Sébastien Carrere

Justine Ferey, Marion Larroque, Isabelle Schmitz-Afonso, Johann Le Maître, Olivia Sgarbura, et al.. Imaging Matrix-Assisted Laser Desorption/Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry of oxaliplatin derivatives in human tissue sections. Talanta, Elsevier, 2022, 237, pp.122915. ⟨10.1016/j.talanta.2021.122915⟩. ⟨hal-03400641⟩

Carine Arnaudguilhem, Marion Larroque, Olivia Sgarbura, Dominique Michau, François Quenet, et al.. Toward a comprehensive study for multielemental quantitative LA-ICP MS bioimaging in soft tissues. Talanta, Elsevier, 2021, 222, 121537 (11 p.). ⟨10.1016/j.talanta.2020.121537⟩. ⟨hal-02924099⟩

Sebastien Carrere, Jerome Verdier, Pascal Gamas. MtExpress, a Comprehensive and Curated RNAseq-based Gene Expression Atlas for the Model Legume Medicago truncatula. Plant and Cell Physiology, Oxford University Press (OUP), 2021, 62 (9), pp.1494-1500. ⟨10.1093/pcp/pcab110⟩. ⟨hal-03420304⟩

Manuel Gonzalez‐fuente, Sébastien Carrere, Dario Monachello, Benjamin Marsella, Anne‐claire Cazalé, et al.. EffectorK, a comprehensive resource to mine for Ralstonia, Xanthomonas, and other published effector interactors in the Arabidopsis proteome. Molecular Plant Pathology, Wiley, 2020, 21 (10), pp.1257-1270. ⟨10.1111/mpp.12965⟩. ⟨hal-03052440⟩

Carine Arnaudguilhem, Marion Larroque, Olivia Sgarbura, Dominique Michau, François Quenet, et al.. Toward a comprehensive study for multielemental quantitative LA-ICP MS bioimaging in soft tissues. Talanta, Elsevier, 2020, ⟨10.1016/j.talanta.2020.121537⟩. ⟨hal-03019255⟩

Justine Foucher, Mylène Ruh, Anne Preveaux, Sébastien Carrere, Sandra Pelletier, et al.. Common bean resistance to Xanthomonas is associated with upregulation of the salicylic acid pathway and downregulation of photosynthesis. BMC Genomics, BioMed Central, 2020, 21 (1), pp.566. ⟨10.1186/s12864-020-06972-6⟩. ⟨hal-02945634⟩

Barbara Hufnagel, André Marques, Alexandre Soriano, Laurence Marquès, Fanchon Divol, et al.. High-quality genome sequence of white lupin provides insight into soil exploration and seed quality. Nature Communications, Nature Publishing Group, 2020, 11 (1), pp.492. ⟨10.1038/s41467-019-14197-9⟩. ⟨hal-02460008⟩

Sébastien Carrere, Marion Verdenaud, Clare Gough, Jerome Gouzy, Pascal Gamas. LeGOO: An Expertized Knowledge Database For The Model Legume Medicago truncatula. Plant and Cell Physiology, Oxford University Press (OUP), 2020, 61 (1), pp.203-211. ⟨10.1093/pcp/pcz177⟩. ⟨hal-02290862⟩

Cyrus Sabbagh, Sébastien Carrere, Fabien Lonjon, Fabienne Vailleau, Alberto P. Macho, et al.. Pangenomic type III effector database of the plant pathogenic Ralstonia spp.. PeerJ, PeerJ, 2019, 7, pp.1-21. ⟨10.7717/peerj.7346⟩. ⟨hal-02623550⟩

Pauline Duriez, Sonia Vautrin, Marie-Christine Auriac, Julia Bazerque, Marie-Claude Boniface, et al.. A receptor-like kinase enhances sunflower resistance to Orobanche cumana. Nature Plants, Nature Publishing Group, 2019, 5 (12), pp.1211 - 1215. ⟨10.1038/s41477-019-0556-z⟩. ⟨hal-02626477⟩

Christophe Délye, A. Duhoux, J. A. C. Gardin, Jerome Gouzy, Sébastien Carrere. High conservation of the transcriptional response to acetolactate-synthase-inhibiting herbicides across plant species. Weed Research, Wiley, 2018, 58 (1), pp.2 - 7. ⟨10.1111/wre.12276⟩. ⟨hal-02628831⟩

Fanny Bonnafous, Ghislain Fiévet, Nicolas Blanchet, Marie-Claude Boniface, Sébastien Carrere, et al.. Comparison of GWAS models to identify non-additive genetic control of flowering time in sunflower hybrids. TAG Theoretical and Applied Genetics, Springer Verlag, 2018, 131 (2), pp.319-332. ⟨10.1007/s00122-017-3003-4⟩. ⟨hal-02628425⟩

Nicolas Denancé, Boris Szurek, Erin Doyle, Emmanuelle Lauber, Lisa Fontaine-Bodin, et al.. Two ancestral genes shaped the Xanthomonas campestris TAL effector gene repertoire. New Phytologist, Wiley, 2018, 219 (1), pp.391-407. ⟨10.1111/nph.15148⟩. ⟨hal-02090739⟩

Léa Frachon, Cyril Libourel, Romain Villoutreix, Sébastien Carrere, Cédric Glorieux, et al.. Author Correction: Intermediate degrees of synergistic pleiotropy drive adaptive evolution in ecological time. Nature Ecology & Evolution, Nature, 2018, pp.194. ⟨10.1038/s41559-017-0405-2⟩. ⟨hal-02622028⟩

Olivier Raymond, Jerome Gouzy, Jérémy Just, Hélène Badouin, Marion Verdenaud, et al.. The Rosa genome provides new insights into the domestication of modern roses. Nature Genetics, Nature Publishing Group, 2018, 50 (6), pp.772-777. ⟨10.1038/s41588-018-0110-3⟩. ⟨hal-01798003⟩

