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49

Curriculum vitae Patrice Baa-Puyoulet


Journal articles14 documents

  • Vincent Foray, François Renoz, Jérôme Ambroise, Patrice Baa-Puyoulet, Bertrand Bearzatto, et al.. At the Gate of Mutualism: Identification of Genomic Traits Predisposing to Insect-Bacterial Symbiosis in Pathogenic Strains of the Aphid Symbiont Serratia symbiotica. Frontiers in Cellular and Infection Microbiology, Frontiers, 2021, 11, ⟨10.3389/fcimb.2021.660007⟩. ⟨hal-03562624⟩
  • Nicolas Parisot, Carlos Vargas-Chávez, Clément Goubert, Patrice Baa-Puyoulet, Severine Balmand, et al.. The transposable element-rich genome of the cereal pest Sitophilus oryzae. BMC Biology, BioMed Central, 2021, 19 (1), pp.1-29. ⟨10.1186/s12915-021-01158-2⟩. ⟨hal-03432029⟩
  • François Renoz, Vincent Foray, Jérôme Ambroise, Patrice Baa-Puyoulet, Bertrand Bearzatto, et al.. At the Gate of Mutualism: Identification of Genomic Traits Predisposing to Insect-Bacterial Symbiosis in Pathogenic Strains of the Aphid Symbiont Serratia symbiotica. Frontiers in Cellular and Infection Microbiology, Frontiers, 2021, 11, pp.660007. ⟨10.3389/fcimb.2021.660007⟩. ⟨hal-03297041⟩
  • Jan Philip Oeyen, Patrice Baa-Puyoulet, Joshua Benoit, Leo Beukeboom, Erich Bornberg-Bauer, et al.. Sawfly genomes reveal evolutionary acquisitions that fostered the mega-radiation of parasitoid and eusocial Hymenoptera. Genome Biology and Evolution, Society for Molecular Biology and Evolution, 2020, 12 (7), pp.1099-1118. ⟨10.1093/gbe/evaa106⟩. ⟨hal-02618254⟩
  • François Renoz, Jérôme Ambroise, Bertrand Bearzatto, Patrice Baa-Puyoulet, Federica Calevro, et al.. Draft Genome Sequences of Two Cultivable Strains of the Bacterial Symbiont Serratia symbiotica. Microbiology Resource Announcements, American Society for Microbiology, 2020, 9 (10), pp.e01579-19. ⟨10.1128/MRA.01579-19⟩. ⟨hal-02505875⟩
  • Jessika Consuegra, Théodore Grenier, Patrice Baa-Puyoulet, Isabelle Rahioui, Houssam Akherraz, et al.. Drosophila-associated bacteria differentially shape the nutritional requirements of their host during juvenile growth. PLoS Biology, Public Library of Science, 2020, 18 (3), pp.e3000681. ⟨10.1371/journal.pbio.3000681⟩. ⟨hal-02919023⟩
  • Claude Rispe, Fabrice Legeai, Paul Nabity, Rosa Fernández, Arinder Arora, et al.. The genome sequence of the grape phylloxera provides insights into the evolution, adaptation, and invasion routes of an iconic pest. BMC Biology, BioMed Central, 2020, 18 (1), pp.90. ⟨10.1186/s12915-020-00820-5⟩. ⟨hal-02917617⟩
  • Kristen Panfilio, Iris Vargas Jentzsch, Joshua Benoit, Deniz Erezyilmaz, yuichiro Suzuki, et al.. Molecular evolutionary trends and feeding ecology diversification in the Hemiptera, anchored by the milkweed bug genome. Genome Biology, BioMed Central, 2019, 20 (1), pp.64. ⟨10.1186/s13059-019-1660-0⟩. ⟨hal-02139052⟩
  • Stefano Colella, Nicolas Parisot, Pierre Simonet, Karen Gaget, Gabrielle Duport, et al.. Bacteriocyte Reprogramming to Cope With Nutritional Stress in a Phloem Sap Feeding Hemipteran, the Pea Aphid Acyrthosiphon pisum. Frontiers in Physiology, Frontiers, 2018, 9, pp.1498. ⟨10.3389/fphys.2018.01498⟩. ⟨hal-01905508⟩
  • Thomas C. Mathers, yazhou Chen, Gemy Kaithakottil, Fabrice Legeai, Sam T. Mugford, et al.. Erratum to: Rapid transcriptional plasticity of duplicated gene clusters enables a clonally reproducing aphid to colonise diverse plant species. Genome Biology, BioMed Central, 2017, 18 (1), pp.63. ⟨10.1186/s13059-017-1202-6⟩. ⟨hal-01588181⟩
