Abbate, J.; Gladieux, P.; Hood, M.E.; de Vienne, D.M.; Antonovics, J.A.; Snirc, A.; Giraud, T. 2018. Co-occurrence among three divergent plant-castrating fungi in the same Silene host species. Mol Ecol. In press

Branco, S.; Carpentier, F.; Rodríguez de la Vega, R.C.; Badouin, H.; Snirc, A.; Le Prieur, S.; Coelho, M.; de Vienne, D.M.; Hartmann, F.; Begerow, D.; Hood, M.E.; Giraud, T. 2018. Multiple convergent supergene evolution events in mating-type chromosomes. Nature Communications.

Chen, E.C.H.; Mathieu, S.; Hoffrichter, A.; Sedzielewska-Toro, K.; Peart, M.; Pelin, A.; Ndikumana, S.; Ropars, J.; Dreissig, S.; Fuchs, J.; Brachmann, A.; Corradi, N. 2018. Single nucleus sequencing reveals evidence of inter-nucleus recombination in arbuscular mycorrhizal fungi. Elife. 7.

Fortuna, T.; Namias, A.; Snirc, A.; Branca, A.; Hood, M.E.; Raquin, C.; Shykoff, J.A.; Giraud, T. 2018. ultiple infections, relatedness and virulence in the anther-smut fungus castrating Saponaria plants. Molecular Ecology. 27:4947-4959.

Hartmann, F.E.; McDonald, B.A.; Croll, D. 2018. Genome-wide evidence for divergent selection between populations of a major agricultural pathogen. Molecular Ecology. 27:2725-2741.

Hartmann, F.E.; Rodríguez de la Vega, R.C.; Brandenburg, J.T.; Carpentier, F.; T., G. 2018. Gene presence-absence polymorphism in castrating anther-smut fungi: recent gene gains and phylogeographic structure. Genome Biology and Evolution.

Kobmoo, N.; Duangdao, W.; Arnarmnart, N.; Luangsa-Ard, J.-J.; Rodríguez de la Vega, R.C.; Giraud, T. 2018. A genome scan of diversifying selection in the ant-zombi Ophiocordyceps unilateralis complex of entomopathogenic fungi supports a role of enterotoxins in coevolution and host-specificity.Mol Ecol.

Krishnan, P.; Meile, L.; Plissonneau, C.; Ma, X.; Hartmann, F.E.; Croll, D.; McDonald, B.A.; Sanchez-Vallet, A. 2018. Transposable element insertions shape gene regulation and melanin production in a fungal pathogen of wheat. Bmc Biology. 16.

Meile, L.; Croll, D.; Brunner, P.C.; Plissonneau, C.; Hartmann, F.E.; McDonald, B.A.; Sanchez-Vallet, A. 2018. A fungal avirulence factor encoded in a highly plastic genomic region triggers partial resistance to septoria tritici blotch. New Phytologist.219:1048-1061.

Plissonneau, C.; Hartmann, F.E.; Croll, D. 2018. Pangenome analyses of the wheat pathogen Zymoseptoria tritici reveal the structural basis of a highly plastic eukaryotic genome. BMC Biology. 16:5.

Ropars, J.; Maufrais, C.; Diogo, D.; Marcet-Houben, M.; Perin, A.; Sertour, N.; Mosca, K.; Permal, E.; Laval, G.; Bouchier, C.; Ma, L.; Schwartz, K.; Voelz, K.; May, R.; Poulain, J.; Battail, C.; Wincker, P.; Borman, A.M.; Chowdhary, A.; Fan, S.; Kim, S.-H.; Le Pape, P.; Romeo, O.; Shin, J.H.; Gabaldon, T.; Sherlock, G.; Bougnoux, M.-E.; d’Enfert, C. 2018. Gene flow contributes to diversification of the major fungal pathogen Candida albicans. Nature Communications. 9:2253.

Sanchez-Vallet, A.; Fouche, S.; Fudal, I.; Hartmann, F.E.; Soyer, J.L.; Tellier, A.; Croll, D. 2018. The Genome Biology of Effector Gene Evolution in Filamentous Plant Pathogens. Annual Review of Phytopathology. 56:21-40.

Sánchez-Vallet, A.; Hartmann, F.E.; Marcel, T.; Croll, D. 2018. Nature’s genetic screens: using genome-wide association studies for effector discovery. Molecular Plant Pathology. 19:3-6.

Arbuckle, K.; Rodríguez de la Vega, R.C.; Casewelld, N.R. 2017. Coevolution takes the sting out of it: Evolutionary biology and mechanisms of toxin resistance in animals. Taxon. 140:118-131.

Branco, S.; Bi, K.; Liao, H.L.; Gladieux, P.; Badouin, H.; Ellison, C.E.; Nguyen, N.H.; Vilgalys, R.; Peay, K.G.; Taylor, J.W.; Bruns, T.D. 2017. Continental-level population differentiation and environmental adaptation in the mushroom Suillus brevipes. Molecular Ecology. 26:2063-2076.

Branco, S.; Badouin, H.; Rodríguez de la Vega, R.C.; Gouzy, J.; Carpentier, F.; Aguileta, G.; Siguenza, S.; Brandenburg, J.-T.; Coelho, M.A.; Hood, M.E.; Giraud, T. 2017. Evolutionary strata on young mating-type chromosomes despite the lack of sexual antagonism. Proceedings of the National Academy of Sciences of the United States of America. 114:7067-7072.

Coelho, M.A.; Bakkeren, G.; Sun, S.; Hood, M.E.; Giraud, T. 2017. Fungal Sex: The Basidiomycota. Microbiology Spectrum. 5:Funk-0046.

Dupont, J.; Dequin, S.; Giraud, T.; Le Tacon, F.; Marsit, S.; Ropars, J.; Richard, F.; Selosse, M.A. 2017. Fungi as a Source of Food. Microbiology Spectrum. 5:Funk-0030.

Giraud, T.; Gabaldon, T. 2017. Dating nodes in a phylogeny using inferred horizontal gene transfers. Peer Community in Evolutionary Biology. 100037-doi.

Giraud, T.; Koskella, B.; Laine, A.L. 2017. Microbial local adaptation: insights from natural populations, genomics and experimental evolution. Molecular Ecology. 26:1703-1710.

Kaiser, L.; Dupas, S.; Branca, A.; Herniou, E.A.; Clarke, C.W.; Capdevielle Dulac, C.; Obonyo, J.; Benoist, R.; Gauthier, J.; Calatayud, P.A.; Silvain, J.F.; Le Ru, B.P. 2017. The Cotesia sesamiae story: insight into host-range evolution in a Hymenoptera parasitoid and implication for its use in biological control programs. Genetica. 145:455-468.

Lang, J.; Vigouroux, A.; El Sahili, A.; Kwasiborski, A.; Aumont-Nicaise, M.; Dessaux, Y.; Shykoff, J.A.; Morera, S.; Faure, D. 2017. Fitness costs restrict niche expansion by generalist niche-constructing pathogens. Isme Journal. 11:374-385.

Petit, E.; Silver, C.; Cornille, A.; Gladieux, P.; Rosenthal, L.; Bruns, E.; Yee, S.; Antonovics, J.; Giraud, T.; Hood, M.E. 2017. Co-occurrence and hybridization of anther-smut pathogens specialized on Dianthus hosts. Molecular Ecology. 26:1877-1890.

Ropars, J.; Lopez-Villavicencio, M.; Snirc, A.; Giraud, T. 2017. Blue cheese-making has shaped the population genetic structure of the mould Penicillium roqueforti. PLoS One. 12:e0171387.

Rosenthal, L.M.; Larsson, K.H.; Branco, S.; Chung, J.A.; Glassman, S.I.; Liao, H.L.; Peay, K.G.; Smith, D.P.; Talbot, J.M.; Taylor, J.W.; Vellinga, E.C.; Vilgalys, R.; Bruns, T.D. 2017. Survey of corticioid fungi in North American pinaceous forests reveals hyperdiversity, underpopulated sequence databases, and species that are potentially ectomycorrhizal. Mycologia. 109:115-127.

Tannières, M.; Lang, J.; Barnier, C.; Shykoff, J.A.; Faure, D. 2017. Quorum-quenching limits quorum-sensing exploitation by signal-negative invaders. Scientific Reports. 7:40126.

Taylor, J.W.; Branco, S.; Gao, C.; Hann-Soden, C.; Montoya, L.; Sylvain, I.; Gladieux, P. 2017. Sources of fungal genetic variation and associating it with phenotypic diversity. Microbiology Spectrum. 5:Funk-0057.

Badouin, H.; Gladieux, P.; Gouzy, J.; Siguenza, S.; Aguileta, G.; Snirc, A.; Le Prieur, S.; Jeziorski, C.; Branca, A.; Giraud, T. 2017. Widespread selective sweeps throughout the genome of model plant pathogenic fungi and identification of effector candidates. Mol Ecol. 26:2041-2062.

Feurtey, A.; Cornille, A.; Shykoff, J.A.; Snirc, A.; Giraud, T. 2017. Crop-to-wild gene flow and its fitness consequences on a wild fruit tree: towards a comprehensive conservation strategy of the wild apple in Europe. Evolutionary Applications. 10:180-188.

Aguileta, G.; Badouin, H.; Hood, M.E.; Møller, A.P.; Le Prieur, S.; Snirc, A.; Siguenza, S.; Mousseau, T.A.; Shykoff, J.A.; Cuomo, C.A.; Giraud, T. 2016. Lower prevalence but similar fitness in a parasitic fungus at higher radiation levels near Chernobyl. Molecular Ecology. 25:3370-3383.

Ali, S.; Soubeyrand, S.; Gladieux, P.; Giraud, T.; Leconte, M.; Gautier, A.; Mboup, M.; Chen, W.; de Vallavieille-Pope, C.; Enjalbert, J. 2016. Cloncase: Estimation of sex frequency and effective population size by clonemate resampling in partially clonal organisms. Molecular Ecology Resources. 16:845-861.

Bueker, B.; Eberlein, C.; Gladieux, P.; Schaefer, A.; Snirc, A.; Bennett, D.J.; Begerow, D.; Hood, M.E.; Giraud, T. 2016. Distribution and population structure of the anther smut Microbotryum silenes-acaulis parasitizing an arctic-alpine plant. Molecular Ecology. 25:811-824.

de Marchi, R.; Sorel, M.; Mooney, B.; Fudal, I.; Goslin, K.; Kwasniewska, K.; Ryan, P.T.; Pfalz, M.; Kroymann, J.; Pollmann, S.; Feechan, A.; Wellmer, F.; Rivas, S.; Graciet, E. 2016. The N-end rule pathway regulates pathogen responses in plants. Scientific Reports. 6:26020.

Decroocq, S.; Cornille, A.; Tricon, D.; Babayeva, S.; Chague, A.; Eyquard, J.P.; Karychev, R.; Dolgikh, S.; Kostritsyna, T.; Liu, S.; Liu, W.; Geng, W.; Liao, K.; Asma, B.M.; Akparov, Z.; Giraud, T.; Decroocq, V. 2016. New insights into the history of domesticated and wild apricots and its contribution to Plum pox virus resistance. Mol Ecol. 25:4712-4729.