Arnaud Duhoux, Sebastien Carrere, Christophe Délye. Transcriptional markers enable identification of rye-grass (Lolium sp.) plants with non-target -site-based resistance to herbicides inhibiting acetolactate-synthase. Plant Science, Elsevier, 2017, 257, pp.22-36. ⟨10.1016/j.plantsci.2017.01.009⟩. ⟨hal-01607524⟩

Hélène Badouin, Jerome Gouzy, Christopher Grassa, Florent Murat, S Evan Staton, et al.. The sunflower genome provides insights into oil metabolism, flowering and Asterid evolution. Nature, Nature Publishing Group, 2017, 546 (7656), pp.148-152. ⟨10.1038/nature22380⟩. ⟨hal-01603287⟩

Brigitte Mangin, Fanny Bonnafous, Nicolas Blanchet, Marie-Claude Boniface, Emmanuelle Bret-Mestries, et al.. Genomic Prediction of Sunflower Hybrids Oil Content. Frontiers in Plant Science, Frontiers, 2017, 8, pp.1-12. ⟨10.3389/fpls.2017.01633⟩. ⟨hal-02624895⟩

Brigitte Mangin, Pierre Casadebaig, Eléna Cadic, Nicolas Blanchet, Marie-Claude Boniface, et al.. Genetic control of plasticity of oil yield for combined abiotic stresses using a joint approach of crop modeling and genome-wide association. Plant, Cell and Environment, Wiley, 2017, 40 (10), pp.2276-2291. ⟨10.1111/pce.12961⟩. ⟨hal-01608380⟩

Ebrahim Osdaghi, Natalia Forero Serna, Stéphanie Bolot, Marion Fischer-Le Saux, Marie-Agnès Jacques, et al.. High-Quality Draft Genome Sequence of Curtobacterium sp. Strain Ferrero. Genome Announcements, American Society for Microbiology, 2017, 5 (48), pp.e01378-17. ⟨10.1128/genomeA.01378-17⟩. ⟨hal-01905579⟩

Sébastien Carrere, Jerome Gouzy. myGenomeBrowser: building and sharing your own genome browser. Bioinformatics, Oxford University Press (OUP), 2017, 33 (8), pp.1255-1257. ⟨10.1093/bioinformatics/btw800⟩. ⟨hal-01608904⟩

Léa Frachon, Cyril Libourel, Romain Villoutreix, Sébastien Carrere, Cédric Glorieux, et al.. Intermediate degrees of synergistic pleiotropy drive adaptive evolution in ecological time. Nature Ecology & Evolution, Nature, 2017, 1 (10), pp.1551-1561. ⟨10.1038/s41559-017-0297-1⟩. ⟨hal-01723277⟩

Amandine Cunty, Sophie Cesbron, Martial Briand, Sebastien Carrere, Françoise Poliakoff, et al.. Draft genome sequences of five Pseudomonas syringae pv. actinidifoliorum strains isolated in France. Brazilian Journal of Microbiology, Sociedade Brasileira de Microbiologia, 2016, 47 (3), pp.529-530. ⟨10.1016/j.bjm.2016.04.023⟩. ⟨hal-01415259⟩

Pierre-Emmanuel Colombo, Martin Bertrand, Mathias Alline, Eric Boulay, Anne Mourregot, et al.. Robotic Versus Laparoscopic Total Mesorectal Excision (TME) for Sphincter-Saving Surgery: Is There Any Difference in the Transanal TME Rectal Approach?. Annals of Surgical Oncology, Springer Verlag, 2016, 23 (5), pp.1594 - 1600. ⟨10.1245/s10434-015-5048-4⟩. ⟨hal-01908670⟩

Martin Marie Bertrand, Pierre-Emmanuel Colombo, Anne Mourregot, Drissa Traore, Sebastien Carrere, et al.. Standardized single docking, four arms and fully robotic proctectomy for rectal cancer: the key points are the ports and arms placement. Journal of Robotic Surgery, Springer Verlag, 2016, 10 (2), pp.171 - 174. ⟨10.1007/s11701-015-0551-y⟩. ⟨hal-01908899⟩

Quentin Gascuel, Amandine Bordat, Erika Sallet, Nicolas Pouilly, Sebastien Carrere, et al.. Effector polymorphisms of the sunflower downy mildew pathogen Plasmopara Halstedii and their use to identify pathotypes from field isolates. PLoS ONE, Public Library of Science, 2016, 11 (2), pp.1-19. ⟨10.1371/journal.pone.0148513⟩. ⟨hal-02632845⟩

Pedro-Felipe Mestre Artigues, Sebastien Carrere, Jerome Gouzy, Marie-Christine Piron, Denis Tourvieille de Labrouhe, et al.. Comparative analysis of expressed CRN and RXLR effectors from two Plasmopara species causing grapevine and sunflower downy mildew. Plant Pathology, Wiley, 2016, 65 (5), pp.767-781. ⟨10.1111/ppa.12469⟩. ⟨hal-02640035⟩

I. Robène, Stéphanie Bolot, Olivier Pruvost, Matthieu Arlat, Laurent Noel, et al.. High-Quality Draft Genome Sequences of Two Xanthomonas Pathotype Strains Infecting Aroid Plants. Genome Announcements, American Society for Microbiology, 2016, 4 (5), pp.e00902-16. ⟨10.1128/genomeA.00902-16⟩. ⟨hal-02629928⟩

Susete Alves Carvalho, Gregoire Aubert, Sebastien Carrere, Corinne Cruaud, Anne-Lise Brochot, et al.. Full-length de novo assembly of RNA-seq data in pea (Pisum sativum L.) provides a gene expression atlas and gives insights into root nodulation in this species. Plant Journal, Wiley, 2015, 84 (1), pp.1-19. ⟨10.1111/tpj.12967⟩. ⟨hal-02631162⟩

Céline Camps, Marie-Françoise Jardinaud, David Rengel, Sebastien Carrere, Christine Hervé, et al.. Combined genetic and transcriptomic analysis reveals three major signalling pathways activated by Myc-LCOs in Medicago truncatula. New Phytologist, Wiley, 2015, 208 (1), pp.224-240. ⟨10.1111/nph.13427⟩. ⟨hal-02632553⟩

