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INRA
24, chemin de Borde Rouge –Auzeville – CS52627
31326 Castanet Tolosan CEDEX - France

Dernière mise à jour : Mai 2018

Menu LIPM INRA CNRS

Laboratory of Plant-Microbe Interactions - LIPM

Laboratory of Plant-Microbe Interactions

Publications - Ecological genomics of adaptation in plant communities

  • Frachon, L.*, C. Bartoli*, S. Carrère, O. Bouchez, A. Chaubet, M. Gautier, D. Roby and F. Roux. 2018. A genomic map of climate adaptation in Arabidopsis thaliana at a micro-geographic scale. Frontiers in Plant Science 9:967. *Authors contributed equally to this work. 
    PubMed
  • Bartoli, C.*, L. Frachon*, M. Barret, C. Zanchetta, O. Bouchez, S. Carrère and F. Roux. 2018. In situ relationships between microbiota and potential pathobiota in Arabidopsis thaliana. The ISME Journal 12:2024-2038. *Authors contributed equally to this work. 
    PubMed
  • Fulgione, A., M. Koornneef, F. Roux, J. Hermisson and A. Hancock. 2018. Evolutionary dynamics of island colonization: Arabidopsis thaliana from the island of Madeira. Molecular Biology and Evolution 35(3): 564-574.
    PubMed
  • Pujol, B., S. Blanchet, A. Charmantier, E. Danchin, B. Facon, P. Marrot, F. Roux, I. Scotti, C. Téplitsky, C.E. Thomson and I. Winney. 2018. The missing response to selection in the wild. Trends in Ecology and Evolution 33(5): 337-346. 
    PubMed
  • Wang, M.*, F. Roux*, C. Bartoli, C. Huard-Chauveau, H. Lee, C. Meyer, D. Roby, M.S. McPeek and J. Bergelson. 2018. Two-way mixed-effects methods for joint association analysis using both host and pathogen genomes. PNAS 115(24):E5440-E5449. *Authors contributed equally to this work. 
    PubMed
  • Subrahmaniam, J., C. Libourel, E.-P. Journet, J.-B. Morel, S. Muños, A. Niebel, S. Raffaele and F. Roux. 2018. The genetics underlying natural variation of plant-plant interactions: a beloved but forgotten member of the family of biotic interactions. The Plant Journal 93: 747-770.
    PubMed
  • Frachon, L.*, C. Libourel*, R. Villoutreix, S. Carrère, C. Glorieux, C. Huard-Chauveau, M. Navascués, L. Gay, R. Vitalis, E. Baron, L. Amsellem, O. Bouchez, M. Vidal, V. Le Corre, D. Roby, J. Bergelson and F. Roux. 2017. Intermediate degrees of synergistic pleiotropy drive adaptive evolution in ecological time. Nature Ecology & Evolution 1: 1551-1561. *Authors contributed equally to this work.
    PubMed
  • Aoun, N., L. Tauleigne, F. Lonjon, L. Deslandes, F. Vailleau, F. Roux and R. Berthomé. 2017. Quantitative disease resistance under elevated temperature: genetic basis of new resistance mechanisms to Ralstonia solanacearum. Frontiers in Plant Science 8: article 1387.
    PubMed
  • Bartoli, C. and F. Roux. 2017. Genome-Wide Association studies in plant pathosystems: towards an ecological genomics approach. Frontiers in Plant Science 8: article 763.
    PubMed
  • Gascuel, Q., A. Bordat, E. Sallet, N. Pouilly, S. Carrère, F. Roux, P. Vincourt and L. Godiard. 2016. Polymorphic effectors of the sunflower downy mildew pathogen Plasmopara halstedii, used as a tool for identifying field isolates, suggest an on-going adaptive dynamics of pathogen virulence. PLoS One 11(2): e0148513. 
  • Roux, F. and J. Bergelson. 2016. The genetics underlying natural variation in the biotic interactions of Arabidopsis thaliana: the challenges of linking evolutionary genetics and community ecology. Current Topics in Developmental Biology 119: 111-156.