  • Thomas C. Mathers, yazhou Chen, Gemy Kaithakottil, Fabrice Legeai, Sam T. Mugford, et al.. Rapid transcriptional plasticity of duplicated gene clusters enables a clonally reproducing aphid to colonise diverse plant species. Genome Biology, BioMed Central, 2017, 18 (1), pp.27. ⟨10.1186/s13059-016-1145-3⟩. ⟨hal-01500475⟩
  • Patrice Baa-Puyoulet, Nicolas Parisot, Gérard Febvay, Jaime Huerta-Cepas, Augusto F Vellozo, et al.. ArthropodaCyc: a CycADS powered collection of BioCyc databases to analyse and compare metabolism of arthropods. Database - The journal of Biological Databases and Curation, Oxford University Press, 2016, pp.1-9. ⟨10.1093/database/baw081⟩. ⟨hal-01352558⟩
  • Andréane Rabatel, Gérard Febvay, Karen Gaget, Gabrielle Duport, Patrice Baa-Puyoulet, et al.. Tyrosine pathway regulation is host-mediated in the pea aphid symbiosis during late embryonic and early larval development. BMC Genomics, BioMed Central, 2013, 14 (1), pp.235. ⟨10.1186/1471-2164-14-235⟩. ⟨hal-00824527⟩
  • Augusto F Vellozo, Amélie S Véron, Patrice Baa-Puyoulet, Jaime Huerta-Cepas, Ludovic Cottret, et al.. CycADS: an annotation database system to ease the development and update of BioCyc databases.. Database - The journal of Biological Databases and Curation, Oxford University Press, 2011, 2011, pp.bar008. ⟨10.1093/database/bar008⟩. ⟨hal-00632965⟩

Conference papers19 documents

  • Mélanie Ribeiro Lopes, Jousselin Emmanuelle, Patrice Baa-Puyoulet, C. Huygens, Karen Gaget, et al.. Analysis of the inhibitor of aPoptosis (IAP) repertoire in insects reveals a complex pattern of gene losses and amplifications. Incontri di diversità delle forme e degli animali, Università di Pisa, 2021, Pisa, Italy. ⟨hal-03514196⟩
  • Hubert Charles, Patrice Baa-Puyoulet. The challenge of annotating and reconstructing metabolic networks for the comprehension of the physiology of aphids and other insects. 2. Annual meeting of Japan-France Plant-Insect-Symbiont Interaction network (PISI-net), Nov 2019, Le Rheu, France. ⟨hal-03513078⟩
  • Federica Calevro, Nicolas Parisot, Mélanie Ribeiro Lopes, Stefano Colella, Karen Gaget, et al.. Rôle clé du bactériocyte dans la résilience du puceron aux stress nutritionnels. 11ème Réunion du Réseau Français de Biologie Adaptative des Pucerons et Organismes Associés (BAPOA), Nov 2018, Rennes, France. ⟨hal-03514026⟩
  • Patrice Baa-Puyoulet, Hubert Charles, Federica Calevro. AphidCyc, une collection de bases de données métaboliques dédiée à l'étude et la comparaison du métabolisme chez les pucerons. 11ème Réunion du Réseau Français de Biologie Adaptative des Pucerons et Organismes Associés (BAPOA), Nov 2018, Rennes, France. ⟨hal-03510642⟩
  • Hubert Charles, Patrice Baa-Puyoulet. Atelier Bases de données génomiques et métaboliques : présentation des bases BioCyc développées dans l’UMR BF2I. 11ème Réunion du Réseau Français de Biologie Adaptative des Pucerons et Organismes Associés (BAPOA),, Nov 2018, Rennes, France. ⟨hal-03510598⟩
  • Nicolas Parisot, Mélanie Ribeiro Lopes, Karen Gaget, Marie-Gabrielle Duport, Patrice Baa-Puyoulet, et al.. Bacteriocyte reprogramming to cope with nutritional stress in a phloem sap feeding hemipteran, the pea aphid Acyrthosiphon pisum. France-Israel PRC Meeting – The role of metabolic interactions in shaping the bacterial endosymbiotic community of Hemyptera, Nov 2018, Villeurbanne, France. ⟨hal-03514051⟩