Arnaud Duhoux, Sebastien Carrere, Jerome Gouzy, Ludovic Bonin, Christophe Delye. RNA-Seq analysis of rye-grass transcriptomic response to an herbicide inhibiting acetolactate-synthase identifies transcripts linked to non-target-site-based resistance. Plant Molecular Biology, Springer Verlag (Germany), 2015, 87 (4-5), pp.473-487. ⟨10.1007/s11103-015-0292-3⟩. ⟨hal-02635561⟩

Claudia Bartoli, Sebastien Carrere, Jay Ram Lamichhane, Leonardo Varvaro, Cindy E. Morris. Whole-genome sequencing of 10 Pseudomonas syringae strains representing different host range spectra. Genome Announcements, American Society for Microbiology, 2015, 3 (2), pp.e00379-15. ⟨10.1128/genomeA.00379-15⟩. ⟨hal-02632911⟩

Jeanne Aude Christiane Gardin, Jerome Gouzy, Sebastien Carrere, Christophe Delye. ALOMYbase, a resource to investigate non-target-site-based resistance to herbicides inhibiting acetolactate-synthase (ALS) in the major grass weed Alopecurus myosuroides (black-grass). BMC Genomics, BioMed Central, 2015, 16, ⟨10.1186/s12864-015-1804-x⟩. ⟨hal-02635227⟩

Céline Pesce, Stéphanie Bolot, Edwige Berthelot, Claude Bragard, Sebastien Cunnac, et al.. Draft Genome Sequence ofXanthomonas translucenspv. graminis Pathotype Strain CFBP 2053. Genome Announcements, American Society for Microbiology, 2015, 3 (5), pp.e01174-15. ⟨10.1128/genomeA.01174-15⟩. ⟨hal-01594261⟩

Isabelle Pieretti, Stéphane Cociancich, Stéphanie Bolot, Sébastien Carrere, Alexandre Morisset, et al.. Full genome sequence analysis of two isolates reveals a novel Xanthomonas species close to the sugarcane pathogen Xanthomonas albilineans. Genes, MDPI, 2015, 6 (3), pp.714-733. ⟨10.3390/genes6030714⟩. ⟨hal-01594241⟩

Brice Roux, Stéphanie Bolot, Endrick Guy, Nicolas Denancé, Martine Lautier, et al.. Genomics and transcriptomics of Xanthomonas campestris species challenge the concept of core type III effectome.. BMC Genomics, BioMed Central, 2015, 16 (1), pp.975. ⟨10.1186/s12864-015-2190-0⟩. ⟨hal-01455988⟩

Stéphanie Bolot, Aude Cerutti, Sebastien Carrere, Matthieu Arlat, Marion Le Saux, et al.. Genome Sequences of the Race 1 and Race 4 Xanthomonas campestris pv. campestris Strains CFBP 1869 and CFBP 5817.. Genome Announcements, American Society for Microbiology, 2015, 3 (5), ⟨10.1128/genomeA.01023-15⟩. ⟨hal-01455989⟩

Céline Pesce, Stéphanie Bolot, Sébastien Cunnac, Perrine Portier, Marion Le Saux, et al.. High-Quality Draft Genome Sequence of the Xanthomonas translucens pv. cerealis Pathotype Strain CFBP 2541.. Genome Announcements, American Society for Microbiology, 2015, 3 (1), ⟨10.1128/genomeA.01574-14⟩. ⟨hal-01209993⟩

Brice Roux, Nathalie Rodde, Marie-Françoise Jardinaud, Ton Timmers, Laurent Sauviac, et al.. An integrated analysis of plant and bacterial gene expression in symbiotic root nodules using laser-capture microdissection coupled to RNA sequencing. Plant Journal, Wiley, 2014, 77 (6), pp.817-837. ⟨10.1111/tpj.12442⟩. ⟨hal-03082945⟩

Raman Ramesh, Sapna Gaitonde, Gauri Achari, Trupti Asolkar, Narendra Pratap Singh, et al.. Genome Sequencing of Ralstonia solanacearum Biovar 3, Phylotype I, Strains Rs-09-161 and Rs-10-244, Isolated from Eggplant and Chili in India.. Genome Announcements, American Society for Microbiology, 2014, 2 (3), ⟨10.1128/genomeA.00323-14⟩. ⟨hal-02629436⟩

Alice Boulanger, Claudine Zischek, Martine Lautier, Stevie Jamet, Pauline Rival, et al.. The plant pathogen Xanthomonas campestris pv. campestris exploits N-acetylglucosamine during infection.. mBio, American Society for Microbiology, 2014, 5 (5), pp.e01527-14. ⟨10.1128/mBio.01527-14⟩. ⟨hal-02637892⟩

Simona Abbà, Luciana Galetto, Patricia Carle, Sebastien Carrere, Massimo Delledonne, et al.. RNA-Seq profile of flavescence dorée phytoplasma in grapevine.. BMC Genomics, BioMed Central, 2014, 15 (1), pp.1-13. ⟨10.1186/1471-2164-15-1088⟩. ⟨hal-02636852⟩

Lionel Gagnevin, Stéphanie Bolot, J L Gordon, Olivier Pruvost, Christian Vernière, et al.. Draft Genome Sequence of Xanthomonas axonopodis pv. allii Strain CFBP 6369.. Genome Announcements, American Society for Microbiology, 2014, 2 (4), ⟨10.1128/genomeA.00727-14⟩. ⟨hal-01209994⟩

Stéphanie Bolot, Brice Roux, Sebastien Carrere, Bo-Le Jiang, Ji-Liang Tang, et al.. Genome Sequences of Three Atypical Xanthomonas campestris pv. campestris Strains, CN14, CN15, and CN16.. Genome Announcements, American Society for Microbiology, 2013, 1 (4), ⟨10.1128/genomeA.00465-13⟩. ⟨hal-02645772⟩

