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8 results on '"Yacine Badis"'

1. Hidden diversity in the oomycete genus Olpidiopsis is a potential hazard to red algal cultivation and conservation worldwide

Author

Janina Brakel, Paola Arce, Gwang Hoon Kim, Susannah G. Tringe, Martin Ostrowski, Yacine Badis, Claire M. M. Gachon, Tatyana A. Klochkova, Laboratoire de Recherche en Sciences Végétales (LRSV), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS), Helmholtz Centre for Ocean Research [Kiel] (GEOMAR), Scottish Association for Marine Science (SAMS), University of Warwick [Coventry], DOE Joint Genome Institute [Walnut Creek], Department of Biology, Kongju National University, Scottish Association for Marine Science, Molécules de Communication et Adaptation des Micro-organismes (MCAM), and Muséum national d'Histoire naturelle (MNHN)-Centre National de la Recherche Scientifique (CNRS)

Subjects
0106 biological sciences, Oomycete, Ecology, business.industry, [SDV]Life Sciences [q-bio], 010604 marine biology & hydrobiology, Biosecurity, Olpidiopsis, Plant Science, Aquatic Science, Biology, biology.organism_classification, 010603 evolutionary biology, 01 natural sciences, Marine species, Hazard, Aquaculture, Algae, Genus, 14. Life underwater, business, ComputingMilieux_MISCELLANEOUS
Abstract

Marine species of the oomycete genus Olpidiopsis that infect cultivated red macroalgae, most notably Pyropia spp., are one of the main causes of economic loss in the Asian seaweed industry. We rece...

Published
2019

2. A local score approach improves GWAS resolution and detects minor QTL: application to Medicago truncatula quantitative disease resistance to multiple Aphanomyces euteiches isolates

Author

Christophe Jacquet, Maxime Bonhomme, Marie-Laure Pilet-Nayel, Yacine Badis, Hélène Navier, Henri Miteul, Bernard Dumas, Ahmed Hajri, Deborah A. Samac, María Inés Fariello, Alain Baranger, Evolution et Diversité Biologique (EDB), Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS), Laboratoire de Génétique Cellulaire (LGC), Ecole Nationale Vétérinaire de Toulouse (ENVT), Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Recherche Agronomique (INRA), Institut de Génétique, Environnement et Protection des Plantes (IGEPP), AGROCAMPUS OUEST-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Institut National de la Recherche Agronomique (INRA), Pathologie Végétale (PaVé), Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, Laboratoire de Recherche en Sciences Végétales (LRSV), Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées, HEC Paris - Recherche - Hors Laboratoire, Ecole des Hautes Etudes Commerciales (HEC Paris), Supélec Sciences des Systèmes [Gif-sur-Yvette] (E3S), SUPELEC, ANR-16-CE20-0017-01, Agence Nationale de la Recherche (French National Research Agency), Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Institut National de la Recherche Agronomique (INRA)-Ecole Nationale Vétérinaire de Toulouse (ENVT), Institut National de la Recherche Agronomique (INRA)-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-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), Université Toulouse III - Paul Sabatier (UT3), USDA ARS Cereal Disease Laboratory, University of Minnesota, St. Paul, MN, 55108, USA, Evolution des Interactions Plantes-Microorganismes, Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), AGROCAMPUS OUEST-Institut National de la Recherche Agronomique (INRA), Université de Toulouse (UT)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS), Universidad de la República [Montevideo] (UDELAR), Institut National de la Recherche Agronomique (INRA)-Université de Rennes (UR)-AGROCAMPUS OUEST, United States Department of Agriculture (USDA), Interactions Microbiennes dans la Rhizosphère et les Racines, ANR-16-CE20-0017,DeCoD,Détection de réseaux de gènes Coadaptés par analyse de la Diversité génétique à l'échelle du génome: application à la légumineuse modèle Medicago truncatula(2016), ANR-10-GENM-0007,Immunit-Ae,Diversité des composants génétiques et des mécanismes de résistance à Aphanomyces euteiches chez les légumineuses.(2010), and ANR-10-LABX-0041,TULIP,Towards a Unified theory of biotic Interactions: the roLe of environmental(2010)