Dequin, S.; Dupont, J.; Giraud, T.; Le Tacon, F.; Marsit, S.; Ropars, J.; Richard, F.; Selosse, M.-A. 2016. Fungi as food sources. The Fungal Kingdom.

Dumas, E.; Atyame, C.M.; Malcolm, C.A.; Le Goff, G.; Unal, S.; Makoundou, P.; Pasteur, N.; Weill, M.; Duron, O. 2016. Molecular data reveal a cryptic species within the Culex pipiens mosquito complex. Insect Molecular Biology. 25:800-809.

Dumas, E.; Boritsch, E.C.; Vandenbogaert, M.; Rodríguez de la Vega, R.C.; Thiberge, J.M.; Caro, V.; Gaillard, J.L.; Heym, B.; Girard-Misguich, F.; Brosch, R.; Sapriel, G. 2016. Mycobacterial pan-genome analysis suggests important role of plasmids in the radiation of type VII secretion systems. Genome Biology and Evolution. 8:387-402.

Flores-Solis, D.; Toledano, Y.; Rodríguez-Lima, O.; Cano-Sánchez, P.; Ramírez-Cordero, B.E.; Landa, A.; Rodríguez de la Vega, R.C.; Del Rio-Portilla, F. 2016. Solution structure and antiparasitic activity of scorpine-like peptides from Hoffmannihadrurus gertschi. FEBS Letters. 90:2286-2296.

Fortuna, T.M.; Snirc, A.; Badouin, H.; Gouzy, J.; Siguenza, S.; Esquerre, D.; Le Prieur, S.; Shykoff, J.A.; Giraud, T. 2016. Polymorphic microsatellite markers for the tetrapolar anther-smut fungus Microbotryum saponariae based on genome sequencing. PLoS One. 11:e0165656.

Giraud, H.; Cornille, A.; Giraud, T. 2016. Pommiers sauvage et cultivé : ce que la génétique nous apprend de leurs liens passés et présents sur leurs conservation et réimplantation futures. Forêt Entreprise. 229:26-29.

Gladieux, P.; Byrnes, E.; Fisher, M.; Aguileta, G.; Billmyre, B.; Heitman, J.; Giraud, T. 2016. Epidemiology and evolution of fungal pathogens, in plants and animals-2nd edition. Genetics and Evolution of Infectious Diseases. 59-131.

Gladieux, P.; Feurtey, A.; Hood, M.E.; Snirc, A.; Clavel, J.; Dutech, C.; Roy, M.; Giraud, T. 2016. The population biology of fungal invasions. Invasion Genetics: The Baker and Stebbins Legacy.

Greenwood, J.M.; López Ezquerra, A.; Behrens, S.; Branca, A.; Mallet, L. 2016. Current analysis of next generation sequencing data with a focus on host-parasite interactions. Zoology. 119:298-306.

Pfalz, M.; Mukhaimar, M.; Perreau, F.; Kirk, J.; Hansen, C.I.; Olsen, C.E.; Agerbirk, N.; Kroymann, J. 2016. Methyl Transfer in Glucosinolate Biosynthesis Mediated by Indole Glucosinolate O-Methyltransferase 5. Plant Physiol. 172:2190-2203.

Ravigné, V.; Giraud, T.; et al. 2016. La spéciation.

Rodríguez de la Vega, R.C.; Giraud, T. 2016. Intragenome diversity of gene families encoding toxin-like proteins in venomous animals. Integr. Comp. Biol. pii:icw097.

Rodriguez De La Vega, R.C.; Morgenstern, D.; Giraud, T. 2016. Evolutionary tinkering in animal venoms . Integrative and Comparative Biology. 56:E186-E186.

Ropars, J.; Rodríguez de la Vega, R.C.; López-Villavicencio, M.; Gouzy, J.; Dupont, J.; Swennen, D.; Dumas, E.; Giraud, T.; Branca, A. 2016. Diversity and mechanisms of genomic adaptation in Penicillium. Aspergillus and Penicillium in the post-genomic era.


Ropars, J.; Lo, Y.C.; Dumas, E.; Snirc, A.; Begerow, D.; Rollnik, T.; Lacoste, S.; Dupont, J.; Giraud, T.; Lopez-Villavicencio, M. 2016. Fertility depression among cheese-making Penicillium roqueforti strains suggests degeneration during domestication. Evolution. 70:2099-2109.

Stokke, B.G.; Roskaft, E.; Moksnes, A.; Møller, A.P.; Antonov, A.; Fossoy, F.; Liang, W.; Lopez-Iborra, G.; Moskat, C.; Shykoff, J.A.; Soler, M.; Vikan, J.R.; Yang, C.; Takasu, F. 2016. Disappearance of eggs from nonparasitized nests of brood parasite hosts: the evolutionary equilibrium hypothesis revisited. Biological Journal of the Linnean Society. 118:215-225.

Feurtey, A.; Gladieux, P.; Hood, M.E.; Snirc, A.; Cornille, A.; Rosenthal, L.; Giraud, T. 2016. Strong phylogeographic co-structure between the anther-smut fungus and its white campion host. New Phytol. 212:668-679.

Houngbédji, T.; Dessaint, F.; Nicolardot, B.; Shykoff, J.A.; Gibot-Leclerc, S. 2016. Weed communities of rain-fed lowland rice vary with infestation by Rhamphicarpa fistulosa. Acta Oecologica-International Journal of Ecology. 77:85-90.

Cornille, A.; Feurtey, A.; Gélin, U.; Misvanderbrugge, K.; Gladieux, P.; Ropars, J.; Giraud, T. 2015. Anthropogenic and natural drivers of gene flow in a temperate wild fruit tree: a basis for conservation and breeding programs in apples. Evolutionary Applications. 8:373-384.

Fontanillas, E.; Hood, M.E.; Badouin, H.; Petit, E.; Barbe, V.; Gouzy, J.; de Vienne, D.M.; Aguileta, G.; Poulain, J.; Wincker, P.; Chen, Z.; Toh, S.S.; Cuomo, C.; Perlin, M.H.; Gladieux, P.; Giraud, T. 2015. Degeneration of the non-recombining regions in the mating type chromosomes of the anther smut fungi. Mol Biol Evol. 32:928-943.

Gillot, G.; Jany, J.L.; Coton, M.; Le Floch, G.; Debaets, S.; Ropars, J.; Lopez-Villavicencio, M.; Dupont, J.; Branca, A.; Giraud, T.; Coton, E. 2015. Insights into Penicillium roqueforti Morphological and Genetic Diversity. Plos One. 10.

Gladieux, P.; Wilson, B.A.; Perraudeau, F.; Montoya, L.A.; Kowbel, D.; Hann-Soden, C.; Fischer, M.; Sylvain, I.; Jacobson, D.J.; Taylor, J.W. 2015. Genomic Sequencing Reveals Historical, Demographic, and Selective Factors Associated with the Diversification of the Fire-Associated Fungus Neurospora discreta. Mol Ecol. 24:5657-5675.

Gladieux, P.; Feurtey, A.; Hood, M.E.; Snirc, A.; Clavel, J.; Dutech, C.; Roy, M.; Giraud, T. 2015. The population biology of fungal invasions. Mol Ecol. 24:1969-1986.

Idnurm, A.; Hood, M.E.; Johannesson, H.; Giraud, T. 2015. Contrasted patterns in mating-type chromosomes in fungi: hotspots versus coldspots of recombination. Fungal Biology Reviews. 29:220-229.

Kaiser, L.; Herniou, E.; Le Ru, B.; Jancek, S.; Kaoula, F.; Branca, A.; Paillusson, C.; Silvain, J.F.; Capdevielle-Dulac, C.; Dupas, S. 2015. Ongoing ecological speciation in a biological control agent: when to become a specialist. Evolutionary Applications. 8:807-820.

Masri, L.; Branca, A.; Sheppard, A.E.; Papkou, A.; Laehnemann, D.; Guenther, P.S.; Prahl, S.; Saebelfeld, M.; Hollensteiner, J.; Liesegang, H.; Brzuszkiewicz, E.; Daniel, R.; Michiels, N.K.; Schulte, R.D.; Kurtz, J.; Rosenstiel, P.; Telschow, A.; Bornberg-Bauer, E.; Schulenburg, H. 2015. Host-Pathogen Coevolution: The Selective Advantage of Bacillus thuringiensis Virulence and Its Cry Toxin Genes. Plos Biology. 13.

Pentzold, S.; Zagrobelny, M.; Bjarnholt, N.; Kroymann, J.; Vogel, H.; Olsen, C.E.; Møller, B.L.; Bak, S. 2015. Metabolism, excretion and avoidance of cyanogenic glucosides in insects with different feeding specialisations. Insect Biochem Mol Biol. 66:119-128.

Perlin, M.H.; Amselem, J.; Fontanillas, E.; Toh, S.S.; Chen, Z.H.; Goldberg, J.; Duplessis, S.; Henrissat, B.; Young, S.; Zeng, Q.D.; Aguileta, G.; Petit, E.; Badouin, H.; Andrews, J.; Razeeq, D.; Gabaldon, T.; Quesneville, H.; Giraud, T.; Hood, M.E.; Schultz, D.J.; Cuomo, C.A. 2015. Sex and parasites: genomic and transcriptomic analysis of Microbotryum lychnidis-dioicae, the biotrophic and plant-castrating anther smut fungus. Bmc Genomics. 16.

Pintye, A.; Ropars, J.; Harvey, N.; Shin, H.D.; Leyronas, C.; Nicot, P.C.; Giraud, T.; Kiss, L. 2015. Host Phenology and geography as drivers of differentiation in generalist mycoparasites. PLoS One. 10:e0120703.

Rodríguez de la Vega, R.C.; Corzo, G.; Possani, L.D. 2015. Scorpion venoms as a platform for drug development. RSC Drug Discovery Series: Venoms to Drugs.

Ropars, J.; Rodríguez de la Vega, R.C.; Lopez-Villavicencio, M.; Gouzy, J.; Sallet, E.; Dumas, E.; Lacoste, S.; Debuchy, R.; Dupont, J.; Branca, A.; Giraud, T. 2015. Adaptive Horizontal Gene Transfers between Multiple Cheese-Associated Fungi. Current Biology. 25:2562-2569.

Short, D.P.G.; Gurung, S.; Gladieux, P.; Inderbitzin, P.; Atallah, Z.K.; Nigro, F.; Li, G.Q.; Benlioglu, S.; Subbarao, K.V. 2015. Globally invading populations of the fungal plant pathogen Verticillium dahliae are dominated by multiple divergent lineages. Environmental Microbiology. 17:2824-2840.

Yao, J.L.; Xu, J.; Cornille, A.; Tomes, S.; Karunairetnam, S.; Luo, Z.; Bassett, H.; Whitworth, C.; Rees-George, J.; Ranatunga, C.; Snirc, A.; Crowhurst, R.; de Silva, N.; Kumar, S.; Chagne, D.; Bus, V.; Volz, R.; Rikkerink, E.; Gardiner, S.; Giraud, T.; MacDiarmid, R.; Newcomb, R.; Gleave, A. 2015. A microRNA underlies the apple (Malus spp.) fruit size evolution prior to domestication. Plant Journal. 84:417-427.