Sébastien Cunnac, Stéphanie Bolot, Natalia Forero Serna, Erika Ortiz, Boris Szurek, et al.. High-Quality Draft Genome Sequences of Two Xanthomonas citri pv. malvacearum Strains.. Genome Announcements, American Society for Microbiology, 2013, 1 (4), ⟨10.1128/genomeA.00674-13⟩. ⟨hal-02643147⟩

Endrick Guy, Anne Genissel, Ahmed Hajri, Matthieu Chabannes, Perrine David, et al.. Natural genetic variation of Xanthomonas campestris pv. campestris pathogenicity on Arabidopsis revealed by association and reverse genetics. mBio, American Society for Microbiology, 2013, 4 (3), pp.e00538. ⟨10.1128/mBio.00538-12⟩. ⟨hal-01199307⟩

Stéphanie Bolot, Endrick Guy, Sebastien Carrere, Valérie Barbe, Matthieu Arlat, et al.. Genome Sequence of Xanthomonas campestris pv. campestris Strain Xca5.. Genome Announcements, American Society for Microbiology, 2013, 1 (1), ⟨10.1128/genomeA.00032-12⟩. ⟨hal-02649490⟩

Nemo Peeters, Sebastien Carrere, Maria Anisimova, Laure Plener, Anne-Claire Cazalé, et al.. Repertoire, unified nomenclature and evolution of the Type III effector gene set in the Ralstonia solanacearum species complex. BMC Genomics, BioMed Central, 2013, 14, ⟨10.1186/1471-2164-14-859⟩. ⟨hal-02647666⟩

Monique Royer, Ralf Koebnik, Melanie Marguerettaz, Valerie Barbe, Guillaume P. Robin, et al.. Genome mining reveals the genus Xanthomonas to be a promising reservoir for new bioactive non-ribosomally synthesized peptides. BMC Genomics, BioMed Central, 2013, 14, ⟨10.1186/1471-2164-14-658⟩. ⟨hal-01209938⟩

Guillaume Dejean, Servane Blanvillain-Baufume, Alice Boulanger, Armelle Darrasse, Thomas Duge de Bernonville, et al.. The xylan utilization system of the plant pathogen Xanthomonas campestris pv campestris controls epiphytic life and reveals common features with oligotrophic bacteria and animal gut symbionts. New Phytologist, Wiley, 2013, 198 (3), pp.899 - 915. ⟨10.1111/nph.12187⟩. ⟨hal-01209910⟩

Marie Agnes Jacques, Stéphanie Bolot, Erika Charbit, Armelle Darrasse, Martial Briand, et al.. High-Quality Draft Genome Sequence of Xanthomonas alfalfae subsp. alfalfae Strain CFBP 3836.. Genome Announcements, American Society for Microbiology, 2013, 1 (6), ⟨10.1128/genomeA.01035-13⟩. ⟨hal-02649259⟩

Armelle Darrasse, Stéphanie Bolot, Laurana Serres Giardi, Erika Charbit, Tristan Boureau, et al.. High-Quality Draft Genome Sequences of Xanthomonas axonopodis pv. glycines Strains CFBP 2526 and CFBP 7119.. Genome Announcements, American Society for Microbiology, 2013, 1 (6), ⟨10.1128/genomeA.01036-13⟩. ⟨hal-02648487⟩

Mario L. Arrieta-Ortiz, Luis M. Rodríguez-R, Alvaro L. Pérez-Quintero, Lucie Poulin, Ana C. Díaz, et al.. Genomic survey of pathogenicity determinants and VNTR markers in the cassava bacterial pathogen Xanthomonas axonopodis pv. manihotis strain CIO151. PLoS ONE, Public Library of Science, 2013, 8 (11), pp.e79704. ⟨10.1371/journal.pone.0079704⟩. ⟨hal-01199314⟩

Stéphanie Bolot, Alejandra Munoz Bodnar, Sébastien Cunnac, Erika Ortiz, Boris Szurek, et al.. Draft Genome Sequence of the Xanthomonas cassavae Type Strain CFBP 4642.. Genome Announcements, American Society for Microbiology, 2013, 1 (4), ⟨10.1128/genomeA.00679-13⟩. ⟨hal-02642222⟩

Armelle Darrasse, Sebastien Carrere, Valérie Barbe, Tristan Boureau, Mario L. Arrieta-Ortiz, et al.. Genome sequence of Xanthomonas fuscans subsp. fuscans strain 4834-R reveals that flagellar motility is not a general feature of xanthomonads. BMC Genomics, BioMed Central, 2013, 14, pp.761--790. ⟨10.1186/1471-2164-14-761⟩. ⟨hal-01199326⟩

David Rengel, Sandrine Arribat, Pierre Maury, Marie-Laure Martin-Magniette, Thibault Hourlier, et al.. A gene-phenotype network based on genetic variability for drought responses reveals key physiological processes in controlled and natural environments. PLoS ONE, Public Library of Science, 2012, 7 (10), pp.e45249. ⟨10.1371/journal.pone.0045249⟩. ⟨hal-02644423⟩

Federico Ariel, Marianne Brault-Hernandez, Carole Laffont, Emeline Huault, Mathias Brault, et al.. Two direct targets of cytokinin signaling regulate symbiotic nodulation in Medicago truncatula.. The Plant cell, American Society of Plant Biologists (ASPB), 2012, 24 (9), pp.3838-52. ⟨10.1105/tpc.112.103267⟩. ⟨hal-00856169⟩

Mélanie Rouxel, Daciana Papura, Marilise Nogueira, Virginie Machefer, Damien Dezette, et al.. Microsatellite markers for characterization of native and introduced populations of Plasmopara viticola, the causal agent of grapevine downy mildew. Applied and Environmental Microbiology, American Society for Microbiology, 2012, 78 (7), pp.6337-6340. ⟨10.1128/AEM.01255-12⟩. ⟨hal-02650268⟩