Subjects
0106 biological sciences, 0301 basic medicine, Candidate gene, Linkage disequilibrium, Genetic Linkage, [SDV]Life Sciences [q-bio], Quantitative Trait Loci, Locus (genetics), Aphanomyces, Plant disease resistance, Quantitative trait locus, Plant Roots, Polymorphism, Single Nucleotide, 010603 evolutionary biology, 01 natural sciences, Chromosomes, Plant, Linkage Disequilibrium, Article, 03 medical and health sciences, Medicago truncatula, Genetics, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, ComputingMilieux_MISCELLANEOUS, Genetics (clinical), Disease Resistance, Plant Diseases, Genetic association, biology, Chromosome Mapping, food and beverages, biology.organism_classification, [SDV.BV.PEP]Life Sciences [q-bio]/Vegetal Biology/Phytopathology and phytopharmacy, Phenotype, 030104 developmental biology, Aphanomyces euteiches, Genome-Wide Association Study
Abstract

International audience; Quantitative trait loci (QTL) with small effects, which are pervasive in quantitative phenotypic variation, are difficult to detect in genome-wide association studies (GWAS). To improve their detection, we propose to use a local score approach that accounts for the surrounding signal due to linkage disequilibrium, by accumulating association signals from contiguous single markers. Simulations revealed that, in a GWAS context with high marker density, the local score approach outperforms single SNP p-value-based tests for detecting minor QTL (heritability of 5-10%) and is competitive with regard to alternative methods, which also aggregate p-values. Using more than five million SNPs, this approach was applied to identify loci involved in Quantitative Disease Resistance (QDR) to different isolates of the plant root rot pathogen Aphanomyces euteiches, from a GWAS performed on a collection of 174 accessions of the model legume Medicago truncatula. We refined the position of a previously reported major locus, underlying MYB/NB-ARC/tyrosine kinase candidate genes conferring resistance to two closely related A. euteiches isolates belonging to pea pathotype I. We also discovered a diversity of minor resistance QTL, not detected using p-value-based tests, some of which being putatively shared in response to pea (pathotype I and III) and/or alfalfa (race 1 and 2) isolates. Candidate genes underlying these QTL suggest pathogen effector recognition and plant proteasome as key functions associated with M. truncatula resistance to A. euteiches. GWAS on any organism can benefit from the local score approach to uncover many weak-effect QTL.

Published
2019

3. Production and Bioassay of a Diffusible Factor That Induces Gametophyte-to-Sporophyte Developmental Reprogramming in the Brown Alga Ectocarpus

Author

Akira F. Peters, Susana M. Coelho, Philippe Potin, Yacine Badis, Haiqin Yao, Delphine Scornet, J. Mark Cock, Cécile Hervé, Murielle Jam, Station biologique de Roscoff (SBR), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS), and Bezhin Rosko

Subjects
0106 biological sciences, Gamete, Life cycle, [SDV]Life Sciences [q-bio], Strategy and Management, Brown algae, Biology, 01 natural sciences, Industrial and Manufacturing Engineering, 03 medical and health sciences, Gametophyte, Methods Article, medicine, Transcription factor, 030304 developmental biology, 0303 health sciences, Diffusible sporophyte-inducing factor, Sporophyte, Mechanical Engineering, Metals and Alloys, Ectocarpus, Meio-spore, biology.organism_classification, Cell biology, Multicellular organism, medicine.anatomical_structure, Ploidy, Developmental biology, 010606 plant biology & botany
Abstract