  • Nicolas Parisot, Stefano Colella, Mélanie Ribeiro Lopes, Karen Gaget, Marie-Gabrielle Duport, et al.. Bacteriocyte reprogramming to cope with nutritional stress in a phloem sap feeding hemipteran, the pea aphid Acyrthosiphon pisum. International Partner Days, Oct 2018, Villeurbanne (INSA-Lyon), France. ⟨hal-03514034⟩
  • Mélanie Ribeiro Lopes, Pierre Simonet, Karen Gaget, Marie-Gabrielle Duport, Severine Balmand, et al.. Effecteurs et inhibiteurs de l’apoptose chez le puceron du pois : annotation et implication dans la mort cellulaire bactériocytaire. 10. Réunion du Réseau Français de Biologie Adaptative des Pucerons et Organismes Associés (BAPOA), Nov 2017, Colmar, France. ⟨hal-03506807⟩
  • Hubert Charles, Federica Calevro, Gérard Febvay, Patrice Baa-Puyoulet, Marie-Gabrielle Duport, et al.. Systems biology of symbiosis: from partners’ genomics to physiology of interactions. First Meeting of the PRC Israel-France, Sep 2016, Villeurbanne, France. ⟨hal-03506791⟩
  • Nicolas Parisot, Pierre Simonet, Karen Gaget, Marie-Gabrielle Duport, Patrice Baa-Puyoulet, et al.. Life history traits and tissue-specific gene expression changes underlying the symbiotic pea aphid resilience to a tyrosine and phenylalanine depleted diet. 9. Réunion du Réseau Français de Biologie Adaptative des Pucerons et Organismes Associés (BAPOA), Nov 2016, Amiens, France. ⟨hal-03506796⟩
  • Patrice Baa-Puyoulet, Mathieu Labernardiere, Nicolas Parisot, Jean-Pierre Gauthier, Gérard Febvay, et al.. From SymbAphidBase to SymbAphidCyc: two companion databases to study and compare aphid symbionts from genomes to metabolic pathways. JOBIM 2015 - Journées Ouvertes Biologie Informatique Mathématiques, Université d'Auvergne - Clermont-Ferrand I (UdA). FRA., Jul 2015, Clermont-Ferrand, France. 1 p. ⟨hal-01208786⟩
  • Mathieu Labernardiere, Patrice Baa-Puyoulet, Jean-Pierre Gauthier, Gérard Febvay, Federica Calevro, et al.. SymbAphidBase : une base de données nouvelle dédiée aux symbiotes de pucerons pour stocker et visualiser les génomes séquencés en standardisant leurs annotations. 7. Rencontres du réseau Biologie Adaptative des Pucerons et Organismes Associés (BAPOA), Réseau Biologie Adaptative des Pucerons et des Organismes Associés (BAPOA). Le Rheu, FRA., Nov 2014, Avignon, France. 1 p. ⟨hal-01208785⟩
  • Marjolaine Rey, Floriant Bellvert, Marie-Gabrielle Duport, Patrice Baa-Puyoulet, Federica Calevro, et al.. Analyse métabolomique de la symbiose entre le puceron Acyrthosiphon pisum et la bactérie Buchnera aphidicola. 7èmes Journées Scientifiques du Réseau Français de Métabolomique et Fluxomique, Jun 2013, Amiens, France. ⟨hal-03506751⟩
  • Marjolaine Rey, Floriant Bellvert, Marie-Gabrielle Duport, Patrice Baa-Puyoulet, Federica Calevro, et al.. Symbiose puceron – Buchnera : approche métabolomique chez Acyrthosiphon pisum. 6èmes journées du Réseau BAPOA (Biologie Adaptative des Pucerons et Organismes Associés, Oct 2013, Montpellier, France. ⟨hal-03506758⟩
  • Patrice Baa-Puyoulet, Augusto F. Vellozo, Jaime Huerta-Cepas, Gérard Febvay, Toni Gabaldon, et al.. The CycADS annotation database system to support the development and update of enriched BioCyc databases. Development of ad hoc BioCyc DB : AcypiCyc, ArthopodaCyc. 13. Journées Ouvertes en Biologie, Informatique et Mathématiques, Institut National de Recherche en Informatique et en Automatique (INRIA). Rennes, FRA., Jul 2012, Rennes, France. Pagination multiple. ⟨hal-02747415⟩
  • Andréane Rabatel, Gérard Febvay, Karen Gaget, Gabrielle Duport, Nadia Bendridi, et al.. Integration of metabolic pathways and host regulation in symbiosis: tyrosine and cuticular protein biosynthesis during the pea aphid embryonic development. Sixth International Symposium on Molecular Insect Science, 2011, Amsterdam, Netherlands. ⟨hal-00748785⟩