Isabelle Pieretti, Monique Royer, Valérie Barbe, Sébastien Carrere, Ralf Koebnik, et al.. Genomic insights into strategies used by Xanthomonas albilineans with its reduced artillery to spread within sugarcane xylem vessels. BMC Genomics, BioMed Central, 2012, 13 (1), pp.658--680. ⟨10.1186/1471-2164-13-658⟩. ⟨hal-01199327⟩

Patricia Carle, Sylvie Malembic-Maher, Nathalie Arricau-Bouvery, Delphine Desque, Sandrine Eveillard, et al.. 'Flavescence doree' phytoplasma genome: a metabolism oriented towards glycolysis and protein degradation. Bulletin of Insectology, 2011, 64, pp.S13-S14. ⟨hal-02649904⟩

Falah As-Sadi, Sebastien Carrere, Quentin Gascuel, Thibault Hourlier, David Rengel, et al.. Transcriptomic analysis of the interaction between Helianthus annuus and its obligate parasite Plasmopara halstedii shows single nucleotide polymorphisms in CRN sequences. BMC Genomics, BioMed Central, 2011, 12, pp.498. ⟨10.1186/1471-2164-12-498⟩. ⟨hal-02648363⟩

Patricia Carle, Colette Saillard, Nathalie Carrère, Sebastien Carrere, Sybille Duret, et al.. Partial Chromosome Sequence of Spiroplasma citri reveals extensive viral invasion and important gene decay. Applied and Environmental Microbiology, American Society for Microbiology, 2010, 76 (11), pp.3420-3426. ⟨10.1128/AEM.02954-09⟩. ⟨hal-02658836⟩

Alice Guidot, Mounira Elbaz, Sebastien Carrere, M.I. Siri, M.J. Pianzzola, et al.. Specific Genes from the Potato Brown Rot Strains of Ralstonia solanacearum and Their Potential Use for Strain Detection. Phytopathology, American Phytopathological Society, 2009, 99 (9), pp.1105-1112. ⟨10.1094/PHYTO-99-9-1105⟩. ⟨hal-02668604⟩

Jerome Gouzy, Sebastien Carrere, Thomas Schiex. FrameDP: sensitive peptide detection on noisy matured sequences. Bioinformatics, Oxford University Press (OUP), 2009, 25 (5), pp.670-671. ⟨10.1093/bioinformatics/btp024⟩. ⟨hal-02665259⟩

Bertrand Néron, Hervé Ménager, Corinne Maufrais, Nicolas Joly, Julien Maupetit, et al.. Mobyle: a new full web bioinformatics framework. Bioinformatics, Oxford University Press (OUP), 2009, 25 (22), pp.3005-3011. ⟨10.1093/bioinformatics/btp493⟩. ⟨hal-01287963⟩

Isabelle Pieretti, Monique Royer, Valérie Barbe, Sébastien Carrere, Ralf Koebnik, et al.. The complete genome sequence of Xanthomonas albilineans provides new insights into the reductive genome evolution of the xylem-limited Xanthomonadaceae.. BMC Genomics, BioMed Central, 2009, 10, pp.616. ⟨10.1186/1471-2164-10-616⟩. ⟨hal-00730090⟩

Colette Saillard, Patricia Carle, Sybille Duret Nurbel, Raphael Henri, Nabil Killiny, et al.. The abundant extrachromosomal DNA content of the Spiroplasma citri GII3-3X genome. BMC Genomics, BioMed Central, 2008, 9, 195p1-195p13. ⟨10.1186/1471-2164-9-195⟩. ⟨hal-02664161⟩

Claire Amadou, Géraldine Pascal, Sophie Mangenot, Michelle Glew, Cyril Bontemps, et al.. Genome sequence of the -rhizobium Cupriavidus taiwanensis and comparative genomics of rhizobia. Genome Research, Cold Spring Harbor Laboratory Press, 2008, 18 (9), pp.1472 - 1483. ⟨10.1101/gr.076448.108⟩. ⟨hal-01655676⟩

Alice Guidot, Philippe Prior, Jens Schoenfeld, Sébastien Carrere, Stéphane Genin, et al.. Genomic Structure and Phylogeny of the Plant Pathogen Ralstonia solanacearum Inferred from Gene Distribution Analysis. Journal of Bacteriology, American Society for Microbiology, 2007, 189, pp.377-387. ⟨10.1128/JB.00999-06⟩. ⟨hal-02936820⟩

Cyril Bontemps, Geoffroy Golfier, Carine Gris-Liebe, Sebastien Carrere, Luc Talini, et al.. Microarray-Based Detection and Typing of the Rhizobium Nodulation Gene nodC: Potential of DNA Arrays To Diagnose Biological Functions of Interest. Applied and Environmental Microbiology, American Society for Microbiology, 2005, 71 (12), pp.8042 - 8048. ⟨10.1128/AEM.71.12.8042–8048.2005⟩. ⟨hal-01655599⟩

Catherine Bru, Emmanuel Courcelle, Sébastien Carrère, Yoann Beausse, Sandrine Dalmar, et al.. The ProDom database of protein domain families: more emphasis on 3D. Nucleic Acids Research, Oxford University Press, 2005, 33 (Database issue), pp.D212-D215. ⟨10.1093/nar/gki034⟩. ⟨hal-01214150⟩

Maxime Escouboué, Gaëlle Huet, Céline Vicédo, A. Jauneau, Fabrice Roux, et al.. The Ralstonia solanacearum PopP2 effector exploits immune-associated MAPKs to potentiate its virulence functions and evade host recognition. 18. Congress of International-Society-for-Molecular-Plant-Microbe-Interactions (IS-MPMI), International Society for Molecular Plant-Microbe Interactions (IS-MPMI). INT., Jul 2019, Glasgow, United Kingdom. ⟨hal-02737637⟩