International audience; The brown alga Ectocarpus has a haploid-diploid life cycle that involves alternation between two multicellular generations, the sporophyte and the gametophyte. Life cycle generation is not determined by ploidy but by a genetic system that includes two different three amino acid loop extension homeodomain transcription factors called OUROBOROS and SAMSARA. In addition, sporophytes have been shown to secrete a diffusible factor into the medium that can induce gametophyte initial cells to switch from the gametophyte to the sporophyte developmental program. The protocol presented here describes how to produce sporophyte-conditioned medium containing the diffusible sporophyte-inducing factor and how to assay for activity of the factor using a meio-spore-based bioassay. The protocol, which describes how several steps of these procedures can be optimised, will represent a useful tool for future work aimed at characterising the diffusible factor and investigating its mode of action.

Published
2020

4. Unusual Patterns of Mitochondrial Inheritance in the Brown Alga Ectocarpus

Author

Walid Djema, Florian Pontheaux, Laure Mignerot, J. Mark Cock, Marie-Mathilde Perrineau, Akira F. Peters, Susana M. Coelho, Taizo Motomura, Yacine Badis, Chikako Nagasato, Delphine Scornet, Station biologique de Roscoff (SBR), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS), Institute of Algological Research [Muroran], Hokkaido University [Sapporo, Japan], Bezhin Rosko, Scottish Association for Marine Science (SAMS), Biological control of artificial ecosystems (BIOCORE), Inria Sophia Antipolis - Méditerranée (CRISAM), Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de la Recherche Agronomique (INRA)-Laboratoire d'océanographie de Villefranche (LOV), Institut national des sciences de l'Univers (INSU - CNRS)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Institut de la Mer de Villefranche (IMEV), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Institut national des sciences de l'Univers (INSU - CNRS)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Institut de la Mer de Villefranche (IMEV), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS), Hokkaido University, Laboratoire de Biologie Intégrative des Modèles Marins (LBI2M), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Station biologique de Roscoff (SBR), and Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)

Subjects
0106 biological sciences, Mitochondrial DNA, Lineage (genetic), [SDV]Life Sciences [q-bio], Parthenogenesis, Uniparental inheritance, Mitochondrion, Biology, Phaeophyta, brown algae, 01 natural sciences, [SDV.BDLR.RS]Life Sciences [q-bio]/Reproductive Biology/Sexual reproduction, 03 medical and health sciences, Genetics, life cycle, Life History Traits, Molecular Biology, Ecology, Evolution, Behavior and Systematics, 030304 developmental biology, Recombination, Genetic, 0303 health sciences, Ectocarpus siliculosus, Inheritance (genetic algorithm), 25 parthenogenesis, [SDV.BDLR]Life Sciences [q-bio]/Reproductive Biology, Ectocarpus, biology.organism_classification, mitochondria, Genes, Mitochondrial, Genome, Mitochondrial, recombination 26, uniparental inheritance, 010606 plant biology & botany
Abstract

Most eukaryotes inherit their mitochondria from only one of their parents. When there are different sexes, it is almost always the maternal mitochondria that are transmitted. Indeed, maternal uniparental inheritance has been reported for the brown alga Ectocarpus but we show in this study that different strains of Ectocarpus can exhibit different patterns of inheritance: Ectocarpus siliculosus strains showed maternal uniparental inheritance, as expected, but crosses using different Ectocarpus species 7 strains exhibited either paternal uniparental inheritance or an unusual pattern of transmission where progeny inherited either maternal or paternal mitochondria, but not both. A possible correlation between the pattern of mitochondrial inheritance and male gamete parthenogenesis was investigated. Moreover, in contrast to observations in the green lineage, we did not detect any change in the pattern of mitochondrial inheritance in mutant strains affected in life cycle progression. Finally, an analysis of field-isolated strains provided evidence of mitochondrial genome recombination in both Ectocarpus species.