    PubMed
  • Debieu, M., C. Huard-Chauveau, A. Génissel, F. Roux and D. Roby. 2016. Quantitative Disease Resistance to the bacterial pathogen Xanthomonas campestris involves an Arabidopsis immune receptor pair and a gene of unknown function. Molecular Plant Pathology 17(4): 510-520.
    PubMed
  • Roux, F., T. Mary-Huard, E. Barillot, E. Wenes, L. Botran, S. Durand, R. Villoutreix, M.L. Martin-Magniette, C. Camilleri and F. Budar. 2016. Cytonuclear interactions affect adaptive phenotypic traits of the annual plant Arabidopsis thaliana in the field. PNAS 113(13): 3687-3692.
    PubMed
  • Bartoli, C., F. Roux and J.-R. Lamichhane. 2016. Molecular mechanisms underlying the emergence of bacterial pathogens: an ecological perspective. Molecular Plant Pathology 16(8): 860-869.
    PubMed
  • Baron, E., J. Richirt, R. Villoutreix, L. Amsellem and F. Roux. 2015. The genetics of intra- and interspecific competitive response and effect in a local population of an annual plant species. Functional Ecology 29: 1361-1370.
  • Brachi, B., C. Meyer, R. Villoutreix, A. Platt, F. Roux and J. Bergelson. 2015. Co-selected genes determine adaptive variation in herbivore resistance throughout the native range of Arabidopsis thaliana. PNAS 112(3): 4032-4037.
    PubMed
  • Karasov, T.L., J.M. Kniskern, L. Gao, B.J. DeYoung, J. Ding, U. Dubiella, R. Lastra, S. Nallu, F. Roux, R.W. Innes, L.G. Barrett, R.R. Hudson and J. Bergelson. 2014. The long-term maintenance of a resistance polymorphism through diffuse interactions. Nature 512: 436-440.
    PubMed
  • Roux, F., L. Noel, S. Rivas and D. Roby. 2014. Atypical kinases: emerging signaling components of plant immunity. New Phytologist 203: 713-716
    PubMed
  • Roux, F., D. Voisin, T. Badet, C. Balagué, X. Barlet, C. Huard-Chauveau, D. Roby and S. Raffaele. 2014. Resistance to phytopathogens e tutti quanti: placing Quantitative Disease Resistance on the map. Molecular Plant Pathology 15(5): 427 – 432.
    PubMed
  • Brachi, B., N. Faure, J. Bergelson, J. Cuguen and F. Roux. Genome-wide association mapping of flowering time in Arabidopsis thaliana in nature: genetics for underlying components and reaction norms across two successive years. Acta Botanica Gallica – Botany Letters 160: 205-218. Special Issue ‘Quantitative genetics in natural populations’.
  • Huard-Chauveau, C., L. Perchepied, M. Debieu, S. Rivas, I. Kars, J. Bergelson, F. Roux and D. Roby. 2013. An atypical kinase under balancing selection confers broad-spectrum disease resistance in Arabidopsis. PLoS Genetics 9(9): e1003766.
    PubMed
  • Brachi, B., R. Villoutreix, N. Faure, N. Hautekèete, Y. Piquot, M. Pauwels, D. Roby, J. Cuguen, J. Bergelson and F. Roux. 2013. Investigation of the geographical scale of adaptive phenological variation and its underlying genetic bases in Arabidopsis thaliana. Molecular Ecology 22: 4222-4240.
    PubMed
  • Cosson, P., V. Schurdi-Levraud, H. Le Quang, O. Sicard, F. Roux, O. Le Gall, T. Candresse and F. Revers. 2012. The RTM resistance to potyviruses in Arabidopsis thaliana: natural variation of the RTM genes and evidence for the implication of additional genes. PLoS One 7(6): e39169
    PubMed