Elisabeth Grund, B. Zhou, Patrick Dabos, X. Sun, Sébastien Carrere, et al.. Signalling dynamics of the RRS1-RPS4 NLR immune complex at the chromatin during ETI. 18. Congress of International-Society-for-Molecular-Plant-Microbe-Interactions (IS-MPMI), International Society for Molecular Plant-Microbe Interactions (IS-MPMI). INT., Jul 2019, Glasgow, United Kingdom. ⟨hal-02736505⟩

Manuel Gonzalez Fuente, Celine Rembliere, Sébastien Carrere, Noé Arroyo Velez, Nemo Peeters, et al.. Integrated strategy to unravel the biological role of evolutionary conserved type III effectors from xylem-colonizing bacteria. 18. Congress of International-Society-for-Molecular-Plant-Microbe-Interactions (IS-MPMI), International Society for Molecular Plant-Microbe Interactions (IS-MPMI). INT., Jul 2019, Glasgow, United Kingdom. ⟨hal-02735402⟩

Julien Luneau, M. Baudin, Sébastien Carrere, Olivier Bouchez, Marie-Françoise Jardinaud, et al.. A TnSeq approach to study the genetic bases of Xanthomonas campestris pv. campestris adaptation to in vitro and in planta conditions. 18. Congress of International-Society-for-Molecular-Plant-Microbe-Interactions (IS-MPMI), International Society for Molecular Plant-Microbe Interactions (IS-MPMI). INT., Jul 2019, Glasgow, United Kingdom. ⟨hal-02738045⟩

Julien Luneau, Mael Baudin, Sébastien Carrere, Olivier Bouchez, Marie-Françoise Jardinaud, et al.. A TnSeq approach to study the genetic bases of Xanthomonas campestris pv. campestris adaptation to in vitro and in planta conditions.. Congress of International-Society-for-Molecular-Plant-Microbe-Interactions (IS-MPMI), Jul 2019, Glasgow, United Kingdom. ⟨hal-02361887⟩

Christophe Délye, Lucie Meyer, Sébastien Carrere, Jerome Gouzy, Fanny Pernin, et al.. A whole-transcriptome approach to unravel non-target-site-based resistance to ALS inhibitors in Ambrosia artemisiifolia. 18. European Weed Research Society Symposium, EWRS 2018, "New approaches for smarter weed management", Jun 2018, Ljubljana, Slovenia. ⟨hal-02733955⟩

Yann Pecrix, S Evan Staton, Erika Sallet, Christine Lelandais Briere, Sandra Moreau, et al.. Long ncRNAs and epigenetic regulations are attractive candidate elements for the orchestration of symbiotic gene expression in M. truncatula.. International plant epigenetics symposium, ERC (European Research Council) and the RFI Objectif Végétal regional programme, Oct 2018, Angers, France. ⟨hal-03355269⟩

Jean-Claude Ogier, Sophie Gaudriault, Pauline Heuillard, Olivier Zemb, Sebastien Carrere, et al.. Pathobiome entomopathogenic nematodes Development of methodology for a taxonomic assignation at the species level in the the pathobiome of entomopathogenic nematodes from the Steinernema genus. 2017 Scientific MEM days: Journées scientifiques MEM (Métaomiques et écosystèmes microbiens), Jan 2017, Paris, France. ⟨hal-01603194⟩

Judith Burstin, Nadim Tayeh, Anthony Klein, Jonathan Kreplak, Françoise Jacquin, et al.. Le pois, espèce modèle ?. 1. Rencontres Francophones sur les Légumineuses (RFL1), Institut National de la Recherche Agronomique (INRA). FRA., May 2016, Dijon, France. ⟨hal-02741352⟩

Thierry Candresse, Armelle Marais, Sébastien Theil, Chantal Faure, Laurence Svanella-Dumas, et al.. Making sense out of phytoviral metagenomics: what have we learned from the Kerguelen Islands phytovirome?. 15. Rencontres de Virologie Végétale (RVV), Jan 2015, Aussois, France. ⟨hal-02798683⟩

Nadim Tayeh, Susete Alves Carvalho, Christelle Aluome, Sébastien Carrere, Jonathan Kreplak, et al.. Pea genomic tools for functional and structural approaches. Mendel's legacy - 150 years of the genius of genetics, Masaryk University. CZE., Sep 2015, Brno, Czech Republic. ⟨hal-02743963⟩

Judith Burstin, Susete Alves Carvalho, Christelle Aluome, Nadim Tayeh, Anne-Lise Brochot, et al.. Pea in the genomic era. Séminaire IFR AIB (Agrobiosciences, Interactions & Biodiversité), Feb 2015, Toulouse, France, 24 février 2015, France. ⟨hal-01536570⟩

Susete Alves Carvalho, Christelle Aluome, Gregoire Aubert, Corinne Cruaud, Anthony Klein, et al.. Pea in the genomic era. 2. Adam Kondorosi Symposium "Frontiers in Legume Biology",, Dec 2014, Gif-sur-Yvette, France. ⟨hal-02797923⟩

Arnaud Duhoux, Jerome Gouzy, Sebastien Carrere, Ludovic Bonin, Christophe Delye. Characterisation of rye-grass (Lolium sp.) transcriptome-wide response to ALS-inhibiting herbicides. European Weed Research Society (EWRS) workshop "Herbicide-Resistance in Europe: challenges, opportunities and threats", European Weed Research Society (EWRS). GBR., May 2014, Frankfurt, Germany. 69 p. ⟨hal-02739894⟩

Stéphanie Bolot, Brice Roux, Endrick Guy, Nicolas Denancé, Martine Lautier, et al.. Comparative genomics and transcriptomics of #Xanthomonas campestris# : Session 3- Physiologie, génétique et génomique des bactéries. 11èmes Rencontres Plantes-Bactéries, Feb 2014, Aussoies, France. pp.40. ⟨hal-01456725⟩

Jeanne Gardin, Roland Beffa, Jerome Gouzy, Sébastien Carrère, Christophe Delye. A transcriptomics-based approach enables the first identification of candidate genes involved in non-target-site-based resistance to herbicides in a grass weed (Alopecurus myosuroides). Global Herbicide Resistance Challenge Conference, Feb 2013, Perth, Australia. 115 p. ⟨hal-02747324⟩