Published
2019

5. Insights into the red algae and eukaryotic evolution from the genome of Porphyra umbilicalis (Bangiophyceae, Rhodophyta)

Author

Jeremy Schmutz, John T. Singer, John W. Stiller, Simon Prochnik, Daniel S. Rokhsar, Juying Yan, Alison G. Smith, Yong Zou, Yi Peng, Cheong Xin Chan, Huan Qiu, Tara N. Marriage, Beverley R. Green, Crysten E. Blaby-Haas, Katherine E. Helliwell, Jasmyn Pangilinan, Elizabeth Ficko-Blean, Jonas Collén, Jane Grimwood, Shengqiang Shu, Susan H. Brawley, Glen L. Wheeler, Erika Lindquist, Yuanyu Cao, Bradley J. S. C. Olson, Brittany N. Sprecher, Yacine Badis, Steven J. Karpowicz, Charles Yarish, Volker Wagner, Jerry Jenkins, Simon M. Dittami, Yunyun Zhuang, Senjie Lin, Debashish Bhattacharya, Ulrich Johan Kudahl, Anita S. Klein, Nicolas A. Blouin, Zhi-Yong Wang, Wenfei Wang, Kerrie Barry, Gurvan Michel, Simone Zäuner-Riek, Claire M. M. Gachon, Martin Lohr, Jay W. Kim, Arthur R. Grossman, Maria Mittag, Juliet Brodie, Holly V. Goodson, Laboratoire de Biologie Intégrative des Modèles Marins (LBI2M), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Station biologique de Roscoff (SBR), and Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)

Subjects
0301 basic medicine, Evolution, [SDV]Life Sciences [q-bio], 1.1 Normal biological development and functioning, Bangiophyceae, Kinesins, Red algae, macromolecular substances, Genome, Cell wall, 03 medical and health sciences, food, Cell Wall, Underpinning research, Botany, 14. Life underwater, Calcium Signaling, Gene, ComputingMilieux_MISCELLANEOUS, Phylogeny, vitamin B-12, Porphyra, Multidisciplinary, biology, stress tolerance, Cell Cycle, Molecular, cytoskeleton, Plant, vitamin B12, Kinesin, biology.organism_classification, food.food, Chromatin, Actins, Porphyra umbilicalis, Multicellular organism, 030104 developmental biology, carbohydrate-active enzymes, [SDE]Environmental Sciences, calcium-signaling
Abstract

Porphyra umbilicalis (laver) belongs to an ancient group of red algae (Bangiophyceae), is harvested for human food, and thrives in the harsh conditions of the upper intertidal zone. Here we present the 87.7-Mbp haploid Porphyra genome (65.8% G + C content, 13,125 gene loci) and elucidate traits that inform our understanding of the biology of red algae as one of the few multicellular eukaryotic lineages. Novel features of the Porphyra genome shared by other red algae relate to the cytoskeleton, calcium signaling, the cell cycle, and stress-Tolerance mechanisms including photoprotection. Cytoskeletal motor proteins in Porphyra are restricted to a small set of kinesins that appear to be the only universal cytoskeletal motors within the red algae. Dynein motors are absent, and most red algae, including Porphyra, lack myosin. This surprisingly minimal cytoskeleton offers a potential explanation for why red algal cells and multicellular structures are more limited in size than in most multicellular lineages. Additional discoveries further relating to the stress tolerance of bangiophytes include ancestral enzymes for sulfation of the hydrophilic galactan-rich cell wall, evidence for mannan synthesis that originated before the divergence of green and red algae, and a high capacity for nutrient uptake. Our analyses provide a comprehensive understanding of the red algae, which are both commercially important and have played a major role in the evolution of other algal groups through secondary endosymbioses.