Badouin, H.; Hood, M.E.; Gouzy, J.; Aguileta, G.; Siguenza, S.; Perlin, M.H.; Cuomo, C.A.; Fairhead, C.; Branca, A.; Giraud, T. 2015. Chaos of Rearrangements in the Mating-Type Chromosomes of the Anther-Smut Fungus Microbotryum lychnidis-dioicae. Genetics. 200:1275-+.

Dussert, Y.; Snirc, A.; Robert, T. 2015. Inference of domestication history and differentiation between early- and late-flowering varieties in pearl millet. Molecular Ecology. 24:1387-1402.

Leforestier, D.; Ravon, E.; Muranty, H.; Cornille, A.; Lemaire, C.; Giraud, T.; Durel, C.E.; Branca, A. 2015. Genomic basis of the differences between cider and dessert apple varieties. Evolutionary Applications. 8:650-661.

Aguileta, G.; de Vienne, D.M.; Ross, O.N.; Hood, M.E.; Giraud, T.; Petit, E.; Gabaldon, T. 2014. High Variability of Mitochondrial Gene Order among Fungi. Genome Biology and Evolution. 6:451-465.

Ali, S.; Gladieux, P.; Leconte, M.; Gautier, A.; Justesen, A.F.; Hovmoller, M.S.; Enjalbert, J.; de Vallavieille-Pope, C. 2014. Origin, Migration Routes and Worldwide Population Genetic Structure of the Wheat Yellow Rust Puccinia striiformis f. sp tritici. Plos Pathogens. 10:e1003903.

Ali, S.; Gladieux, P.; Rahman, H.; Saqib, M.S.; Fiaz, M.; Ahmad, H.; Leconte, M.; Gautier, A.; Justesen, A.F.; Hovmoller, M.S.; Enjalbert, J.; De Vallavieille-Pope, C. 2014. Inferring the contribution of sexual reproduction, migration and off-season survival to the temporal maintenance of microbial populations: a case study on the wheat fungal pathogen Puccinia striiformis f.sp tritici. Molecular Ecology. 23:603-617.

Ali, S.; Leconte, M.; Rahman, H.; Saqib, M.S.; Gladieux, P.; Enjalbert, J.; de Vallavieille-Pope, C. 2014. A high virulence and pathotype diversity of Puccinia striiformis f.sp tritici at its centre of diversity, the Himalayan region of Pakistan. European Journal of Plant Pathology. 140:275-290.

Buono, L.; Lopez-Villavicencio, M.; Shykoff, J.A.; Snirc, A.; Giraud, T. 2014. Influence of Multiple Infection and Relatedness on Virulence: Disease Dynamics in an Experimental Plant Population and Its Castrating Parasite. Plos One. 9:e98526.

Cheeseman, K.; Ropars, J.; Renault, P.; Dupont, J.; Gouzy, J.; Branca, A.; Ceppi, M.; Debuchy, R.; Malagnac, F.; Goarin, A.; Silar, P.; Lacoste, S.; Sallet, E.; Bensimon, A.; Giraud, T.; Brygoo, Y. 2014. Recent horizontal transfer of a large genomic region between cheese fungi. Nature Communications. 5:2876.

Cornille, A.; Giraud, T.; Smulders, M.J.M.; Roldan-Ruiz, I.; Gladieux, P. 2014. The domestication and evolutionary ecology of apples. Trends in Genetics. 30:57-65.

Dupas, S.; Ru, B.; Branca, A.; Faure, N.; Gigot, G.; Campagne, P.; Sezonlin, M.; Ndemah, R.; Ong’amo, G.; Calatayud, P.-A. 2014. Phylogeography in continuous space: coupling species distribution models and circuit theory to assess the effect of contiguous migration at different climatic periods on genetic differentiation in Busseola fusca (Lepidoptera: Noctuidae). Molecular ecology. 23:2313-2325.

Gibson, A.K.; Refregier, G.; Hood, M.E.; Giraud, T. 2014. Performance of a hybrid fungal pathogen on pure-species and hybrid host plants. International Journal of Plant Sciences. 175:724-730.

Giraud, H.; Cornille, A.; Giraud, T. 2014. Les pérégrinations du pommier domestique. Pour la Science. 439:39-41.

Gladieux, P.; Ropars, J.; Badouin, H.; Branca, A.; Aguileta, G.; De Vienne, D.M.; Rodriguez de La Vega, R.C.; Branco, S.; Giraud, T. 2014. Fungal evolutionary genomics provides insight into the mechanisms of adaptive divergence in eukaryotes. Molecular Ecology. 23:753-773.

Gouyon, P.H.; de Vienne, D.M.; Giraud, T. 2014. Sex and Evolution. Handbook of Evolutionary Thinking.

Nieuwenhuis, B.P.S.; Billiard, S.; Vuilleumier, S.; Petit, E.; Hood, M.E.; Giraud, T. 2014. Evolution of uni- and bifactorial sexual compatibility systems in fungi. Heredity. 111:445-455.

Rodríguez de la Vega, R.C.; Giraud, T. 2014. All paths lead to Rome: Evolutionary convergence and divergence of le channel blocking toxins. Toxicon. 91:166-166.

Rodriguez de la Vega, R.C.; Ropars, J.; Gouzy, J.; Branca, A.; Giraud, T. 2014. Genomic footprints of domestication in cheese-making fungi. Febs Journal. 281:660-660.

Ropars, J.; Aguileta, G.; de Vienne, D.M.; Giraud, T. 2014. Massive gene swamping among cheese making Penicillium fungi. Microbial Cell. 1:107-109.

Ropars, J.; López-Villavicencio, M.; Dupont, J.; Snirc, A.; Gillot, G.; Coton, M.; Jany, J.L.; Coton, E.; Giraud, T. 2014. Sexual reproduction and genetic diversity in the cheese fungus Penicillium roqueforti. Evolutionary Applications. 7:433-441.

Schnitzler, A.; Arnold, C.; Cornille, A.; Bachmann, O.; Schnitzler, C. 2014. Wild European apple (Malus sylvestris (L.) Mill.) population dynamics: insight from genetic and ecology in the Rhine Valley. Priorities for a conservation program. PloS One. 9(5):e96596.

Walker, A.S.; Gladieux, P.; Decognet, V.; Fermaud, M.; Confais, J.; Roudet, J.; Bardin, M.; Bout, A.; Nicot, P.C.; Poncet, C.; Fournier, E. 2014. Population structure and temporal maintenance of the multihost fungal pathogen Botrytis cinerea: causes and implications for disease management. Environmental Microbiology. 17:1261-1274.

Yuan, J.-H.; Cornille, A.; Giraud, T.; Cheng, F.-Y.; Hu, Y.-H. 2014. Independent domestications of cultivated tree peonies from different wild peony species. Molecular Ecology. 23:82-95.

Houngbédji, T.; Pocanam, Y.; Shykoff, J.A.; Nicolardot, B.; Gibot-Leclerc, S. 2014. Une nouvelle plante parasite majeure en riziculture au Togo : Rhamphicarpa fistulosa. Cahiers Agricultures. 23:357-365.

Andrew, R.L.; Bernatchez, L.; Bonin, A.; Buerkle, C.A.; Carstens, B.C.; Emerson, B.C.; Garant, D.; Giraud, T.; Kane, N.C.; Rogers, S.M.; Slate, J.; Smith, H.; Sork, V.L.; Stone, G.N.; Vines, T.H.; Waits, L.; Widmer, A.; Rieseberg, L.H. 2013. A road map for molecular ecology. Molecular Ecology. 22:2605-2626.

Cornille, A.; Giraud, T.; Bellard, C.; Tellier, A.; Le Cam, B.; Smulders, M.J.M.; Kleinschmit, J.; Roldan-Ruiz, I.; Gladieux, P. 2013. Postglacial recolonization history of the European crabapple (Malus sylvestris Mill.), a wild contributor to the domesticated apple. Molecular Ecology. 22:2249-2263.

Cornille, A.; Gladieux, P.; Giraud, T. 2013. Crop-to-wild gene flow and spatial genetic structure in the closest wild relatives of the cultivated apple. Evolutionary Applications. 6:737-748.

de Vienne, D.M.; Giraud, T.; Gouyon, P.H. 2013. Lineage Selection and the Maintenance of Sex. Plos One. 8:e66906.

de Vienne, D.M.; Refregier, G.; Lopez-Villavicencio, M.; Tellier, A.; Hood, M.E.; Giraud, T. 2013. Cospeciation vs host-shift speciation: methods for testing, evidence from natural associations and relation to coevolution. New Phytologist. 198:347-385.

Fontaine, M.C.; Austerlitz, F.; Giraud, T.; Labbe, F.; Papura, D.; Richard-Cervera, S.; Delmotte, F. 2013. Genetic signature of a range expansion and leap-frog event after the recent invasion of Europe by the grapevine downy mildew pathogen Plasmopara viticola. Molecular Ecology. 22.2771-2786.

Fontaine, M.C.; Gladieux, P.; Hood, M.E.; Giraud, T.  2013. History of the invasion of the anther smut pathogen on Silene latifolia in North America. New Phytologist. 198:946-956.

Fournier, E.; Gladieux, P.; Giraud, T. 2013. The “Dr Jekyll and Mr Hyde fungus”: noble rot versus gray mold symptoms of Botrytis cinerea on grapes. Evolutionary Applications. 6:960–969.

Gabaldon, T.; Martin, T.; Marcet-Houben, M.; Durrens, P.; Bolotin-Fukuhara, M.; Lespinet, O.; Arnaise, S.; Boisnard, S.; Aguileta, G.; Atanasova, R.; Bouchier, C.; Couloux, A.; Creno, S.; Cruz, J.A.; Devillers, H.; Enache-Angoulvant, A.; Guitard, J.; Jaouen, L.; Ma, L.; Marck, C.; Neuveglise, C.; Pelletier, E.; Pinard, A.; Poulain, J.; Recoquillay, J.; Westhof, E.; Wincker, P.; Dujon, B.; Hennequin, C.; Fairhead, C. 2013. Comparative genomics of emerging pathogens in the Candida glabrata clade. Bmc Genomics. 14:623.

Giraud, T.; Shykoff, J.A. 2013. Fisher RA.

Gladieux, P.; Devier, B.; Aguileta, G.; Cruaud, C.; Giraud, T. 2013. Purifying selection after episodes of recurrent adaptive diversification in fungal pathogens. Infection Genetics and Evolution. 17:123-131.

Hanikenne, M.; Kroymann, J.; Trampczynska, A.; Bernal, M.; Motte, P.; Clemens, S.; Kramer, U. 2013. Hard Selective Sweep and Ectopic Gene Conversion in a Gene Cluster Affording Environmental Adaptation. Plos Genetics. 9.

Hood, M.E.; Petit, E.; Giraud, T. 2013. Extensive Divergence Between Mating-Type Chromosomes of the Anther-Smut Fungus. Genetics. 193:309-315.

López-Villavicencio, M.; Debets, A.J.M.; Slakhorst, M.; Giraud, T.; Schoustra, S.E. 2013. Deleterious effects of recombination and possible nonrecombinatorial advantages of sex in a fungal model. Journal of Evolutionary Biology. 26:1968-1978.