Jeanne Gardin, Jerome Gouzy, Sebastien Carrere, Roland Beffa, Christophe Delye. Alopecurus myosuroides transcriptome database (ALOMYBase): unravelling the genetic bases of non-target-site-based resistance to herbicides. 16. European Weed Research Symposium (EWRS), European Weed Research Society (EWRS). GBR., Jun 2013, Samsun, Turkey. pp.259. ⟨hal-02749853⟩

Jeanne Gardin, Sébastien Carrère, Jerome Gouzy, B. Couloume, C. Engel, et al.. Identification de mécanismes de résistance non liée à la cible grâce à la transcriptomique. 22. Conférence du Columa, Journées internationales sur la lutte contre les mauvaises herbes, Association Française de Protection des Plantes (AFPP). FRA., Dec 2013, Dijon, France. 45 p. ⟨hal-02747026⟩

Thierry Candresse, Armelle Marais, Chantal Faure, Sébastien Theil, Laurence Svanella-Dumas, et al.. Contrasted patterns of phytoviral metagenomes in wild and agricultural environments. 19. Australasian Plant Pathology Conference, Nov 2013, Auckland, New Zealand. ⟨hal-02809610⟩

Thierry Candresse, Armelle Marais, Chantal Faure, Sébastien Theil, Laurence Svanella-Dumas, et al.. Contrasted patterns of phytoviral metagenomes in wild and agricultural environments. EMBO Workshop “Green viruses, from gene to landscape”, Sep 2013, Hyères-les-Palmiers, France. ⟨hal-02810681⟩

Nemo Peeters, Sebastien Carrere, Anne-Claire Noel, Stéphane Genin, Maria Anisimova, et al.. Inventory and evolution of type III effectors in the Ralstonia solanacearum species complex. COST SUSTAIN FA1208, Oct 2013, Birnam, United Kingdom. ⟨hal-01131069⟩

Jean-Claude Ogier, Sylvie Pages, Gaelle Bisch, Sebastien Carrere, Helene Chiapello, et al.. Genomic comparison within Xenorhabdus genus: X. poinarii species characterized by a small genome and attenuated virulence toward insects. 5. Congress of European Microbiologists (FEMS 2013), Jul 2013, Leipzig, Allemagne. ⟨hal-01837266⟩

Arnaud Duhoux, Jerome Gouzy, Sebastien Carrere, Christophe Delye. Transcriptome screening-based identification of candidate genes endowing non-target-site-based resistance to herbicides inhibiting ALS in Lolium sp. 16. European Weed Research Symposium (EWRS), European Weed Research Society (EWRS). GBR., Jun 2013, Samsun, Turkey. pp.269. ⟨hal-02746079⟩

Arnaud Duhoux, Jerome Gouzy, Sébastien Carrère, L. Bonin, Christophe Délye. Diagnostic de la résistance non liée à la cible chez les ray grass (Lolium sp.) : développement de tests rapides et fiables. 22. Conférence du Columa, Journées internationales sur la lutte contre les mauvaises herbes, Association Française de Protection des Plantes (AFPP). FRA., Dec 2013, Dijon, France. 45 p. ⟨hal-02746199⟩

Lionel Gagnevin, Brice Roux, Stéphanie Bolot, Sebastien Carrere, Erika Charbit, et al.. Genome and transcriptome analysis to reveal adaptation to new environments and hosts. APS-MSA Joint Meeting, Aug 2013, Austin, Texas, United States. ⟨hal-01209932⟩

Monique Royer, Ralf Koebnik, Melanie Marguerettaz, Valérie Barbe, Guillaume P. Robin, et al.. Genome mining reveals a novel and promising NRPS gene cluster in #Xanthomonas albilineans#, #Xanthomonas oryzae# and #Xanthomonas translucens#. 59° Congresso Brasileiro de Genética, Sep 2013, Águas de Lindóia, Brazil. ⟨hal-01456738⟩

Frederic Debellé, C. Belser, J.M. Aury, K. Labadie, Brice Roux, et al.. Genomic resources for functional analysis in Medicago truncatula and related crop species. 6. International Conference on Legume Genetics and Genomics, International Crops Research Institute for the Semi-Arid Tropics, CGIAR (ICRISAT). Patancheru, IND., Oct 2012, Hyderabad, India. ⟨hal-02747944⟩

Thierry Candresse, Armelle Marais, Chantal Faure, Sebastien Carrere, Pascal Gentit. Use of 454 pyrosequencing for the fast and efficient characterization of known and novel viral agents in Prunus materials. 22. International conference on virus and other graft transmissible diseases of fruit crops, Jun 2012, Rome, Italy. p. 47. ⟨hal-02803408⟩

Thierry Candresse, Armelle Marais, Chantal Faure, Laurence Svanella-Dumas, Sebastien Carrere, et al.. Progrès et contraintes pour le développement de la métagénomique phytovirale. Journées des Microbiologistes de l'INRA 2012, Nov 2012, L'Isle -sur-la-Sorgue, France. 1 p. ⟨hal-02810961⟩

Armelle Darrasse, Sébastien Carrere, Valérie Barbe, Tristan Bourreau, Adriana Bernal, et al.. Genome sequencing of Xanthomonas axonopodis pv. phaseoli CFBP4834-R reveals that flagellar motility is not a general feature of xanthomonads. [Abstract]. 4th Xanthomonas Genomics Conference, Jul 2012, Angers, France. ⟨hal-01202944⟩

Frederic Debellé, Marion Verdenaud, Anne-Marie Dudez, Nicolas Samson, Olivier Saurat, et al.. Development of genomic resources for Medicago truncatula and related legume crops. Model Legume Congress 2011, Institut National Polytechnique (Toulouse) (Toulouse INP). Castanet Tolosan, FRA., May 2011, Sainte Maxime, France. ⟨hal-02746654⟩