Published
2017

6. Pathogens of brown algae: culture studies of Anisolpidium ectocarpii and A. rosenvingei reveal that the Anisolpidiales are uniflagellated oomycetes

Author

Pieter van West, Yacine Badis, Martina Strittmatter, Dieter G. Müller, Claire M. M. Gachon, Kyle Fletcher, Scottish Marine Institute, Laboratoire de Biologie Intégrative des Modèles Marins (LBI2M), Station biologique de Roscoff [Roscoff] (SBR), Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Scottish Association for Marine Science (SAMS), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Station biologique de Roscoff (SBR), and Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)

Subjects
0301 basic medicine, [SDV]Life Sciences [q-bio], Anisolpidium ectocarpii, macromolecular substances, Plant Science, Ectocarpus, Aquatic Science, Biology, biology.organism_classification, 18S ribosomal RNA, Aquatic organisms, Brown algae, 03 medical and health sciences, 030104 developmental biology, Aquatic plant, Botany, Pylaiella, Pathogen
Abstract

Using laboratory cultures, we have documented the life cycle of Anisolpidium ectocarpii, a pathogen of Ectocarpus and other filamentous brown algae, and presented preliminary observations on Anisol...

Published
2017

7. Transcriptome analysis highlights preformed defences and signalling pathways controlled by the prAe1 quantitative trait locus (QTL), conferring partial resistance to Aphanomyces euteiches in Medicago truncatula

Author

Yacine, Badis, Maxime, Bonhomme, Claude, Lafitte, Stéphanie, Huguet, Sandrine, Balzergue, Bernard, Dumas, Christophe, Jacquet, Laboratoire de Recherche en Sciences Végétales (LRSV), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS), Evolution des Interactions Plantes-Microorganismes, Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), 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), Interactions Microbiennes dans la Rhizosphère et les Racines, Ministère de l'Enseignement Supérieur et de la Recherche, Centre National de la Recherche Scientifique (CNRS), Université Paul Sabatier, French Agence Nationale de la Recherche (ANR-10-GENM-0007, ‘Immunit-Ae’), Université de Toulouse (UT)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS), and Université de Toulouse (UT)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3)

Subjects
secondary metabolism, Gene Expression Profiling, [SDV]Life Sciences [q-bio], Quantitative Trait Loci, fungi, food and beverages, partial resistance, Original Articles, legume, Genes, Plant, Medicago truncatula, oomycete, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, flavonoid, aphanomyces, Plant Diseases, Signal Transduction
Abstract

International audience; To gain an insight into the molecular mechanisms of quantitative disease resistance in Medicago truncatula to the root-infecting oomycete Aphanomyces euteiches, we selected two near-isogenic lines (NILs), NR and NS, partially resistant and susceptible, respectively, differing in the allelic state of the quantitative resistance locus (QRL) prAe1 (partially resistant to A.euteiches 1). Complementary molecular and cytological phenotyping methods showed that prAe1 alone confers quantitative resistance to A.euteiches. Root and stem tissues were colonized in NS plants and 80% of NS plants died by 21 days post-inoculation (dpi). In contrast, A.euteiches mycelium was restricted to the root cortex and the spread of symptoms was arrested in aerial parts of NR plants. A transcriptome analysis performed at 0, 1 and 6dpi identified 1198 differentially expressed genes (DEGs) between NR and NS lines. More than 87% of the DEGs were significantly more expressed in NR. The highest number of DEGs was found in control conditions, with 723 genes over-expressed in NR versus 85 in NS. Genes belonging to secondary metabolism, pathogenesis-related (PR) proteins and kinases were significantly enriched. The significant role of the flavonoid pathway in resistance was corroborated by the detection of larger amounts of flavonoids in NR roots and the inhibition of A.euteiches zoospore germination by 2-O-methyl-isoliquiritigenin, a compound synthesized by enzymes specifically induced in NR. Our study revealed that prAe1-dependent resistance relies mainly on the constitutive expression of defence-related pathways and signalling elements, which can be re-amplified in later time points of the infection.

