-Val-d'Essonne (UEVE)-Centre National de la Recherche Scientifique (CNRS), Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Institut National de la Recherche Agronomique (INRA), Génétique Quantitative et Evolution - Le Moulon (Génétique Végétale) (GQE-Le Moulon), Centre National de la Recherche Scientifique (CNRS)-AgroParisTech-Université Paris-Sud - Paris 11 (UP11)-Institut National de la Recherche Agronomique (INRA), Etude du Polymorphisme des Génomes Végétaux (EPGV), and Institut National de la Recherche Agronomique (INRA)-Université Paris-Sud - Paris 11 (UP11)-AgroParisTech-Centre National de la Recherche Scientifique (CNRS)

Subjects
QUANTITATIVE TRAIT LOCI, Vegetal Biology, [SDV.BIO]Life Sciences [q-bio]/Biotechnology, qtl, food and beverages, Biotechnologies, populus, MARKER ASSISTED SELECTION, détection, QTL DETECTION, ASSOCIATION STUDIES, PEUPLIER, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, DETECTION DE QTL, ETUDE D'ASSOCIATION, Biologie végétale, sélection assistée par marqueurs
Abstract

International audience; Marker informed breeding could be a favorable opportunity to accelerate cultivar selection in poplar. Linking genotype to phenotypic variation of important economical and adaptive traits is the prerequisite. The two strategies chosen are QTL detection in mapping pedigrees and association studies in natural populations. An intra-specific mapping pedigree Populus nigra x P. nigra of 300 individuals segregating for leaf rust resistance is available. Another large progeny of 1400 individuals derived from a cross P. deltoides x P. trichocarpa for which two major factors and QTL of rust resistance segregated is already available. QTL for phenology and water use efficiency were also mapped. Large scale phenotyping of wood properties is underway. An association mapping population of 1100 P. nigra individuals coming from France, Germany, Netherlands and Spain was evaluated for rust resistance in both controlled and field conditions. Even if most of the genetic variation for rust resistance could be observed at the genotype level, significant differentiation between natural populations was detected. Taking advantages of genomics development in poplar including structural and functional genomics, positional, functional and expressional candidate genes were identified for rust resistance, phenology and wood properties. It became clear that SNP in those genes could be ideal combined to HTP genotyping technologies to identify causative polymorphism for phenotypic variation. We developed collections of SNP useful for both genetic and association mapping. With the help of the genome sequence, unique primer pairs were automatically designed and tested for their uniqueness before PCR amplification and HTP Sanger re-sequencing. Based on the analysis of 850 gene fragments, an average of 1SNP/90bp were found in the three Populus species studied. SNP appeared fixed in each species after comparison of SNP position between the three species. Analysis of linkage disequilibrium in P. nigra showed a rapid decline of LD with physical distance

Published
2010

28. Wheat : Items from France

Author

DOUSSINAULT, Gérard, Dedryver, Françoise, Jahier, Joseph, Barloy, Dominique, Muranty, Helene, Rolland, B., TROTTET, Maxime, UMR 0118 UMR INRA / ENSAR : Génétique et amélioration des plantes, Institut National de la Recherche Agronomique (INRA)-Génétique et amélioration des plantes (G.A.P.)-UMR INRA / ENSAR : Génétique et amélioration des plantes (RENN UMR GENET AMELIOR PLANTES), and ProdInra, Migration

Subjects
[SDV] Life Sciences [q-bio], [SDV]Life Sciences [q-bio], RESISTANCE AUX ORGANISMES NUISIBLES, AMELIORATION DES PLANTES, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2000

29. Les clones de merisier inscrits au catalogue : obtention, performances et conseils d'utilisation

Author

Dufour, Jean, Santi, Frédérique, Muranty, Helene, Prado, E., Bastien, J.C., ProdInra, Migration, Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), and Institut National de la Recherche Agronomique (INRA)

Subjects
[SDV.SA.SF]Life Sciences [q-bio]/Agricultural sciences/Silviculture, forestry, MERISIER, [SDV.SA.SF] Life Sciences [q-bio]/Agricultural sciences/Silviculture, forestry, ComputingMilieux_MISCELLANEOUS
Abstract

