Whole genome comparative analysis of transposable elements provides new insight into mechanisms of their inactivation in fungal genomes

Tekijä Amselem, Joëlle, Lebrun, Marc-Henri, Quesneville, Hadi
Julkaisussa BMC Genomics (2015)

pH effect on strain-specific transcriptomes of the take-all fungus

Tekijä Gazengel, Kévin, Lebreton, Lionel, Lapalu, Nicolas, Amselem, Joëlle, Guillerm-Erckelboudt, Anne-Yvonne, Tagu, Denis, Daval, Stéphanie
Julkaisussa PLoS One (2020)

NLGenomeSweeper: A Tool for Genome-Wide NBS-LRR Resistance Gene Identification

Tekijä Toda, Nicholas, Rustenholz, Camille, Baud, Agnès, Le Paslier, Marie-Christine, Amselem, Joelle, Merdinoglu, Didier, Faivre-Rampant, Patricia
Julkaisussa Genes (Basel) (2020)

Evolution of the EKA family of powdery mildew avirulence-effector genes from the ORF 1 of a LINE retrotransposon

Tekijä Amselem, Joelle, Vigouroux, Marielle, Oberhaensli, Simone, Brown, James K. M., Bindschedler, Laurence V., Skamnioti, Pari, Wicker, Thomas, Spanu, Pietro D., Quesneville, Hadi, Sacristán, Soledad
Julkaisussa BMC Genomics (2015)

RepetDB: a unified resource for transposable element references

Tekijä Amselem, Joëlle, Cornut, Guillaume, Choisne, Nathalie, Alaux, Michael, Alfama-Depauw, Françoise, Jamilloux, Véronique, Maumus, Florian, Letellier, Thomas, Luyten, Isabelle, Pommier, Cyril, Adam-Blondon, Anne-Françoise, Quesneville, Hadi
Julkaisussa Mob DNA (2019)

Deciphering Genome Content and Evolutionary Relationships of Isolates from the Fungus Magnaporthe oryzae Attacking Different Host Plants

Tekijä Chiapello, Hélène, Mallet, Ludovic, Guérin, Cyprien, Aguileta, Gabriela, Amselem, Joëlle, Kroj, Thomas, Ortega-Abboud, Enrique, Lebrun, Marc-Henri, Henrissat, Bernard, Gendrault, Annie, Rodolphe, François, Tharreau, Didier, Fournier, Elisabeth
Julkaisussa Genome Biol Evol (2015)

Comparative genomics of Coniophora olivacea reveals different patterns of genome expansion in Boletales

Tekijä Castanera, Raúl, Pérez, Gúmer, López-Varas, Leticia, Amselem, Joëlle, LaButti, Kurt, Singan, Vasanth, Lipzen, Anna, Haridas, Sajeet, Barry, Kerrie, Grigoriev, Igor V., Pisabarro, Antonio G., Ramírez, Lucía
Julkaisussa BMC Genomics (2017)

GnpIS: an information system to integrate genetic and genomic data from plants and fungi

Tekijä Steinbach, Delphine, Alaux, Michael, Amselem, Joelle, Choisne, Nathalie, Durand, Sophie, Flores, Raphaël, Keliet, Aminah-Olivia, Kimmel, Erik, Lapalu, Nicolas, Luyten, Isabelle, Michotey, Célia, Mohellibi, Nacer, Pommier, Cyril, Reboux, Sébastien, Valdenaire, Dorothée, Verdelet, Daphné, Quesneville, Hadi
Julkaistu 2013

Population Genome Sequencing of the Scab Fungal Species Venturia inaequalis, Venturia pirina, Venturia aucupariae and Venturia asperata

Tekijä Le Cam, Bruno, Sargent, Dan, Gouzy, Jérôme, Amselem, Joëlle, Bellanger, Marie-Noëlle, Bouchez, Olivier, Brown, Spencer, Caffier, Valérie, De Gracia, Marie, Debuchy, Robert, Duvaux, Ludovic, Payen, Thibaut, Sannier, Mélanie, Shiller, Jason, Collemare, Jérôme, Lemaire, Christophe
Julkaisussa G3 (Bethesda) (2019)