Published
2015

8. High-density genome-wide association mapping implicates an F-box encoding gene in Medicago truncatula resistance to Aphanomyces euteiches

Author

Marie-Laure Pilet-Nayel, Hélène Navier, Ahmed Hajri, Joëlle Ronfort, Maxime Bonhomme, Christophe Jacquet, Concetta Burgarella, Peter Tiffin, Frédéric Debellé, Henri Miteul, Alain Baranger, Joann Mudge, Roman Briskine, Nathalie Chantret, Olivier André, Jean Marie Prosperi, Yacine Badis, Bernard Dumas, Nevin D. Young, Laboratoire de Recherche en Sciences Végétales (LRSV), Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées, 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), Department of Computer Science and Engineering, University of Minnesota [Twin Cities], University of Minnesota System-University of Minnesota System, National Center for Genome Resources, Laboratoire des interactions plantes micro-organismes (LIPM), Centre National de la Recherche Scientifique (CNRS)-Institut National de la Recherche Agronomique (INRA), Institut de Génétique, Environnement et Protection des Plantes (IGEPP), AGROCAMPUS OUEST-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Institut National de la Recherche Agronomique (INRA), Department of Plant Biology, CNRS, Universite Paul Sabatier, INRA, French Agence Nationale de la Recherche [ANR-10-GENM-0007], US National Science Foundation [IOS-1237993], NGCR, Evolution des Interactions Plantes-Microorganismes, Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS), 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), University of Minnesota [Twin Cities] (UMN), National center for genome resources (NCGR), Institut National de la Recherche Agronomique (INRA)-Centre National de la Recherche Scientifique (CNRS), Institut National de la Recherche Agronomique (INRA)-Université de Rennes (UR)-AGROCAMPUS OUEST, Interactions Microbiennes dans la Rhizosphère et les Racines, ANR-10-GENM-0007,Immunit-Ae,Diversité des composants génétiques et des mécanismes de résistance à Aphanomyces euteiches chez les légumineuses.(2010), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS), 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 de Rennes 1 (UR1), and Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-AGROCAMPUS OUEST

Subjects
Candidate gene, Genome-wide association study, F-box protein, Cytokinins, Transcription, Genetic, Physiology, health care facilities, manpower, and services, [SDV]Life Sciences [q-bio], education, Colony Count, Microbial, Single-nucleotide polymorphism, Locus (genetics), partial resistance, Ralstonia, Plant Science, Aphanomyces, Quantitative trait locus, Genes, Plant, Aphanomyces euteiches, Gene Expression Regulation, Plant, Medicago truncatula, oomycete, RNA, Messenger, Gene, health care economics and organizations, Disease Resistance, Plant Diseases, Plant Proteins, Genetics, biology, F-Box Proteins, Chromosome Mapping, biology.organism_classification, root, Up-Regulation, Mutation, Root Nodules, Plant, Signal Transduction, Transcription Factors
Abstract

Summary � The use of quantitative disease resistance (QDR) is a promising strategy for promoting durable resistance to plant pathogens, but genes involved in QDR are largely unknown. To identify genetic components and accelerate improvement of QDR in legumes to the root pathogen Aphanomyces euteiches, we took advantage of both the recently generated massive genomic data for Medicago truncatula and natural variation of this model legume. � A high-density (� 5.1 million single nucleotide polymorphisms (SNPs)) genome-wide association study (GWAS) was performed with both in vitro and glasshouse phenotyping data collected for 179 lines. � GWAS identified several candidate genes and pinpointed two independent major loci on the top of chromosome 3 that were detected in both phenotyping methods. Candidate SNPs in the most significant locus (r 2 = 23%) were in the promoter and coding regions of an F-box protein coding gene. Subsequent qRT-PCR and bioinformatic analyses performed on 20 lines demonstrated that resistance is associated with mutations directly affecting the interaction domain of the F-box protein rather than gene expression. � These results refine the position of previously identified QTL to specific candidate genes, suggest potential molecular mechanisms, and identify new loci explaining QDR against A. euteiches.

Published
2014

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