National audience

Published
1999

30. Genetic parameters estimated from a wild cherry diallel : consequences for breeding

Author

Muranty, Helene, Schermann, Nicolas, Santi, Frédérique, Dufour, Jean, UMR 0118 UMR INRA / ENSAR : Génétique et amélioration des plantes, Institut National de la Recherche Agronomique (INRA)-Génétique et amélioration des plantes (G.A.P.)-UMR INRA / ENSAR : Génétique et amélioration des plantes (RENN UMR GENET AMELIOR PLANTES), Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Institut National de la Recherche Agronomique (INRA), and ProdInra, Migration

Subjects
[SDV.SA.SF]Life Sciences [q-bio]/Agricultural sciences/Silviculture, forestry, [SDV.SA.SF] Life Sciences [q-bio]/Agricultural sciences/Silviculture, forestry, ComputingMilieux_MISCELLANEOUS, DIALLELE
Abstract

International audience

Published
1998

31. Genetic parameters and selection in a multisite wild cherry clonal test

Author

Santi, Frédérique, Muranty, Helene, Dufour, Jean, Pâques, L.E., Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Institut National de la Recherche Agronomique (INRA), and ProdInra, Migration

Subjects
[SDV.SA.SF]Life Sciences [q-bio]/Agricultural sciences/Silviculture, forestry, MERISIER, [SDV.SA.SF] Life Sciences [q-bio]/Agricultural sciences/Silviculture, forestry, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
1998

32. Valorisation de plans de croisements pour la recherche de QTL chez les arbres forestiers; exemple d'un diallèle merisier

Author

Muranty, Helene, ProdInra, Migration, Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Institut National de la Recherche Agronomique (INRA), and Université Paris Sud - Paris 11

Subjects
[SDV] Life Sciences [q-bio], QUANTITATIVE TRAIT LOCI, [SDV]Life Sciences [q-bio], VIGUEUR HYBRIDE, MERISIER, AMELIORATION DES PLANTES
Abstract

232 ref. *INRA, Centre de Recherche d'Orléans, URD, Ardon 45160 Olivet (FRA) Diffusion du document : INRA, Centre de Recherche d'Orléans, URD, Ardon 45160 Olivet (FRA) Diplôme : Dr. d'Université

Published
1997

33. One cluster of genes governs qualitative resistance of four rust races in poplar

Author

Miot, S., Faivre-Rampant, Patricia, Frey, Pascal, Lefèvre, Francois, Lesage, M.C., Goue, M.C., Muranty, Helene, Pinon, Jean, Prat, D., Villar, Marc, ProdInra, Migration, Unité de recherche Biogéochimie des Ecosystèmes Forestiers (BEF), Institut National de la Recherche Agronomique (INRA), Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), and Unité de Recherches Forestières Méditerranéennes (URFM)

Subjects
[SDV] Life Sciences [q-bio], RESISTANCE A LA ROUILLE, RAPD, [SDV]Life Sciences [q-bio], PEUPLIER, PRODUCTION DU BOIS, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
1997

34. Detection of disease resistance genes by the use of mating designs in poplars and wild cherry

Author

Muranty, Helene, Bastien, Catherine, Borel, C., Dufour, Jean, Goue, M.C., Faivre-Rampant, Patricia, Iketani, H., Lacan, Daniel, Le Guerroué, Bénédicte, Lesage, M.C., Lefèvre, Francois, Piermant, Dominique, Pinon, Jean, Prado, E., Prat, D., Santi, Frédérique, Villar, Marc, Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Institut National de la Recherche Agronomique (INRA), Unité de gestion du département forêts et milieux naturels, Unité de recherche Biogéochimie des Ecosystèmes Forestiers (BEF), and ProdInra, Migration

Subjects
[SDV] Life Sciences [q-bio], QUANTITATIVE TRAIT LOCI, [SDV]Life Sciences [q-bio], PEUPLIER, MERISIER, AMELIORATION DES PLANTES, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
1996

35. Optimal number of ramets per clone in two clonal tests

Author

Muranty, Helene, Santi, Frédérique, Pâques, L.E., Dufour, Jean, Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Institut National de la Recherche Agronomique (INRA), and ProdInra, Migration

Subjects
TECHNIQUE DE PREVISION, PROGRES GENETIQUE, [SDV.SA.SF]Life Sciences [q-bio]/Agricultural sciences/Silviculture, forestry, PREDICTION, MERISIER, AMELIORATION DES PLANTES, [SDV.SA.SF] Life Sciences [q-bio]/Agricultural sciences/Silviculture, forestry
Abstract

15 ref.; National audience

Published
1996

Catalog

Books, media, physical & digital resources
See catalog results