Luque, G.M.; Giraud, T.; Courchamp, F. 2013. Allee effects in ants. J Anim Ecol. 82:956-965.

Rodríguez de la Vega, R.C.; Vidal, N.; Possani, L.D. 2013. Scorpion peptides. Handbook of Biologically Active Peptides. 423-429.

Salvaudon, L.; De Moraes, C.M.; Mescher, M.C. 2013. Outcomes of co-infection by two potyviruses: implications for the evolution of manipulative strategies. Proceedings of the Royal Society B-Biological Sciences. 280:1471-2954.

Salvaudon, L.; Shykoff, J.A. 2013. Variation in Arabidopsis developmental responses to oomycete infection: resilience vs changes in life history traits. New Phytologist. 197:919-926.

Selosse, M.A.; Taschen, E.; Giraud, T. 2013. Do black truffles avoid sexual harassment by linking mating type and vegetative incompatibility? New Phytologist. 199:10-13.

Shapiro, L.R.; Salvaudon, L.; Mauck, K.E.; Pulido, H.; De Moraes, C.M.; Stephenson, A.G.; Mescher, M.C. 2013. Disease interactions in a shared host plant: effects of pre-existing viral infection on cucurbit plant defense responses and resistance to bacterial wilt disease. Plos One. 8:10.

Verdu, P.; Becker, N.S.A.; Froment, A.; Georges, M.; Grugni, V.; Quintana-Murci, L.; Hombert, J.M.; Van der Veen, L.; Le Bomin, S.; Bahuchet, S.; Heyer, E.; Austerlitz, F. 2013. Sociocultural Behavior, Sex-Biased Admixture, and Effective Population Sizes in Central African Pygmies and Non-Pygmies. Molecular Biology and Evolution. 30:918-937.

Dussert, Y.; Remigereau, M.S.; Fontaine, M.C.; Snirc, A.; Lakis, G.; Stoeckel, S.; Langin, T.; Sarr, A.; Robert, T. 2013. Polymorphism pattern at a miniature inverted-repeat transposable element locus downstream of the domestication gene Teosinte-branched1 in wild and domesticated pearl millet. Molecular Ecology. 22:2358-2358.

Austerlitz, F.; Gleiser, G.; Teixeira, S.; Bernasconi, G. 2012. The effects of inbreeding, genetic dissimilarity and phenotype on male reproductive success in a dioecious plant. Proceedings of the Royal Society B-Biological Sciences. 279         :91-100

Avilés, J.M.; Vikan, J.R.; Fossøy, F.; Antonov, A.; Moksnes, A.; Røskaft, E.; Shykoff, J.A.; Møller, A.P.; Stokke, B.G. 2012. Egg phenotype matching by cuckoos in relation to discrimination by hosts and climatic conditions. Proceedings of the Royal Society of London Series B-Biological Sciences. In press.

Bachy, C.; Gómez, F.; López-García, P.; Dolan, J.R.; Moreira, D. 2012. Molecular phylogeny of tintinnid ciliates (Tintinnida, Ciliophora). Protist. In press.

Benito Garzón, M.; Aragon, C.F.; Ruiz Benito, P.; Garcia-Valdes, R.; Zavla, M.A. 2012. Projecting climate change effects on forest net primary productivity: a correlational non-parametric model calibrated with forest inventory data. Climatic Change. In press.

Billiard, S.; Lopez-Villavicencio, M.; Hood, M.E.; Giraud, T. 2012. Why sex, outcrossing and mating types? : Unsolved questions in fungi and in general. J Evol Biol. In press.

Cornille, A.; Underhill, J.G.; Cruaud, A.; Hossaert-McKey, M.; Johnson, S.D.; Tolley, K.A.; Kjellberg, F.; van Noort, S.; Proffit, M. 2012. Floral volatiles, pollinator sharing and diversification in the fig-wasp mutualism: insights from Ficus natalensis, and its two wasp pollinators (South Africa). Proc Biol Sci

Dilmaghani, A.; Gladieux, P.; Gout, L.; Giraud, T.; Brunner, P.C.; Stachowiak, A.; Balesdent, M.-H.; Rouxel, T. 2012. Migration patterns and changes in population biology associated with the worldwide spread of the oilseed rape pathogen Leptosphaeria maculans. Mol Ecol. In press.

Giraud, T.; Gourbière, S. 2012. The tempo and modes of evolution of reproductive isolation in fungi. Heredity.

Gomez, F.; Moreira, D.; Lopez-Garcia, P. 2012. Sinophysis and Pseudophalacroma are distantly related to typical dinophysoid dinoflagellates (Dinophysales, Dinophyceae). J Eukaryot Microbiol.

Heyer, E.; Chaix, R.; Pavard, S.; Austerlitz, F. 2012. Sex-specific demographic behaviours that shape human genomic variation. Mol Ecol.

Jollivet, D.; Mary, J.; Gagnière, N.; Tanguy, A.; Fontanillas, E.; Boutet, I.; Hourdez, S.; Segurens, B.; Weissenbach, J.; Poch, O.; Lecompte, O. 2012. Proteome adaptation to high temperatures in the ectothermic hydrothermal vent pompeii worm. PLoS ONE. In press.

Lê Van, A.; Gladieux, P.; Lemaire, C.; Cornille, A.; Giraud, T.; Durel, C.-E.; Caffier, V.; Le Cam, B. 2012. Evolution of pathogenicity traits in the apple scab fungal pathogen in response to the domestication of its host. Evolutionary Applications.


Liang, W.; Yang, C.; Antonov, A.; Fossøy, F.; Stokke, B.G.; Moksnes, A.; Røskaft, E.; Shykoff, J.A.; Møller, A.P.; Takasu, F. 2012. Sex roles in egg recognition and egg polymorphism in avian brood parasitism. Behavioral Ecology.

Liang, W.; Yang, C.; Stokke, B.G.; Antonov, A.; Fossøy, F.; Vikan, J.R.; Moksnes, A.; Røskaft, E.; Shykoff, J.A.; Møller, A.P.; Takasu, F. 2012. Modeling the maintenance of egg polymorphism in avian brood parasites and their hosts.  Journal of Evolutionary Biology. In press.

Niedzialkowska, M.; Fontaine, M.C.; Jedrzejewska, B. 2012. Factors shaping red deer gene flow in semi-natural landscapes of Central Europe. Canadian Journal of Zoology. In press.

Rodriguez De La Vega, R.; Vidal, N.; Possani, L.D. 2012 Scorpion venom peptides. Handbook of Biologically Active Peptides 2nd ed.

Saucedo, A.L.; Flores-Solis, D.; Rodriguez De La Vega, R.C.; Ramirez-Cordero, B.; Hernandez-Lopez, R.; Cano-Sanchez, P.; Noriega-Navarro, R.; Garcia-Valdes, J.; Coronas-Valderrama, F.; de Roodt, A.; Brieba, L.G.; Possani, L.D.; del Rio-Portilla, F. 2012. New tricks of an old pattern: structural versatility of scorpion toxins with common cysteine spacing. J. Biol. Chem. In press.

Amselem, J.; 64 authors including Giraud, T.; et al. 2011. Genomic analysis of the necrotrophic fungal pathogens Sclerotinia sclerotiorum and Botrytis cinerea. PloS Genetics. 7:e1002230.

Avilés, J.M.; Vikan, J.R.; Fossøy, F.; Antonov, A.; Moksnes, A.; Røskaft, E.; Shykoff, J.A.; Møller, A.P.; Jensen, H.; Procházka, P.; Stokke, B.G. 2011. The common cuckoo Cuculus canorus is not locally adapted to its reed warbler Acrocephalus scirpaceus host. Journal of Evolutionary Biology. 24:314-325.

Ayala, D.; Fontaine, M.C.; Cohuet, A.; Fontenille, D.; Vitalis, R.; Simard, F. 2011. Chromosomal inversions, natural selection and adaptation in the malaria vector Anopheles funestus. Mol Biol Evol. 28:745-758.

Bachy, C.; Lopez-Garcia, P.; Vereshchaka, A.; Moreira, D. 2011. Diversity and vertical distribution of microbial eukaryotes in the snow, sea ice and seawater near the north pole at the end of the polar night. Front Microbiol. 2:106.

Barluenga, M.; Austerlitz, F.; Elzinga, J.A.; Teixeira, S.; Goudet, J.; Bernasconi, G. 2011. Fine-scale spatial genetic structure and gene dispersal in Silene latifolia. Heredity. 106:13-24.

Billiard, S.; Lopez-Villavicencio, M.; Devier, B.; Hood, M.E.; Fairhead, C.; Giraud, T. 2011. Having sex, yes, but with whom? : Inferences from fungi on the evolution of anisogamy and mating types. Biological Reviews. 86:421-442.

Brandenburg, J.-T. 2011. Modélisation de l’impact des sélections naturelle et culturelle sur la diversité génétique : cas de la transmission du succès reproducteur et des réseaux de gènes. P

Brochier-Armanet, C.; Deschamps, P.; Lopez-Garcia, P.; Zivanovic, Y.; Rodriguez-Valera, F.; Moreira, D. 2011. Complete-fosmid and fosmid-end sequences reveal frequent horizontal gene transfers in marine uncultured planktonic archaea. Isme J. 5:1291-1302.

Cai, L.; Giraud, T.; Zhang, N.; Begerow, D.; Cai, G.; Shivas, R.G. 2011. The evolution of species concept and species recognition criteria in plant pathogenic fungi. Fungal Diversity. 50:121-133.

Charpentier, M.J.E.; Fontaine, M.C.; Cherel, E.; Renoult, J.P.; Jenkins, T.; Benoit, L.; Barthès, N.; Altmann, J.; Alberts, S.C.; Tung, J. 2011. Genetic structure in a dynamic baboon hybrid zone corroborates behavioral observations in a hybrid population. Mol Ecol. In press     .

Couradeau, E.; Benzerara, K.; Moreira, D.; Gerard, E.; Kazmierczak, J.; Tavera, R.; Lopez-Garcia, P. 2011. Prokaryotic and eukaryotic community structure in field and cultured microbialites from the alkaline lake alchichica (Mexico). PLoS One. 6:e28767.

de Vienne, D.M.; Aguileta, G.; Ollier, S. 2011. Euclidean Nature of Phylogenetic Distance Matrices. Systematic Biology. 60:826-832.

Deschamps, P.; Lara, E.; Marande, W.; Lopez-Garcia, P.; Ekelund, F.; Moreira, D. 2011. Phylogenomic analysis of kinetoplastids supports that trypanosomatids arose from within bodonids. Mol Biol Evol. 28:53-58.

Eme, L.; Trilles, A.; Moreira, D.; Brochier-Armanet, C. 2011. The phylogenomic analysis of the anaphase promoting complex and its targets points to complex and modern-like control of the cell cycle in the last common ancestor of eukaryotes. BMC Evol Biol. 11:265

Fiore, M.; Austerlitz, F.; Pillois, X.; Firah, N.; Nurden, P.; Nurden, A.T. 2011. Founder effect and phenotypic severity of the French gypsy mutation in Glanzmann thrombasthenia. Journal of Thrombosis and Haemostasis. 9 :88-88.