  • Patrice Baa-Puyoulet, Augusto F Vellozo, Jaime Huerta-Cepas, Gérard Febvay, T. Gabaldon, et al.. ArthropodaCyc: a BioCyc database powered by CycADS to study and compare the metabolism of arthropods. 5th Annual Arthropod Genomics Symposium "Arthropod Genomics 2011: Exploring Diversity, Relating Similarity", Jun 2011, Kansas City, United States. ⟨hal-00748601⟩
  • Hubert Charles, Stefano Colella, Federica Calevro, Gérard Febvay, yvan Rahbé, et al.. Exploration génomique et fonctionnelle des insectes et de leurs partenaires symbiotiques. Journée Sciences Croisées "Modélisation et Sciences Numériques : nouveaux instruments et opportunités", Institut National des Sciences Appliquées de Lyon (INSA Lyon). Conseil Scientifique de l'INSA, Villeurbanne, FRA., Oct 2010, Villeurbanne, France. n. p. ⟨hal-02804281⟩
  • A. Vellozo, Patrice Baa-Puyoulet, A. Veron, Jaime Huerta-Cepas, Ludovic Cottret, et al.. CycADS: an annotation management system for the development and update of BioCyc metabolic network databases. 1st International Workshop on Information Systems for Insect Pests, Rennes, FRANCE, 2009, France. ⟨hal-00496032⟩

Poster communications16 documents

  • Patrice Baa-Puyoulet, Nicolas Parisot, Sergio Peignier, Federica Calevro, Hubert Charles. From genomes to metabolism reconstruction: companion collections of databases to study symbiotic interactions between insects and their bacterial symbionts. 13. Réunion du Réseau Français de Biologie Adaptative des Pucerons et Organismes Associés (BAPOA), 2020, Nice (virtuel), France. ⟨hal-03514174⟩
  • Nicolas Parisot, Stefano Colella, Pierre Simonet, Karen Gaget, Marie-Gabrielle Duport, et al.. Bacteriocyte reprogramming to maintain organismal homeostasis under nutritional stress in aphid symbiosis. UK-France joint Meeting Aphid Special Interest Group – BAPOA, Apr 2019, Rothamsted, United Kingdom. ⟨hal-03513048⟩
  • Carlos Vargas-Chavez, Nicolas Parisot, C. Goubert, Patrice Baa-Puyoulet, Severine Balmand, et al.. Evaluating the essentiality of the primary endosymbiont of the rice weevil Sitophilus oryzae through genome analysis. VI Meeting of the Spanish Society for Evolutionary Biology (SESBE), Jan 2018, Palma de Mallorca, Spain. ⟨hal-03514015⟩
  • Nicolas Parisot, Stefano Colella, Pierre Simonet, Karen Gaget, Marie-Gabrielle Duport, et al.. Bacteriocyte reprogramming to maintain organismal homeostasis under nutritional stress in aphid symbiosis. XIth European Congress of Entomology, Jul 2018, Naples, Italy. ⟨hal-03509885⟩
  • Carlos Vargas-Chavez, Nicolas Parisot, Clément Goubert, Patrice Baa-Puyoulet, Severine Balmand, et al.. The draft genome sequence of the rice weevil Sitophilus oryzae as a model to explore the host-symbiont interactions in a nascent stage of endosymbiosis. Journées Ouvertes Biologie Informatique Mathématiques (JOBIM), Jun 2016, Lyon, France. ⟨hal-03506786⟩
  • Patrice Baa-Puyoulet, Augusto Vellozo, Jaime Huerta-Cepas, Gérard Febvay, Federica Calevro, et al.. Annotating arthropods genome to study and compare their metabolism: the ArthropodaCyc collection of Cyc databases powered by CycADS. 13. European Conference on Computational Biology (ECCB), Sep 2014, Strasbourg, France. 1 p., 2014. ⟨hal-02798101⟩
  • Mathieu Labernardiere, Patrice Baa-Puyoulet, Jean-Pierre Gauthier, Gérard Febvay, Federica Calevro, et al.. SymbAphidBase: a new database dedicated to aphid symbionts to store novel sequenced genomes and standardize their annotations. 13. European Conference on Computational Biology (ECCB), Sep 2014, Strasbourg, France. 1 p., 2014. ⟨hal-02798649⟩