Ten steps to get started in Genome Assembly and Annotation

Tekijä Dominguez Del Angel, Victoria, Hjerde, Erik, Sterck, Lieven, Capella-Gutierrez, Salvadors, Notredame, Cederic, Vinnere Pettersson, Olga, Amselem, Joelle, Bouri, Laurent, Bocs, Stephanie, Klopp, Christophe, Gibrat, Jean-Francois, Vlasova, Anna, Leskosek, Brane L., Soler, Lucile, Binzer-Panchal, Mahesh, Lantz, Henrik
Julkaisussa F1000Res (2018)

Differential gene retention as an evolutionary mechanism to generate biodiversity and adaptation in yeasts

Tekijä Morel, Guillaume, Sterck, Lieven, Swennen, Dominique, Marcet-Houben, Marina, Onesime, Djamila, Levasseur, Anthony, Jacques, Noémie, Mallet, Sandrine, Couloux, Arnaux, Labadie, Karine, Amselem, Joëlle, Beckerich, Jean-Marie, Henrissat, Bernard, Van de Peer, Yves, Wincker, Patrick, Souciet, Jean-Luc, Gabaldón, Toni, Tinsley, Colin R., Casaregola, Serge
Julkaisussa Sci Rep (2015)

Corrigendum: Differential gene retention as an evolutionary mechanism to generate biodiversity and adaptation in yeasts

Tekijä Morel, Guillaume, Sterck, Lieven, Swennen, Dominique, Marcet-Houben, Marina, Onesime, Djamila, Levasseur, Anthony, Jacques, Noémie, Mallet, Sandrine, Couloux, Arnaux, Labadie, Karine, Amselem, Joëlle, Beckerich, Jean-Marie, Henrissat, Bernard, Van de Peer, Yves, Wincker, Patrick, Souciet, Jean-Luc, Gabaldón, Toni, Tinsley, Colin R., Casaregola, Serge
Julkaisussa Sci Rep (2015)

Sex and parasites: genomic and transcriptomic analysis of Microbotryum lychnidis-dioicae, the biotrophic and plant-castrating anther smut fungus

Tekijä Perlin, Michael H, Amselem, Joelle, Fontanillas, Eric, Toh, Su San, Chen, Zehua, Goldberg, Jonathan, Duplessis, Sebastien, Henrissat, Bernard, Young, Sarah, Zeng, Qiandong, Aguileta, Gabriela, Petit, Elsa, Badouin, Helene, Andrews, Jared, Razeeq, Dominique, Gabaldón, Toni, Quesneville, Hadi, Giraud, Tatiana, Hood, Michael E., Schultz, David J., Cuomo, Christina A.
Julkaisussa BMC Genomics (2015)

Gapless genome assembly of Colletotrichum higginsianum reveals chromosome structure and association of transposable elements with secondary metabolite gene clusters

Tekijä Dallery, Jean-Félix, Lapalu, Nicolas, Zampounis, Antonios, Pigné, Sandrine, Luyten, Isabelle, Amselem, Joëlle, Wittenberg, Alexander H. J., Zhou, Shiguo, de Queiroz, Marisa V., Robin, Guillaume P., Auger, Annie, Hainaut, Matthieu, Henrissat, Bernard, Kim, Ki-Tae, Lee, Yong-Hwan, Lespinet, Olivier, Schwartz, David C., Thon, Michael R., O’Connell, Richard J.
Julkaisussa BMC Genomics (2017)

The oak gene expression atlas: insights into Fagaceae genome evolution and the discovery of genes regulated during bud dormancy release

Tekijä Lesur, Isabelle, Le Provost, Grégoire, Bento, Pascal, Da Silva, Corinne, Leplé, Jean-Charles, Murat, Florent, Ueno, Saneyoshi, Bartholomé, Jerôme, Lalanne, Céline, Ehrenmann, François, Noirot, Céline, Burban, Christian, Léger, Valérie, Amselem, Joelle, Belser, Caroline, Quesneville, Hadi, Stierschneider, Michael, Fluch, Silvia, Feldhahn, Lasse, Tarkka, Mika, Herrmann, Sylvie, Buscot, François, Klopp, Christophe, Kremer, Antoine, Salse, Jérôme, Aury, Jean-Marc, Plomion, Christophe
Julkaisussa BMC Genomics (2015)