Fiore, M.; Pillois, X.; Nurden, P.; Nurden, A.T.; Austerlitz, F. 2011. Founder effect and estimation of the age of the French Gypsy mutation associated with Glanzmann thrombasthenia in Manouche families. European Journal of Human Genetics. 19:981-987.

Fossøy, F.; Antonov, A.; Moksnes, A.; Røskaft, E.; Vikan, J.R.; Møller, A.P.; Shykoff, J.A.; Stokke, B.G. 2011. Genetic differentiation among sympatric cuckoo host races – males matter. Proceedings of the Royal Society of London Series B-Biological Sciences. 278:1639-1645.

Garraud, C. 2011. Evolution de la gynodioécie-gynomonoécie: Approches expérimentales chez Silene nutans et approaches théoriques. PhD.

Garraud, C.; Brachi, B.; Dufay, M.; Touzet, P.; Shykoff, J.A. 2011. Genetic determination of male sterility in gynodioecious Silene nutans. Heredity. 106:757-764.

Gaudeul, M.; Giraud, T.; Kiss, L.; Shykoff, J.A. 2011. Nuclear and chloroplast microsatellites show multiple introductions in the worldwide invasion history of common ragweed, Ambrosia artemisiifolia (Asteraceae). PLoS One. 6:e1765.

Giraud, T.; Shykoff, J.A. 2011. Bacterial cooperation controlled by mobile elements: kin selection versus infectivity. Heredity. 107:277-278.

Gladieux, P.; Giraud, T.; Shykoff, J.A.; Genton, B.; Jonot, O.; Kiss, L. 2011. Distinct invasion sources of common ragweed (Ambrosia artemisiifolia) in Eastern and Western Europe. Biological invasions. 13:933-944.

Gladieux, P.; Guérin, F.; Giraud, T.; Caffier, V.; Parisi, L.; Didelot, F.; Lemaire, C.; Le Cam, B. 2011. Emergence of novel fungal pathogens by ecological speciation: importance of the reduced viability of immigrants. Mol Ecol. 20:4521-4532.

Gladieux, P.; Vercken, E.; Fontaine, M.C.; Hood, M.E.; Jonot, O.; Couloux, A.; Giraud, T. 2011. Maintenance of fungal pathogen species that are specialized to different hosts: allopatric divergence and introgression through secondary contact. Mol Biol Evol. 28:459-471.

Gómez, F.; López-García, P.; Moreira, D. 2011. Molecular Phylogeny of the sand-dwelling dinoflagellates Amphidiniopsis hirsuta and A. swedmarkii (Peridiniales, Dinophyceae). Acta Protozool. 50:255-262.

Gomez, F.; Moreira, D.; Benzerara, K.; Lopez-Garcia, P. 2011. Solenicola setigera is the first characterized member of the abundant and cosmopolitan uncultured marine stramenopile group MAST-3              2011. Environ Microbiol. 13 :193-202.

Gómez, F.; Moreira, D.; López-García, P. 2011. Molecular phylogeny of dinophysoid dinoflagellates: the systematic position of Oxyphysis oxytoxoides and the Dinophysis hastata group (Dinophysiales, Dinophyceae). J. Phycol. 47:393-406.

Heyer, E.; Brazier, L.; Segurel, L.; Hegay, T.; Austerlitz, F.; Quintana-Murci, L.; Georges, M.; Pasquet, P.; Veuille, M. 2011. Lactase Persistence in Central Asia: Phenotype, Genotype, and Evolution. Human Biology. 83:379-392.

Jaeckisch, N.; Yang, I.; Wohlrab, S.; Glöcker, G.; Kroymann, J.; Voge, l. H.; Cembella, A.; John, U. 2011. Comparative genomic and transcriptomic characterization of the toxigenic marine dinoflagellate Alexandrium ostenfeldii. PLoS ONE. 6:e28012.

Jauniaux, T.; Farnir, F.; Fontaine, M.C.; Kiska, J.; Sarlet, M.; Coignoul, F. Cytochrome P450 1A1 expression in cetacean skin biopsies from the Indian. Ocean. Mar Pollut Bull. 62:1317-1319.

Jauniaux, T.; Andre, M.; Brenez, C.; Charpentier, J.M.; Delvenne, P.; Fontaine, M.C.; Haelters, J.; Jacques, T.G.; Lenglet, G.; Pezeril, S.; Roland, K.; Coignoul, F. 2011. Post-mortem observations of a beaked whales (Mesoplodon bidens) stranding in 2008 on the coast of northern France. Veterinary Pathology. In press.

Karapetyan, A.R.; Gladieux, P.; Zakharov, I.A. 2011. Genetic polymorphism of Microbotryum violaceum s. l. Isolates collected from different plant species on the territory of Russia. Russian Journal of Genetics. 46:1395-1398.

Kaźmierczak, J.; Kempe, S.; Kremer, B.; López-García, P.; Moreira, D.; Tavera, R. 2011. Hydrochemistry and microbialites of the alkaline crater Lake Alchichica, Mexico. Facies. 57:543-570.

Kirkham, A.R.; Jardillier, L.; Holland, R.; Zubkov, M.; Scanlan, D. 2011. Analysis of photosynthetic picoeukaryote community structure along an extended Ellet Line transect in the northern North Atlantic reveals a dominance of novel prymnesiophyte and prasinophyte phylotypes. Deep-Sea Res Part I. 58:733-744.

Kirkham, A.R.; Jardillier, L.E.; Tiganescu, A.; Pearman, J.; Zubkov, M.V.; Scanlan, D.J. 2011. Basin-scale distribution patterns of photosynthetic picoeukaryotes along an Atlantic Meridional Transect. Environ Microbiol. 13:975-990.

Kiss, L.; Pintye, A.; Kovacs, G.M.; Jankovics, T.; Fontaine, M.C.; Harvey, N.; Xu, X.; Nicot, P.; Bardin, M.; Shykoff, J.A.; Giraud, T. 2011. Temporal isolation explains host-related genetic differentiation in a group of widespread mycoparasitic fungi. Mol Ecol. 20:1492-1507.

Kroymann, J. 2011. Natural diversity and adaptation in plant secondary metabolism. Current Opinion in Plant Biology. 14:246-251.

Lara, E.; Mitchell, E.A.; Moreira, D.; Lopez Garcia, P. 2011. Highly diverse and seasonally dynamic protist community in a pristine peat bog. Protist. 162:14-32.

Lombard, J.; Moreira, D. 2011. Origins and early evolution of the mevalonate pathway of isoprenoid biosynthesis in the three domains of life. Mol Biol Evol. 28:87-99.

Lombard, J.; Moreira, D. 2011. Early evolution of the biotin-dependent carboxylase family. BMC Evol Biol. 11:232.

López-García, P. 2011. 5 entries: Prokaryotes, Origin of; Phylum; Phylotype; Domain; Lateral Gene Transfer. Encyclopedia of Astrobiology. 2900-p.

López-Villavicencio, M.; Courjol, F.; Gibson, A.K.; Hood, M.E.; Jonot, O.; Shykoff, J.A.; Giraud, T. 2011. Competition, cooperation among kin and virulence in multiple infections. Evolution. 65:1357-1366.

M, B.G.; Alia, R.; Robson, T.M.; Zavla, M.A. 2011. Intraspecific variability and plasticity influence potential tree species distributions under climate change. Global Ecology and Biogeography. 20 :766-.

Martinez-Cruz, B.; Vitalis, R.; Segurel, L.; Austerlitz, F.; Georges, M.; Thery, S.; Quintana-Murci, L.; Hegay, T.; Aldashev, A.; Nasyrova, F.; Heyer, E. 2011. In the heartland of Eurasia: the multilocus genetic landscape of Central Asian populations. European Journal of Human Genetics. 19:216-223.

Moreira, D. 2011. Horizontal gene trasfer: mechanisms and evolutionary consequences. Origins and evolution of life. 313-325.

Moreira, D. 2011. 5 entries: Monophyletic; Homology; Orthologous gene; Paralogous gene, Phylogenetic tree; Phylogeny. Encyclopedia of Astrobiology. 2900-p.

Møller, A.P.; Saino, N.; Adamík, P.; Ambrosini, R.; Antonov, A.; Campobello, D.; Stokke, B.G.; Fossøy, F.; Lehikoinen, E.; Martin-Vivaldi, M.; Moksnes, A.; Moskat, C.; Røskaft, E.; Rubolino, D.; Schulze-Hagen, K.; Soler, M.; Shykoff, J.A. 2011. Rapid change in host use of the common cuckoo Cuculus canorus linked to climate change. Proceedings of the Royal Society of London Series B-Biological Sciences. 278:733-738.

Pfalz, M.; Mikkelsen, M.D.; Bednarek, P.; Olsen, C.E.; Halkier, B.A.; Kroymann, J. 2011. Metabolic Engineering in Nicotiana benthamiana Reveals Key Enzyme Functions in Arabidopsis Indole Glucosinolate Modification. Plant Cell. 23:716-729.

Quaiser, A.; Zivanovic, Y.; Moreira, D.; Lopez-Garcia, P. 2011. Comparative metagenomics of bathypelagic plankton and bottom sediment from the Sea of Marmara. Isme J. 5:285-304.

Ragon, M. 2011. Diversité et processus de colonisation microbienne dans des biofilms sur des substrats minéraux. PhD. 200 pp.

Ragon, M.; Restoux, G.; Moreira, D.; Møller, A.P.; Lopez-Garcia, P. 2011. Sunlight-exposed biofilm microbial communities are naturally resistant to chernobyl ionizing-radiation levels. PLoS One. 6:e21764

Remigereau, M.S.; Lakis, G.; Rekima, S.; Leveugle, M.; Fontaine, M.C.; Langin, T.; Sarr, A.; Robert, T. 2011. Cereal Domestication and Evolution of Branching: Evidence for Soft Selection in the Tb1 Orthologue of Pearl Millet (Pennisetum glaucum [L.] R. Br.). Plos One. 6.

Rhone, B.; Brandenburg, J.T.; Austerlitz, F. 2011. Impact of selection on genes involved in regulatory network: a modelling study. Journal of Evolutionary Biology. 24:2087-2098.

Stivaletta, N.; Barbieri, R.; Cevenini, F.; López-García, P. 2011. Physico-chemical conditions and microbial diversity associated to evaporite deposits in the Laguna de la Piedra (Salar de Atacama, Chile). Geomicrobiol J. 28:83-.

Xhaard, C.; Fabre, B.; Andrieux, A.; __Gladieux, P. _. _.; Barres, B.; Frey, P.; Halkett, F. 2011. The genetic structure of the plant pathogenic fungus Melampsora larici-populina on its wild host is extensively impacted by host domestication. Molecular Ecology. 20:2739-2755.

Aguileta, G.; Giraud, T. 2010. Application of codon models to the study of fungal genome evolution. In: Codon Evolution. Mechanisms and Models.