  • Brachi, B., C. Aimé, C. Glorieux, J. Cuguen and F. Roux. 2012. Adaptive value of phenological traits in stressful environments: predictions based on seed production and Laboratory Natural Selection. PLoS One 7(3):e32069.
    PubMed
  • Hancock, A.M., B. Brachi, N. Faure, M.W. Horton, L.B. Jarymowycz, F.G. Sperone, C. Toomajian, F. Roux and J. Bergelson. 2011. Adaptation to climate across the Arabidopsis thaliana genome. Science 334: 83-86.
    PubMed
  • Vila-Aiub, M., P. Neve and F. Roux. 2011. A unified approach to the estimation and interpretation of resistance costs in plants. Heredity 107(5): 386-394.
    PubMed
  • Roux, F.*, M. Colomé-Tatché*, C. Edelist, R. Wardenaar, P. Guerche, F. Hospital, V. Colot, R.C. Jansen and F. Johannes. 2011. Genome-wide epigenetic perturbation jump-starts patterns of heritable variation found in nature. Genetics 188: 1015-1017. *Authors contributed equally to this work. Highlighted by the Faculty of 1000 (June 2011) and The Scientist (October 2011 “Evolution, Tout de suite. Epigenetic perturbations could jump-start heritable variation.”).
    PubMed
  • Budar, F. and F. Roux. 2011. The role of organelle genomes in plant adaptation: time to get to work! Plant Signaling and Behavior 6(5): 635-639.
    PubMed
  • Bergelson, J. and F. Roux. 2010. Towards identifying genes underlying ecologically relevant traits in Arabidopsis thaliana. Nature Reviews Genetics 11: 867-879.
    PubMed
  • Moison, M., F. Roux, M. Quadrado, R. Duval, M. Ekovich, D.-H. Lê, M. Verzaux and F. Budar. 2010. Cytoplasmic phylogeny and evidence of cyto-nuclear co-adaptation in Arabidopsis thaliana. Plant Journal 63: 728-738.
    PubMed
  • Roux, F., L. Gao and J. Bergelson. 2010. Impact of initial pathogen density on resistance and tolerance in a polymorphic disease resistance system in Arabidopsis thaliana. Genetics 185: 283-291.
    PubMed
  • Brachi, B. , N. Faure, M. Horton, E. Flahauw, A. Vazquez, M. Nordborg, J. Bergelson, J. Cuguen and F. Roux. 2010. Linkage and association mapping of Arabidopsis thaliana flowering time in nature. PLoS Genetics 6(6):e1000940.
    PubMed
  • Platt, A., M. Horton, Y.S. Huang, Y. Li, A.E. Anastasio, N.W. Mulyati, J. Agren, O. Bossdorf, D. Byers, K. Donohue, M. Dunning, E.B. Holub, A. Hudson, V. Le Corre, O. Loudet, F. Roux, N. Warthmann, D. Weigel, L. Rivero, R. Scholl, M. Nordborg, J. Bergelson and J.O. Borevitz. 2010. The scale of population structure in Arabidopsis thaliana. PLoS Genetics 6: e1000843.
    PubMed
  • Atwell, S., Y. Huang, B.J. Vilhjalmsson, G. Willems, M. Horton, Y. Li, D. Meng, A. Platt, A. Tarone, T.T. Hu, R. Jiang, N.W. Muliyati, X. Zhang, M. A. Amer, I. Baxter, B. Brachi, J. Chory, C. Dean, M. Debieu, J. de Meaux, J.R. Ecker, N. Faure, J.M. Kniskern, J.D.G. Jones, T. Michael, A. Nemri, F. Roux, D.E. Salt, C. Tang, M. Todesco, M.B. Traw, D. Weigel, P. Marjoram, J.O. Borevitz, J. Bergelson and M. Nordborg. 2010. Genome-wide association study of 107 phenotypes in a common set of Arabidopsis thaliana inbred lines. Nature 465(7298): 627-631.
    PubMed
  • Neve, P., M. Vila-Aiub and F. Roux. 2009. Evolutionary-thinking in agricultural weed management. New Phytologist 184: 783-793.
    PubMed
  • Gao, L., F. Roux and J. Bergelson. 2009. Quantitative fitness effects of infection in a gene-for-gene system. New Phytologist 184: 465-494.
    PubMed