  • Patrice Baa-Puyoulet, Stefano Colella, Augusto Vellozo, Jaime Huerta-Cepas, Gérard Febvay, et al.. « ArthropodaCyc » : une collection de bases de données enrichies à l’aide de CycADS pour étudier et comparer le métabolisme des arthropodes.. 17. Colloque de Biologie de l’Insecte - CBI-2013, Oct 2013, Montpellier, France. ⟨hal-03506713⟩
  • Patrice Baa-Puyoulet, Augusto Vellozo, Jaime Huerta-Cepas, Gérard Febvay, Federica Calevro, et al.. The CycADS annotation database system to support the development and update of enriched BioCyc databases: development of ad hoc BioCyc DB (AcypiCyc, ArthropodaCyc. 8. Meeting of the International Aphid Genomics Consortium, Jan 2013, Harpenden, United Kingdom. ⟨hal-03506707⟩
  • Patrice Baa-Puyoulet, Augusto Vellozo, Jaime Huerta-Cepas, Gérard Febvay, Toni Gabaldon, et al.. The CycADS annotation database system to support the development and update of enriched BioCyc databases. Development of ad hoc BioCyc DB : AcypiCyc, ArthopodaCyc. 5. Réunion Réseau BAPOA, Nov 2012, Villeurbanne, France. 2012. ⟨hal-02806092⟩
  • Andréane Rabatel, Gérard Febvay, Karen Gaget, Marie-Gabrielle Duport, Nadia Bendridi, et al.. Integration of metabolic pathways and host regulation in symbiosis: tyrosine and cuticular protein biosynthesis during the pea aphid embryonic development. 6. International Symposium on Molecular Insect Science, Oct 2011, Amsterdam, Netherlands. Elsevier, 2011,  . ⟨hal-02747829⟩
  • Andréane Rabatel, Gérard Febvay, Karen Gaget, Marie-Gabrielle Duport, Nadia Bendridi, et al.. Integration of metabolic pathways and host regulation in symbiosis: tyrosine and cuticular protein biosynthesis during the pea aphid embryonic development. 4. Réunion Réseau BAPOA, Nov 2011, Paris, France. 1 p., 2011. ⟨hal-02805925⟩
  • Patrice Baa-Puyoulet, Augusto Vellozo, Jaime Huerta-Cepas, Gérard Febvay, Toni Gabaldon, et al.. “ArthropodaCyc”: a BioCyc database powered by CycADS to study and compare the metabolism of arthropods. 5. Annual Arthropod Genomics Symposium “Arthropod Genomics 2011: Exploring Diversity, Relating Similarity”, Jun 2011, Kansas City, United States. 33 p., 2011, Fifth Annual Arthropod Genomics Symposium. ⟨hal-02749029⟩
  • Patrice Baa-Puyoulet, Augusto Vellozo, Jaime Huerta-Cepas, Gérard Febvay, Toni Gabaldon, et al.. Using the “CycADS” annotation management system to develop a BioCyc metabolic network database for sequenced arthropods genomes: first steps towards “ArthropodsCyc”. Rencontres bioinformaticiens et statisticiens de l’INRA, Mar 2011, Versailles, France. 1 p., 2011. ⟨hal-02806205⟩
  • Augusto Vellozo, Patrice Baa-Puyoulet, Jaime Huerta-Cepas, Gérard Febvay, Federica Calevro, et al.. Using the “CycADS” annotation management system to develop a BioCyc metabolic network database for sequenced arthropods genomes: first steps towards “ArthropodsCyc”. 4. Annual Arthropod Genomics Symposium on “Arthropod Genomics: New Approaches and Outcomes”, Jun 2010, Kansas City, United States. 45 p., 2010, Fourth Annual Arthropod Genomics Symposium. ⟨hal-02753908⟩
  • Fabrice Legeai, Stefano Colella, Jaime Huerta-Cepas, Jean-Pierre Gauthier, Augusto Vellozo, et al.. A tale of genome, annotations, metabolism and phylogenomics: the pea aphid genome resources. 10. Cold Spring Harbor Laboratory / Wellcome Trust conference on Genome Informatics, Sep 2010, Hinxton, United Kingdom. 1 p., 2010. ⟨hal-01231276⟩