Aguileta, G.; Lengelle, J.; Marthey, S.; Chiapello, H.; Rodolphe, F.; Gendrault-Jacquemard, A.; Yockteng, R.; Vercken, E.; Devier, B.; Fontaine, M.C.; Wincker, P.; Dossat, C.; Cruaud, C.; Couloux, A.; Giraud, T. 2010. Finding candidate genes under positive selection in non-model species: examples of genes involved in host specialization in pathogens. Mol Ecol. 19:292-306

Antonov, A.; Stokke, B.G.; Vikan, J.R.; Fossøy, F.; Ranke, P.S.; Røskaft, E.; Moksnes, A.; Møller, A.P.; Shykoff, J.A. 2010. Egg phenotype differentiation in sympatric cuckoo Cuculus canorus gentes. Journal of Evolutionary Biology. 23:1170-1182.

Colleoni*, C.; Linka, M.; Deschamps, P.; Handford, M.G.; Dupree, P.; Weber, A.P.; Ball, S.G. 2010. Phylogenetic and biochemical evidence supports the recruitment of an ADP-glucose translocator for the export of photosynthate during plastid endosymbiosis. Mol Biol Evol. 27:2691-2701.

Collin, C.L.; Shykoff, J.A. 2010. Flowering phenology and female fitness: impact of a pre-dispersal seed predator on a sexually polymorphic species. Plant Ecology. 206:1-13.

de la Vega, R.C.R.; Schwartz, E.F.; Possani, L.D. 2010. Mining on scorpion venom biodiversity. Toxicon. 56:1155-1161.

Devier, B. 2010. Evolution des Types Sexuels chez les champignons.

Devier, B.; Aguileta, G.; Hood, M.E.; Giraud, T. 2010. Phylogenies of pheromone receptor genes in the Microbotryum violaceum species complex : insights into possible ancient events of speciation by hybridization. Mycologia. 102:689-696.

Fontaine, M.C.; Tolley, K.A.; Michaux, J.R.; Birkun, A.J.; Ferreira, M.; Jauniaux, T.; Llavona, A.; Oztürk, B.; Oztürk, A.A.; Ridoux, V.; Rogan, E.; Sequeira, M.; Bouquegneau, J.M.; Baird, S.J. 2010. Genetic and historic evidence for climate-driven population fragmentation in a top cetacean predator: the harbour porpoises in European water. Proc Biol Sci. 277:2829-2837.

Ghai, R.; Martin-Cuadrado, A.B.; Molto, A.G.; Heredia, I.G.; Cabrera, R.; Martin, J.; Verdu, M.; Deschamps, P.; Moreira, D.; Lopez-Garcia, P.; Mira, A.; Rodriguez-Valera, F. 2010. Metagenome of the Mediterranean deep chlorophyll maximum studied by direct and fosmid library 454 pyrosequencing. Isme J. 4:1154-1166.

Giraud, F.; Giraud, T.; Aguileta, G.; Fournier, E.; Samsond, R.; Cruaud, C.; Lacoste, S.; Tellier, A.; Dupont, J. 2010. Microsatellite loci for identification of Penicillium starter cultures used in cheese production and for their discrimination from contaminant species. International Journal of Food Microbiology. 137:204–213.

Giraud, T.; Gladieux, P.; Gavrilets, S. 2010. Linking emerging fungal plant diseases and ecological speciation. Trends Ecol Evol. 25:387-395.

Giraud, T.; Gladieux, P.; Michael E, H. 2010. Speciation in Fungi. Fungi Autumn issue.

Gladieux, P.; Caffier, V.; Devaux, M.; Le Cam, B. 2010. Host-specific differentiation among populations of Venturia inaequalis causing scab on apple, pyracantha and loquat. Fung Genet Biol. 47:511-521.

Gladieux, P.; Zhang, X.-G.; RÓLdan-Ruiz, I.; Caffier, V.É.R.; Leroy, T.; Devaux, M.; Van Glabeke, S.; Coart, E.; Le Cam, B. 2010. Evolution of the population structure of Venturia inaequalis, the apple scab fungus, associated with the domestication of its host. Mol Ecol. 19   :658-674.

Gladieux, P.; Zhang, X.G.; Róldan-Ruiz, I.; Caffier, V.; Leroy, T.; Devaux, M.; Van Glabeke, S.; Coart, E.; Le Cam, B. 2010. Evolution of the population structure of Venturia inaequalis, the apple scab fungus, associated with the domestication of its host. Mol Ecol. 19:658-674.

Gladieux, P.; E, B.; Fisher, M.; Aguileta, G.; Heitman, J.; Giraud, T. 2010. Epidemiology and evolution of fungal pathogens, in plants and animals. Genetics and Evolution of Infectious Diseases.

Gómez, F.; D., M.; P., L.-G. 2010. Molecular phylogeny of the dinoflagellates Podolampas and Blepharocysta (Peridiniales, Dinophyceae). Phycologia. 49:212-220.

Gomez, F.; Moreira, D.; Lopez-Garcia, P. 2010. Neoceratium gen. nov., a new genus for all marine species currently assigned to Ceratium (Dinophyceae). Protist. 161:35-54.

Gomez, F.; Moreira, D.; Lopez-Garcia, P. 2010. Molecular phylogeny of noctilucoid dinoflagellates (Noctilucales, Dinophyceae). Protist. 161:466-478.

Hood, M.E.; Mena-Alí, J.I.; Gibson, A.K.; Oxelman, B.; Giraud, T.; Yockteng, R.; Arroyo, M.; Conti, F.; Pedersen, A.; Gladieux, P.; Antonovics, P. 2010. Distribution of the anther-smut pathogen Microbotryum on species of the Caryophyllaceae assessed from natural history collections. New Phytol. 187:217-229.

Jardillier, L.; Zubkov, M.V.; Pearman, J.; Scanlan, D.J. 2010. Significant CO2 fixation by small prymnesiophytes in the subtropical and tropical northeast Atlantic Ocean. Isme J. 4:1180-1192.

Johnson, J.J.; Giraud, T.; Anderson, R.; Hood, M.E. 2010. The impact of genome defense on mobile elements in Microbotryum. Genetica. 138:313-319.

Karapetyan, A.R.; Gladieux, P.; Zakharov, I.A. 2010. Genetic polymorphism of Microbotryum violaceum s. l. Isolates collected from different plant species on the territory of Russia. Russian Journal of Genetics. 46:1395-1398.

Lara, E.; Moreira, D.; Lopez-Garcia, P. 2010. The environmental clade LKM11 and Rozella form the deepest branching clade of fungi. Protist. 161:116-121.

Lefèvre, T.; Renaud, F.; Selosse, M.-A.; Thomas, F.; Bernstein, C.; Broennimann, O.; Charlat, S.; De Mazancourt, C.; De Meeüs, T.; Fleury, F.; Fritz, H.; Gandon, S.; Gaillard, J.-M.; Gibernau, M.; Hautier, Y.; Hurthrez-Broussès, S.; Lecomte, N.; Loison, A.; Møller, A.P.; Morand, S.; Outreman, Y.; Pearman, P.B.; Poulin, R.; Randin, C.R.T.; Salvaudon, L.; Sorci, G.; Théron, A.; Vavre, F.; Wajnberg, E.; Shykoff, J. 2010. Evolution des interactions entre espèces. Biologie évolutive. 533-616.

López-Villavicencio, M.; Aguileta, G.; Giraud, T.; de Vienne, D.M.; Lacoste, S.; Couloux, A.; Dupont, J. 2010. Sex in Penicillium: combining phylogenetic and experimental approaches. Fung. Genet. Biol. 47:693-706.

Minder, E.I.; Schneider-Yin, X.; Mamet, R.; Horev, L.; Neuenschwander, S.; Baumer, A.; Austerlitz, F.; Puy, H.; Schoenfeld, N. 2010. A homoallelic FECH mutation in a patient with both erythropoietic protoporphyria and palmar keratoderma. Journal of the European Academy of Dermatology and Venereology. 24:1349-1353.

Ravigné, V.; Giraud, T.; Capy, P.; Desdevises, Y.; Smadja, C.; Bierne, N.; Jousselin, E.; Samadi, S.; Britton-Davidian, J.; Abadie, C. 2010. La spéciation. Biologie Evolutive.

Redaelli, E.; Cassulini, R.R.; Silva, D.F.; Clement, H.; Schiavon, E.; Zamudio, F.Z.; Odell, G.; Arcangeli, A.; Clare, J.J.; Alagon, A.; de la Vega, R.C.R.; Possani, L.D.; Wanke, E. 2010. Target Promiscuity and Heterogeneous Effects of Tarantula Venom Peptides Affecting Na(+) and K(+) Ion Channels. Journal of Biological Chemistry. 285:4130-4142.

Refrégier, G.; Hood, M.E.; Giraud, T. 2010. No evidence of Reproductive Character Displacement between two sister fungal species causing anther smut disease in Silene. Int J Plant Sciences. 171:847-859.

Saumitou-Laprade, P.; Vernet, P.; Vassiliadis, C.; Hoareau, Y.; Magny(de), G.; Dommee, B.; Lepart, J. 2010. A Self-Incompatibility System Explains High Male Frequencies in an Androdioecious Plant         . Science. 327:1648-1650.

Snirc, A.; Silberfeld, T.; Bonnet, J.; Tillier, A.; Tuffet, S.; Sun, J.-S. 2010. Optimization Of Dna Extraction From Brown Algae (Phaeophyceae) Based On A Commercial Kit1. Journal of Phycology. 46:616-621.

Soufir, N.; Ged, C.; Bourillon, A.; Austerlitz, F.; Chemin, C.; Stary, A.; Armier, J.; Pham, D.; Khadir, K.; Roume, J.; Hadj Rabia, S.; Bouadjar, B.; Taieb, A.; de Verneuil, H.; Benchiki, H.; Grandchamp, B.; Sarasin, A. 2010. A prevalent mutation with founder effect in xeroderma pigmentosum group C from North Africa. Journal of Investigative Dermatology. 130:1537-1542.

Stivaletta, N.; López-García, P.; Boihem, L.; Mille, D.; Barbieri, R. 2010. Biomarkers on endolithic communities within gypsum crusts (Southern Tunisia). Geomicrobiol J. 27:101-110.

Tellier, A.; de Vienne, D.M.; Giraud, T.; Hood, M.E.; Refrégier, G. 2010. Theory and examples of reciprocal influence between hosts and pathogens, from short-term to long term interactions: coevolution, cospeciation and pathogen speciation following host shifts. Host-Pathogen Interactions: Genetics, Immunology and Physiology.

Vercken, E.; Fontaine, M.C.; Gladieux, P.; Hood, M.E.; Jonot, O.; Giraud, T. 2010. Glacial refugia in pathogens: European genetic structure of anther smut pathogens on Silene latifolia and S. dioica. PloS Pathogens. 6:e1001229.

Vogel, V.; Pedersen, J.S.; Giraud, T.; Krieger, M.J.B.; Keller, L. 2010. The worldwide expansion of the Argentine ant. Diversity and Distributions. 16:170-186.

Aguileta, G.; Hood, M.E.; Refrégier, G.; Giraud, T. 2009. Genome evolution in pathogenic and symbiotic fungi. Advances in Botanical Research. 49:151-193.

Aguileta, G.; Refrégier, G.; Yockteng, Y.; Fournier, E.; Giraud, T. 2009. Rapidly evolving genes in pathogens: methods for detecting positive selection and examples among fungi, bacteria, viruses and protozoa. Infection, Genetics and Evolution. 9:656-670.