Effector diversification within compartments of the Leptosphaeria maculans genome affected by Repeat-Induced Point mutations

Tekijä Rouxel, Thierry, Grandaubert, Jonathan, Hane, James K., Hoede, Claire, van de Wouw, Angela P., Couloux, Arnaud, Dominguez, Victoria, Anthouard, Véronique, Bally, Pascal, Bourras, Salim, Cozijnsen, Anton J., Ciuffetti, Lynda M., Degrave, Alexandre, Dilmaghani, Azita, Duret, Laurent, Fudal, Isabelle, Goodwin, Stephen B., Gout, Lilian, Glaser, Nicolas, Linglin, Juliette, Kema, Gert H. J., Lapalu, Nicolas, Lawrence, Christopher B., May, Kim, Meyer, Michel, Ollivier, Bénédicte, Poulain, Julie, Schoch, Conrad L., Simon, Adeline, Spatafora, Joseph W., Stachowiak, Anna, Turgeon, B. Gillian, Tyler, Brett M., Vincent, Delphine, Weissenbach, Jean, Amselem, Joëlle, Quesneville, Hadi, Oliver, Richard P., Wincker, Patrick, Balesdent, Marie-Hélène, Howlett, Barbara J.
Julkaistu 2011

Obligate biotrophy features unraveled by the genomic analysis of rust fungi

Tekijä Duplessis, Sébastien, Cuomo, Christina A., Lin, Yao-Cheng, Aerts, Andrea, Tisserant, Emilie, Veneault-Fourrey, Claire, Joly, David L., Hacquard, Stéphane, Amselem, Joëlle, Cantarel, Brandi L., Chiu, Readman, Coutinho, Pedro M., Feau, Nicolas, Field, Matthew, Frey, Pascal, Gelhaye, Eric, Goldberg, Jonathan, Grabherr, Manfred G., Kodira, Chinnappa D., Kohler, Annegret, Kües, Ursula, Lindquist, Erika A., Lucas, Susan M., Mago, Rohit, Mauceli, Evan, Morin, Emmanuelle, Murat, Claude, Pangilinan, Jasmyn L., Park, Robert, Pearson, Matthew, Quesneville, Hadi, Rouhier, Nicolas, Sakthikumar, Sharadha, Salamov, Asaf A., Schmutz, Jeremy, Selles, Benjamin, Shapiro, Harris, Tanguay, Philippe, Tuskan, Gerald A., Henrissat, Bernard, Van de Peer, Yves, Rouzé, Pierre, Ellis, Jeffrey G., Dodds, Peter N., Schein, Jacqueline E., Zhong, Shaobin, Hamelin, Richard C., Grigoriev, Igor V., Szabo, Les J., Martin, Francis
Julkaistu 2011

Chromosomal scale assembly of parasitic wasp genome reveals symbiotic virus colonization

Tekijä Gauthier, Jérémy, Boulain, Hélène, van Vugt, Joke J. F. A., Baudry, Lyam, Persyn, Emma, Aury, Jean-Marc, Noel, Benjamin, Bretaudeau, Anthony, Legeai, Fabrice, Warris, Sven, Chebbi, Mohamed A., Dubreuil, Géraldine, Duvic, Bernard, Kremer, Natacha, Gayral, Philippe, Musset, Karine, Josse, Thibaut, Bigot, Diane, Bressac, Christophe, Moreau, Sébastien, Periquet, Georges, Harry, Myriam, Montagné, Nicolas, Boulogne, Isabelle, Sabeti-Azad, Mahnaz, Maïbèche, Martine, Chertemps, Thomas, Hilliou, Frédérique, Siaussat, David, Amselem, Joëlle, Luyten, Isabelle, Capdevielle-Dulac, Claire, Labadie, Karine, Merlin, Bruna Laís, Barbe, Valérie, de Boer, Jetske G., Marbouty, Martial, Cônsoli, Fernando Luis, Dupas, Stéphane, Hua-Van, Aurélie, Le Goff, Gaelle, Bézier, Annie, Jacquin-Joly, Emmanuelle, Whitfield, James B., Vet, Louise E. M., Smid, Hans M., Kaiser, Laure, Koszul, Romain, Huguet, Elisabeth, Herniou, Elisabeth A., Drezen, Jean-Michel
Julkaisussa Commun Biol (2021)