Isabelle Pieretti, Stéphane Cociancich, Valerie Barbe, Sébastien Carrere, Ralf Koebnik, et al.. The complete genome sequence of Xanthomonas albilineans provides insights into pathogenicity of this sugarcane pathogen and allows further assessments of the large diversity within this species. 5th European conference on prokaryotic and fungal genomics, Sep 2011, Göttingen, Germany. ⟨hal-01202957⟩

Isabelle Pieretti, Monique Royer, Valérie Barbe, Sebastien Carrere, Ralf Koebnik, et al.. The complete genome sequence of Xanthomonas albilineans provides new insights into the reductive genome evolution of the xylem-limited Xanthomonadaceae. 14. International Congress on Molecular Plant-Microbe Interactions, Jul 2009, Québec City, Canada. 2 p. ⟨hal-02817753⟩

Isabelle Pieretti, Monique Royer, Valérie Barbe, Sebastien Carrere, Ralf Koebnik, et al.. La séquence complète du génome de Xanthomonas albilineans apporte un éclairage nouveau sur l'évolution des Xanthomonadaceae dont l'habitat est limité au xylème. 7. Colloque National de la Société Française de Phytopathologie, Jun 2009, Lyon, France. 1 p. ⟨hal-02824029⟩

Marc Wessner, Martin Senger, Franck Samson, Philippe Picouet, François Moreews, et al.. BioWorkFlow: Web Services toolkit and workflow applications evaluation to deploy a confidence network. Jobim (Journées Ouvertes Biologie Informatique Mathématiques), Jun 2008, Lille, France. ⟨inria-00327528⟩

Isabelle Pieretti, Monique Royer, Valérie Barbe, Sébastien Carrere, Ralf Koebnik, et al.. La séquence du génome de Xanthomonas albilineans dévoile des particularités surprenantes chez cette bactérie pathogène de la canne à sucre. 8èmes Rencontres plantes-bactéries, Jan 2008, Aussoies, France. ⟨hal-01202965⟩

Patricia Carle, Colette Saillard, Alain Blanchard, Nathalie Carrère, Sebastien Carrere, et al.. The partial chromosome sequence of Spiroplasma citri strain GII3-3X. 16. International congress of the International Organization for Mycoplasmology, Jul 2006, Cambridge, United Kingdom. ⟨hal-02753198⟩

Christophe Délye, Arnaud Duhoux, Sebastien Carrere, Ludovic Bonin. Identification de gènes liés à la résistance aux herbicides non liée à la cible chez les Ivraies : vers des tests « moléculaires » de diagnostic. 23. Conference du COLUMA - Journées Internationales sur la Lutte contre les Mauvaises Herbes, Dec 2016, Dijon, France. AFPP - Association Française de Protection des Plantes, pp.220-229, 2016. ⟨hal-01604115⟩

Judith Burstin, Susete Alves Carvalho, Nadim Tayeh, Christelle Aluome, Virginie Bourion, et al.. Recent pea genomic resources will enhance complementary improvement strategies in this crop. 6. International Food Legumes Research Conference (IFLRC VI), Jul 2014, Saskatoon, Canada. 225 p., 2014. ⟨hal-02743375⟩

Thierry Candresse, Armelle Marais, Chantal Faure, Laurence Svanella-Dumas, Sebastien Carrere, et al.. Analysis of Amalgamaviridae diversity in the Kerguelen Islands ecosystem using two different strategies for metagenome analysis. 14. Rencontres de Virologie Végétale, Jan 2013, Aussois, France. p. 56, 2013. ⟨hal-02805457⟩

Jean-Claude Ogier, Sylvie Pages, Patrick Tailliez, Gaëlle Bisch, Corinne Teyssier, et al.. Génomique comparative dans le genre Xenorhabdus : l'espèce X. Poinarii caractérisée par un pouvoir pathogène atténué et un génome de petite taille. Journées des Microbiologistes de l’INRA 2012, Nov 2012, L'Isle-sur-la-Sorgue, France. 2012. ⟨hal-02810864⟩

Patricia Carle, Colette Saillard, Alain Blanchard, N Carrere, Sébastien Carrère, et al.. The partial chromosome sequence of Spiroplasma citri strain GII3-3X. 16th International Congress of the International Organization for Mycoplasmology, 2006, Cambridge, United Kingdom. pp.Inconnu, 2006. ⟨hal-02816748⟩

Judith Burstin, Nadim Tayeh, Anthony Klein, Virginie Bourion, Jonathan Kreplak, et al.. Génétique et génomique du pois : what else ?. Trésor des fèves et fleur des pois, le génie des légumineuses. Colloque scientifique SNHF Société Nationale d'Horticulture de France, May 2016, Paris, France. Société Nationale d'Horticulture de France, pp.33-37, 2016, 978-2-913793-16-3. ⟨hal-02794125⟩

Sébastien Carrere, Jerome Gouzy, Frédéric Debellé, William Marande, Bernadette Julier, et al.. Medicago sativa cv. Mercedes genome sequence. 2020. ⟨hal-02993163v2⟩

Barbara Hufnagel, André Marques, Alexandre Soriano, Laurence Marquès, Fanchon Divol, et al.. Genome sequence of the cluster root forming white lupin;. 2019. ⟨hal-02790529⟩

Ludovic Cottret, Corinne Rancurel, Martial Briand, Sébastien Carrere. Family-Companion: analyse, visualise, browse, query and share your homology clusters. 2018. ⟨hal-02788818⟩

Windpouire Esther Dzale Yeumo, Lydie Soler, Michael Alaux, Robert Bossy, Sebastien Carrere, et al.. Rapport de synthèse du chantier DOI. [Autre] 2014, 47 p. ⟨hal-02801364⟩

Windpouire Esther Dzale Yeumo, Lydie Soler, Sophie Aubin, Christine Boizot-Szantaï, Patrice Buche, et al.. Rapport d'étape chantier entrepôt et annuaire institutionnels pour les données de la recherche. [Autre] 2014, 18 p. ⟨hal-02801608⟩