Austerlitz, F.; David, O.; Schaeffer, B.; Bleakley, K.; Olteanu, M.; Leblois, R.; Veuille, M.; Laredo, C. 2009. DNA barcode analysis: a comparison of phylogenetic and statistical classification methods. BMC Bioinformatics. 10 (Suppl 14):S10.

Benderoth, M.; Pfalz, M.; Kroymann, J. 2009. Methylthioalkylmalate synthases: Genetics, ecology and evolution. Phytochem. Rev. 8:255-268.

Bernasconi, G.; Antonovics, J.; Biere, A.; Charlesworth, D.; Delph, L.F.; Filatov, D.; Giraud, T.; Hood, M.E.; Marais, G.; McCauley, D.; Pannell, J.; Shykoff, J.A.; Vyskot, B.; Wolfe, L.; Widmer, A. 2009. Re-emergence of Silene as a classic model system in ecology and evolution. Heredity. 103:5-14.

Chevin, L.-M.; Bastide, H.; Montchamp-Moreau, C.; Hospital, F. 2009. Molecular signature of epistatic selection interrogating genetic interactions in the sex-ratio meiotic drive of Drosophila simulans. Genetical Research. 91:171-182.

Collin, C.L.; Penet, L.; Shykoff, J.A. 2009. Early inbreeding depression in the sexually polymorphic plant Dianthus sylvestris (Caryophyllaceae): Effects of selfing and biparental inbreeding among sex morphs. American Journal of Botany. 96:2279-2287.

Dauvillee, D.; Deschamps, P.; Ral, J.P.; Plancke, C.; Putaux, J.L.; Devassine, J.; Durand-Terrasson, A.; Devin, A.; Ball, S.G. 2009. Genetic dissection of floridean starch synthesis in the cytosol of the model dinoflagellate Crypthecodinium cohnii. Proc Natl Acad Sci U S A. 106:21126-21130.

de Vienne, D.M.; Hood, M.E.; Giraud, T. 2009. Phylogenetic determinants of potential host shifts in fungal pathogens. J Evol Biol. 22:2532-2541.

de Vienne, D.M.; Refrégier, G.; Hood, M.E.; Guigue, A.; Devier, B.; Vercken, E.; Smadja, C.; Deseille, A.; Giraud, T. 2009. Hybrid sterility and inviability in the parasitic fungal species complex Microbotryum. Journal of Evolutionary Biology. 22:683-698.

Deffontaine, V.; Ledevin, R.; Fontaine, M.C.; Quéré, J.P.; Renaud, S.; Libois, R.; Michaux, J.R. 2009. A relict bank vole lineage highlights the biogeographic history of the Pyrenean region in Europe. Molecular Ecology. 18:2489-2502.

Deschamps, P.; Moreira, D. 2009. Signal conflicts in the phylogeny of the primary photosynthetic eukaryotes. Mol Biol Evol. 26:2745-2753.

Devier, B.; Aguileta, G.; Hood, M.E.; Giraud, T. 2009. Ancient trans-specific polymorphism at pheromone receptor genes in basidiomycetes. Genetics. 181:209-223.

Eme, L.; Moreira, D.; Talla, E.; Brochier-Armanet, C. 2009. A complex cell division machinery was present in the last common ancestor of eukaryotes. PLoS One. 4:e5021.

Evans, P.G.H.; Andersen, L.; Bjørge, A.; Fontaine, M.; Galatius, A.; Kinze, C.C.; Lockyer, C.; De Luna, C.; Pierce, G.; Sveegaard, S.; Teilmann, J.; Tiedemann, R.; Walton, M. 2009. Harbour Porpoise Phocoena phocoena. Report of ASCOBANS/HELCOM small cetacean population structure workshop. 61-85.

Fellous, S.; Salvaudon, L. 2009. How can your parasites become your allies? Trends in Parasitology. 25:62-66.

Fry, B.G.; Roelants, K.; Champagne, D.E.; Scheib, H.; Tyndall, J.D.A.; King, G.F.; Nevalainen, T.J.; Norman, J.A.; Lewis, R.J.; Norton, R.S.; Renjifo, C.; de la Vega, R.C.R. 2009. The Toxicogenomic Multiverse: Convergent Recruitment of Proteins Into Animal Venoms. Annual Review of Genomics and Human Genetics. 10:483-511.

Gargaud, M.; Martin, H.; López-García, P.; Montmerle, T.; Pascal., R. 2009. Le Soleil, la Terre…la vie : la quête des origines.

Gerard, E.; Moreira, D.; Philippot, P.; Van Kranendonk, M.J.; Lopez-Garcia, P. 2009. Modern subsurface bacteria in pristine 2.7 Ga-old fossil stromatolite drillcore samples from the Fortescue Group, Western Australia. PLoS One. 4:e5298.

Giraud, T.; Carlier, J. 2009. Impact of global changes on the emergence of new plant diseases. Biofutur. 297:39.

Giraud, T.; Penet, L. 2009. Le sexe, un outil de lutte séculaire contre nos parasites. Aux Origines de la Sexualité.

Gold, A.D.; Giraud, T.; Hood, M.E. 2009. Within-host competitive exclusion among species of the anther smut pathogen. BMC Ecol. 9:11.

Gomez, F.; Lopez-Garcia, P.; Moreira, D. 2009. Molecular phylogeny of the ocelloid-bearing dinoflagellates erythropsidinium and warnowia (warnowiaceae, dinophyceae). J Eukaryot Microbiol. 56:440-445.

Gomez, F.; Lopez-Garcia, P.; Nowaczyk, A.; Moreira, D. 2009. The crustacean parasites Ellobiopsis Caullery, 1910 and Thalassomyces Niezabitowski, 1913 form a monophyletic divergent clade within the Alveolata. Syst Parasitol. 74                :65-74.

Gomez, F.; Moreira, D.; Lopez-Garcia, P. 2009. Life cycle and molecular phylogeny of the dinoflagellates Chytriodinium and Dissodinium, ectoparasites of copepod eggs. Eur J Protistol. 45:260-270.

Gouyon, P.H.; Giraud, T. 2009. Tout est-il vraiment pour le mieux dans le meilleur des mondes sexués ? Aux Origines de la Sexualité.

Gouyon, P.H.; Giraud, T. 2009. Le sexe et l’évolution. Les mondes darwiniens, Les sciences de l’évolution aujourd’hui.

Lara, E.; Moreira, D.; Vereshchaka, A.; Lopez-Garcia, P. 2009. Pan-oceanic distribution of new highly diverse clades of deep-sea diplonemids. Environ Microbiol. 11:47-55.

López-García, P.; Moreira, D. 2009. Yet viruses cannot be included in the tree of life. Nature Rev Microbiol. 7:615-617.

Marande, W.; Lopez-Garcia, P.; Moreira, D. 2009. Eukaryotic diversity and phylogeny using small- and large-subunit ribosomal RNA genes from environmental samples. Environ Microbiol. 11:3179-3188.

Moreira, D.; Lopez-Garcia, P. 2009. Ten reasons to exclude viruses from the Tree of Life. Nature Rev Microbiol.7:306-311.

Pfalz, M.; Vogel, H.; Kroymann, J. 2009. The gene controlling the Indole Glucosinolate Modifier 1 QTL alters indole glucosinolate structures and aphid resistance in Arabidopsis. Plant Cell. 21:985-999.

Proffit, M.; Cornille, A.; Hossaert-McKey, M.; Johnson, S.D. 2009. Role of floral scent in promoting the co-occurrence of two pollinating wasps in Ficus natalensis natalensis in the KwaZulu-Natal (South Africa). South African Journal of Botany. 75:416-417.

Shi, X.L.; Marie, D.; Jardillier, L.; Scanlan, D.J.; Vaulot, D. 2009. Groups without cultured representatives dominate eukaryotic picophytoplankton in the oligotrophic South East Pacific Ocean. PLoS One. 4:e7657.

Verdu, P.; Austerlitz, F.; Estoup, A.; Vitalis, R.; Georges, M.; Thery, S.; Froment, A.; Le Bomin, S.; Gessain, A.; Hombert, J.M.; Van der Veen, L.; Quintana-Murci, L.; Bahuchet, S.; Heyer, E. 2009. Origins and genetic diversity of pygmy hunter-gatherers from Western Central Africa. Curr Biol. 19:312-318.

Aguileta, G.; Marthey, S.; Chiapello, H.; Lebrun, M.-H.; F., R.; Fournier, E.; Gendrault-Jacquemard, A.; Giraud, T. 2008. Assessing the Performance of Single-Copy Genes for Recovering Robust Phylogenies. Syst Biol. 57:613-627.

Benito Garzón, M.; Sánchez De Dios, R.; Sainz Ollero, H. 2008. Effects of climate change on the distributions of Iberian forests. Applied Vegetation Science. 11:169-178.

Benito Garzón, M.; Sánchez De Dios, R.; Sainz Ollero, H. 2008. The evolution of the Pinus sylvestris L. area in the Iberian Peninsula from the last maximum glacial (21000BP) to 2100 under climate change. The Holocene. 5:1-10.

Bottcher, C.; Centeno, D.; Freitag, J.; Hofgen, R.; Kohl, K.; Kopka, J.; Kroymann, J.; Matros, A.; Mock, H.P.; Neumann, S.; Pfalz, M.; Von Roepenack-Lahaye, E.; Schauer, N.; Trenkamp, S.; Zurbriggen, M.; Fernie, A.R. 2008. Teaching (and learning from) metabolomics: The 2006 PlantMetaNet ETNA Metabolomics Research School. Physiologia Plantarum. 132:136-149.

Calleja, J.; Benito Garzon, M.; Sainz Ollero, H. 2008. A Quaternary perspective on the conservation prospects for the Tertiary relict tree Prunus lusitanica L. Journal of Biogeography. 36:487-498.

Camus-Kulandaivelu, L.; Chevin, L.M.; Tollon-Cordet, C.; Charcosset, A.; Manicacci, D.; Tenaillon, M.I. 2008. Patterns of molecular evolution associated with two selective sweeps in the Tb1-Dwarf8 region in maize. Genetics. 180:1107-1121.

Chaix, R.; Austerlitz, F.; Hegay, T.; Quintana-Murci, L.; Heyer, E. 2008. Genetic traces of east-to-west human expansion waves in Eurasia. American Journal of Physical Anthropology. 136:309-317.

Chevin, L.M.; Billiard, S.; Hospital, F. 2008. Hitch-hiking both ways: effect of two interfering selective sweeps on linked neutral variation. Genetics. 180:301-316.

Chevin, L.M.; Hospital, F. 2008. Selective sweep at a quantitative trait locus in the presence of background genetic variation. Genetics. 180:1645-1660.

Corzo, G.; Papp, F.; Varga, Z.; Barraza, O.; Espino-Solis, P.G.; de la Vega, R.C.R.; Gaspar, R.; Panyi, G.; Possani, L.D. 2008. A selective blocker of Kv1.2 and Kv1.3 potassium channels from the venom of the scorpion Centruroides suffusus suffusus. Biochemical Pharmacology. 76:1142-1154.

de Vienne, D.M.; Giraud, T.; Martin, O. 2008. In response to comment on ‘A congruence index for testing topological similarity between trees’. Bioinformatics. 25:150-151.