Author Correction: Chromosomal scale assembly of parasitic wasp genome reveals symbiotic virus colonization

Tekijä Gauthier, Jérémy, Boulain, Hélène, van Vugt, Joke J. F. A., Baudry, Lyam, Persyn, Emma, Aury, Jean-Marc, Noel, Benjamin, Bretaudeau, Anthony, Legeai, Fabrice, Warris, Sven, Chebbi, Mohamed A., Dubreuil, Géraldine, Duvic, Bernard, Kremer, Natacha, Gayral, Philippe, Musset, Karine, Josse, Thibaut, Bigot, Diane, Bressac, Christophe, Moreau, Sébastien, Periquet, Georges, Harry, Myriam, Montagné, Nicolas, Boulogne, Isabelle, Sabeti-Azad, Mahnaz, Maïbèche, Martine, Chertemps, Thomas, Hilliou, Frédérique, Siaussat, David, Amselem, Joëlle, Luyten, Isabelle, Capdevielle-Dulac, Claire, Labadie, Karine, Merlin, Bruna Laís, Barbe, Valérie, de Boer, Jetske G., Marbouty, Martial, Cônsoli, Fernando Luis, Dupas, Stéphane, Hua-Van, Aurélie, Le Goff, Gaelle, Bézier, Annie, Jacquin-Joly, Emmanuelle, Whitfield, James B., Vet, Louise E. M., Smid, Hans M., Kaiser, Laure, Koszul, Romain, Huguet, Elisabeth, Herniou, Elisabeth A., Drezen, Jean-Michel
Julkaisussa Commun Biol (2021)

Two genomes of highly polyphagous lepidopteran pests (Spodoptera frugiperda, Noctuidae) with different host-plant ranges

Tekijä Gouin, Anaïs, Bretaudeau, Anthony, Nam, Kiwoong, Gimenez, Sylvie, Aury, Jean-Marc, Duvic, Bernard, Hilliou, Frédérique, Durand, Nicolas, Montagné, Nicolas, Darboux, Isabelle, Kuwar, Suyog, Chertemps, Thomas, Siaussat, David, Bretschneider, Anne, Moné, Yves, Ahn, Seung-Joon, Hänniger, Sabine, Grenet, Anne-Sophie Gosselin, Neunemann, David, Maumus, Florian, Luyten, Isabelle, Labadie, Karine, Xu, Wei, Koutroumpa, Fotini, Escoubas, Jean-Michel, Llopis, Angel, Maïbèche-Coisne, Martine, Salasc, Fanny, Tomar, Archana, Anderson, Alisha R., Khan, Sher Afzal, Dumas, Pascaline, Orsucci, Marion, Guy, Julie, Belser, Caroline, Alberti, Adriana, Noel, Benjamin, Couloux, Arnaud, Mercier, Jonathan, Nidelet, Sabine, Dubois, Emeric, Liu, Nai-Yong, Boulogne, Isabelle, Mirabeau, Olivier, Le Goff, Gaelle, Gordon, Karl, Oakeshott, John, Consoli, Fernando L., Volkoff, Anne-Nathalie, Fescemyer, Howard W., Marden, James H., Luthe, Dawn S., Herrero, Salvador, Heckel, David G., Wincker, Patrick, Kergoat, Gael J., Amselem, Joelle, Quesneville, Hadi, Groot, Astrid T., Jacquin-Joly, Emmanuelle, Nègre, Nicolas, Lemaitre, Claire, Legeai, Fabrice, d’Alençon, Emmanuelle, Fournier, Philippe
Julkaisussa Sci Rep (2017)