Deschamps, P.; Guillebeault, D.; Devassine, J.; Dauvillee, D.; Haebel, S.; Steup, M.; Buleon, A.; Putaux, J.L.; Slomianny, M.C.; Colleoni, C.; Devin, A.; Plancke, C.; Tomavo, S.; Derelle, E.; Moreau, H.; Ball, S. 2008. The heterotrophic dinoflagellate Crypthecodinium cohnii defines a model genetic system to investigate cytoplasmic starch synthesis. Eukaryot Cell. 7:872-880.

Deschamps, P.; Haferkamp, I.; d’Hulst, C.; Neuhaus, H.E.; Ball, S.G. 2008. The relocation of starch metabolism to chloroplasts: when, why and how. Trends Plant Sci. 13:574-582.

Deschamps, P.; Moreau, H.; Worden, A.Z.; Dauvillee, D.; Ball, S.G. 2008. Early gene duplication within chloroplastida and its correspondence with relocation of starch metabolism to chloroplasts. Genetics. 178:2373-2387.

Deschamps, P.; Colleoni, C.; Nakamura, Y.; Suzuki, E.; Putaux, J.L.; Buleon, A.; Haebel, S.; Ritte, G.; Steup, M.; Falcon, L.I.; Moreira, D.; Loffelhardt, W.; Raj, J.N.; Plancke, C.; d’Hulst, C.; Dauvillee, D.; Ball, S. 2008. Metabolic symbiosis and the birth of the plant kingdom. Mol Biol Evol. 25:536-548.

Diego-Garcia, E.; Abdel-Mottaleb, Y.; Schwartz, E.F.; de la Vega, R.C.R.; Tytgat, J.; Possani, L.D. 2008. Cytolytic and K+ channel blocking activities of beta-KTx and scorpine-like peptides purified from scorpion venoms. Cellular and Molecular Life Sciences. 65:187-200.

Epstein, S.; López-García, P. 2008. Missing protists: a molecular prospective. Biodiv Conserv. 17:261-276.

Fournier, E.; Giraud, T. 2008. Sympatric genetic differentiation of populations of a generalist pathogenic fungus, Botrytis cinerea, on two different host plants, grapevine and bramble. J Evol Biol. 21:122-132.

Giraud, T. 2008. Book Review: Biological Globalisation: bio-invasions and their impacts on nature, the economy and public health, KNNV Publishing. Environmental Sciences: Journal of Integrative Environmental Research. 5:214.

Giraud, T.; Enjalbert, J.; Fournier, E.; Delmotte, F.; Dutech, C. 2008. Population genetics of fungal diseases of plants. Parasite. 15:449-454.

Giraud, T.; Refregier, G.; de Vienne, D.M.; Le Gac, M. and; Hood, M.E. 2008 Speciation in fungi. Fung. Genet. Biol. 45:791-802.

Giraud, T.; Yockteng, R.; Lopez-Villavicencio, M.; Refregier, G.; Hood, M.E. 2008. The mating system of the anther smut fungus, Microbotryum violaceum: selfing under heterothallism. Eukaryotic Cell. 7:765–775.

Giraud, T.; Yockteng, R.; Marthey, S.; Chiapello, H.; Jonot, O.; Lopez-Villavicencio, M.; De Vienne, D.M.; Hood, M.E.; Refregier, G.; Gendrault-jacquemart, A.; Wincker, P.; Dossat, C. 2008. Isolation of 60 polymorphic microsatellite loci in EST libraries of four sibling species of the phytopathogenic fungal complex Microbotryum. Molecular Ecology Resources. 8:387-392.

Gladieux, P.; Zhang, X.-G.; Afoufa-Bastien, D.; Valdebenito Sanhueza, R.-M.; Sbaghi, M.; Le Cam, B. 2008. On the Origin and Spread of the Scab Disease of Apple: out of Central Asia. PLoS One. 3:e1455.

Goverde, M.; Bazin, A.; Kéry, M.; Shykoff, J.A.; Erhardt, A. 2008. Positive effects of cyanogenic glycosides in food plants on larval development of the common blue butterfly. Oecologia. 157:409-418.

Hanikenne, M.; Talke, I.N.; Haydon, M.J.; Lanz, C.; Nolte, A.; Motte, P.; Kroymann, J.; Weigel, D.; Kramer, U. 2008. Evolution of metal hyperaccumulation required cis-regulatory changes and triplication of HMA4. Nature. 453:391-444.

Héraudet, V.; Salvaudon, L.; Shykoff, J.A. 2008. Trade-off between latent period and transmission success of a plant pathogen revealed by phenotypic correlations. Evol Ecol Res. 10:913-924.

Janssens, X.; Fontaine, M.C.; Michaux, J.R.; Libois, R.; de Kermabon, J.; Defournyand, P.; Baret, P.V. 2008. Genetic pattern of the recent recovery of European otters in southern France. Ecography. 31:176-186.

Le Gac, M.; Giraud, T. 2008. Existence of a pattern of reproductive character displacement in Basidiomycota but not in Ascomycota. J Evol Biol. 21:761-772.

Llaurens, V.; Castric, V.; Austerlitz, F.; Vekemans, X. 2008. High paternal diversity in the self-incompatible herb Arabidopsis halleri despite clonal reproduction and spatially restricted pollen dispersal. Mol Ecol. 17:1577-1588.

López-García, P.; Moreira, D. 2008. Tracking microbial biodiversity through molecular and genomic ecology. Res Microbiol. 159:67-73.

Magalon, H.; Patin, E.; Austerlitz, F.; Hegay, T.; Aldashev, A.; Quintana-Murci, L.; Heyer, E. 2008. Population genetic diversity of the NAT2 gene supports a role of acetylation in human adaptation to farming in Central Asia. European Journal of Human Genetics. 16:243-251.

Marthey, S.; Aguileta, G.; Rodolphe, F.; Gendrault-Jacquemard, A.; Giraud, T.; Fournier, E.; Lopez-Villavicencio, M.; Gautier, A.; Lebrun; Mh; Chiapello, H. 2008. FUNYBASE: the FUNGAL phYlogenomic database. BMC Bioinformatics. 9:456.

Martin-Cuadrado, A.B.; Rodriguez-Valera, F.; Moreira, D.; Alba, J.C.; Ivars-Martinez, E.; Henn, M.R.; Talla, E.; Lopez-Garcia, P. 2008. Hindsight in the relative abundance, metabolic potential and genome dynamics of uncultivated marine archaea from comparative metagenomic analyses of bathypelagic plankton of different oceanic regions. Isme J. 2:865-886.

Mena-Ali, J.I.; Antonovics, J.; Giraud, T.; Oxelman, B.; Gibson, A.; Yockyeng, R.; Arroyo, M.; Conti, F.; Hood, M.E. 2008. The worldwide occurrence of the anther-smut fungus Microbotryum on species of the Caryophyllaceae as assessed from herbarium surveys. Phytopathology. 98:S208-S208.

Moreira, D.; Brochier-Armanet, C. 2008. Giant viruses, giant chimeras: The multiple evolutionary histories of Mimivirus genes. BMC Evol Biol. 8:12.

Olamendi-Portugal, T.; Batista, C.V.F.; Restano-Cassulini, R.; Pando, V.; Villa-Hernandez, O.; Zavaleta-Martinez-Vargas, A.; Salas-Arruz, M.C.; de la Vega, R.C.R.; Becerril, B.; Possani, L.D. 2008. Proteomic analysis of the venom from the fish eating coral snake Micrurus surinamensis: Novel toxins, their function and phylogeny   . Proteomics. 8:1919-1932.

Oyama, R.K.; Clauss, M.J.; Formanová, N.; Kroymann, J.; KJ, S.; H, V.; K, W.; AJ, W.; T, M.-O. 2008. The shrunken genome of Arabidopsis thaliana. Plant Syst. Evol. 273:257-271.

Plancke*, C.; Colleoni, C.; Deschamps, P.; Dauvillee, D.; Nakamura, Y.; Haebel, S.; Ritte, G.; Steup, M.; Buleon, A.; Putaux, J.L.; Dupeyre, D.; d’Hulst, C.; Ral, J.P.; Loffelhardt, W.; Ball, S.G. 2008. Pathway of cytosolic starch synthesis in the model glaucophyte Cyanophora paradoxa. Eukaryot Cell. 7:247-257.

Quaiser, A.; Lopez-Garcia, P.; Zivanovic, Y.; Henn, M.R.; Rodriguez-Valera, F.; Moreira, D. 2008. Comparative analysis of genome fragments of Acidobacteria from deep Mediterranean plankton. Environ Microbiol. 10:2704-2717.

Raquin, A.L.; Brabant, P.; Rhoné, B.; Balfourier, F.; Leroy, P.; Goldringer, I. 2008. Soft selective sweep near a gene that increases plant height in wheat. Molecular Ecology. 17:741-756.

Refrégier, G.; Le Gac, M.; Jabbour, F.; Widmer, A.; Hood, M.E.; Yockteng, R.; Shykoff, J.A.; Giraud, T. 2008. Cophylogeny of the anther smut fungi and their Caryophyllaceous hosts: Prevalence of host shifts and Importance of delimiting parasite species. BMC Evol Biol. 8:100.

Riaz, K.; Elmerich, C.; Moreira, D.; Raffoux, A.; Dessaux, Y.; Faure, D. 2008. A metagenomic analysis of soil bacteria extends the diversity of quorum-quenching lactonases. Environ Microbiol. 10:560-570

Riaz, K.; Elmerich, C.; Raffoux, A.; Moreira, D.; Dessaux, Y.; Faure, D. 2008. Metagenomics revealed a quorum quenching lactonase QlcA from yet unculturable soil bacteria. Commun Agric Appl Biol Sci. 73:3-6.

Salvaudon, L.; Giraud, T.; Shykoff, J.A. 2008. Genetic diversity in natural populations: A fundamental component of plant-microbe interactions. Curr. Op. Plant Biology. 11:135-143.

Salvaudon, L.; Héraudet, V.; Shykoff, J.A. 2008. Arabidopsis thaliana and the Robin Hood parasite: a chivalrous oomycete that steals fitness from fecund hosts and benefits the poorest one? Biol Lett. 4:526-529.

Sloan, D.B.; Giraud, T.; Hood, M.E. 2008. Maximized virulence in a sterilizing pathogen: the anther-smut fungus and its co-evolved hosts. J Evol Biol. 21:1544-1554.

Tenaillon, M.I.; Austerlitz, F.; Tenaillon, O. 2008. Apparent mutational hotspots and long distance linkage disequilibrium resulting from a bottleneck. J Evol Biol. 21:541-550.

Vale, P.F.; Salvaudon, L.; Kaltz, O.; Fellous, S. 2008. The role of the environment in the evolutionary ecology of host parasite interactions. Meeting report. Paris, 5th December 2007. Infect Genet Evol. 8:302-305.

Zwirglmaier, K.; Jardillier, L.; Ostrowski, M.; Mazard, S.; Garczarek, L.; Vaulot, D.; Not, F.; Massana, R.; Ulloa, O.; Scanlan, D.J. 2008. Global phylogeography of marine Synechococcus and Prochlorococcus reveals a distinct partitioning of lineages among oceanic biomes. Environ Microbiol. 10:147-161.