Publications

 

Citation system

Complete references to use as signature for the authors or co-authors ABiMS.

Principle : Downward addressing : Organism, laboratory, team and minimal address: postal code, town, country

  • CNRS officer :

CNRS, UPMC, FR2424, ABiMS, Station Biologique, 29680, Roscoff, France

  • UPMC officer :

UPMC, CNRS, FR2424, ABiMS, Station Biologique, 29680, Roscoff, France

JOBIM format

ABiMS, FR2424 CNRS-UPMC, Station Biologique, Place Georges Teissier, 29680, Roscoff, France

Acknowledgement example

The authors thanks the Roscoff Bioinformatic platform : ABiMS (http://abims.sb-roscoff.fr)  for providing computational resources/analysis support/etc... .

2017

Publications

  • Ritter A., Cabioch L., Brillet-Guéguen L., Corre E., Cosse A., Dartevelle L., Duruflé H., Fasshauer C., Goulitquer S., Thomas F., Correa J. A., Potin P, Faugeron S. and Leblanc C. (2017). Herbivore-induced chemical and molecular responses of the kelps Laminaria digitata and Lessonia spicata. PLOS ONE 12(3): e0173315. doi: 10.1371/journal.pone.0173315
  • Paul Simion, Hervé Philippe, Denis Baurain, Muriel Jager, Daniel J. Richter, Arnaud Di Franco, Béatrice Roure, Nori Satoh, Éric Quéinnec, Alexander Ereskowsky, Pascal Lapébie, Erwan Corre, Frédéric Delsuc, Nicole King, Gert Wörheide & Michaël Manuel Tackling the conundrum of metazoan phylogenomics: sponges are sister to all other animals. Current Biology 27(7) · March 2017. DOI: 10.1016/j.cub.2017.02.031
  • Stephane L'Haridon, Erwan Corre, Yue Guan, Manikandan Vinu, Violetta La Cono, Michail Yakimov, Ulrich Stingl, Laurent Toffin, and Mohamed Jebbar. 2017. Complete genome sequence of Methanohalophilus halophilus DSM 3094T. Genome Announcements 5(7) · February 2017. DOI: 10.1128/genomeA.01604-16
     

Oral communications

 

Posters

 


2016

Publications

  • Alexandre Cormier, Komlan Avia, Lieven Sterck, Thomas Derrien, Valentin Wucher, Gwendoline Andres;,Misharl Monsoor, Olivier Godfroy, Agnieszka Lipinska, Marie-Mathilde Perrineau, Yves Van De Peer, Christophe Hitte, Erwan Corre, Susana M. Coelho, J. Mark Cock. 2016. "Re-annotation, improved large-scale assembly and establishment of a catalogue of non-coding loci for the genome of the model brown alga Ectocarpus. New Phytologist. November 2016. DOI: 10.1111/nph.14321

  • Tristan Barbeyron, Loraine Brillet-Guéguen, Wilfrid Carré, Cathelène Carrière, Christophe Caron, Mirjam Czjzek, Mark Hoebeke and Gurvan Michel. Matching The Diversity Of Sulfated Biomolecules: Creation Of A Classification Database For Sulfatases Reflecting Their Substrate Specificity. PLOS ONE 11(10): e0164846. doi: 10.1371/journal.pone.0164846

  • S. Djebali, V. Wucher, S. Foissac, C. Hitte, E. Corre, and T. Derrien, “Bioinformatics Pipeline for Transcriptome Sequencing Analysis,” in Methods in Molecular Biology, vol. 1468, no. 14, New York, NY: Springer New York, 2016, pp. 201–219.

  • Kim Huenerlage, Kévin Cascella, Erwan Corre, Lola Toomey, Friedrich Buchholz, Jean-Yves Toullec. The arctoboreal krill species Thysanoessa inermis and climate change: Linking transcriptomics and physiological responses to variations in environmental temperatures. Cell Stress and Chaperones August 2016 DOI: 10.1007/s12192-016-0720-6

  • Bussard A, Corre E, Hubas C, Duvernois-Berthet E, Le Corguillé G, Jourdren L, Coulpier F, Claquin P, Lopez PJ. Physiological adjustments and transcriptome reprogramming are involved in the acclimation to salinity gradients in diatoms. Environ Microbiol. 2016 May 28. doi: 10.1111/1462-2920.13398.

  • K. Wang, C. Del Castillo, E. Corre, E. Pales-Espinosa, and B. Allam. Clam focal and systemic immune responses to QPX infection revealed by RNA-seq technology. BMC Genomics, vol. 17, no. 1, p. 146, 2016

  • Varet H, Brillet-Guéguen L, Coppée J-Y, Dillies M-A (2016) SARTools: A DESeq2- and EdgeR-Based R Pipeline for Comprehensive Differential Analysis of RNA-Seq Data. PLoS ONE 11 (6): e0157022. doi:10.1371/journal.pone.0157022

Oral communications

  • P. Potin, E. Corre and IDEALG WP leaders  (2016) Ten years of French and EU integrative research projects to capitalize on the breakthroughs  in algal biotechnology. Bioinformatics, Metabolic Engineering and Genomics in Biotechnological Applications. V Workshop CeBiB – 30 Nov–2 Dec 2016, Puerto Varas Chili. invited plenary lecture.
  • E. Corre. Les outils de bioinformatique au service de l’exploration des génomes d’algues marines.IDEALG Annual meeting Lorient France, 7 nov. 2016
  • E. Corre. La plate-forme bioinformatique ABiMS : un outil et des services dédiés au service du traitement de la donnée en biotechnologies marines. conférence Biosciences en Finistère. 12 octobre 2016 CCI de Brest
  • Loraine Brillet-Guéguen, Misharl Monsoor. Environment for analysis and annotation of macro algae genomes, infrastructure example on the ABiMS platform with GMOD tools. AG IDEALG, 8-9 November 2016, Lorient
  • Laure Guillou, Erwan Corre , Phuong Le, Dominique Marie, Estelle Bigeard ,Yves Van der Peer ,Stephane Rombauts ,Patrick Winker, Betina Porcel, Sarah Faraht.The paradox of being a specialist for a parasite of marine blooming dinoflagellates .A New Age of Discovery for Aquatic Microeukaryotes.EMBL Heidelberg, Germany Tuesday 26 January - Friday 29 January 2016

Posters

  • Arnaud Meng, Lucie Bittner, Stéphane Le Crom, Fabrice Not and Erwan Corre. De novo transcriptome assembly dedicated pipeline and its specific application to non-model, marine planktonic organisms. ECCB2016
  • L. Jacquemot, J. P. Monjol, Y. Bettarel, E. Corre, C. Ferrier-Pagès, T. Bouvier, C. Desnues, A-C. Baudoux.Phage therapy for diseased corals? Potential of a novel giant virus as biocontrol agent against coral pathogens.2016. 13th International Coral Reef Symposium, HAWAI'I, 19-24 June, 2016
  • Arnaud Meng, Lucie Bittner, Stéphane Le Crom, Fabrice Not and Erwan Corre. De novo transcriptome assembly dedicated pipeline and its specific application to non-model, marine planktonic organisms. ECCB2016
  • Lebreton Annie, Meslet-Cladière Laurence, Jany Jean-Luc, Barbier Georges, Corre Erwan. Etude comparative des génomes et transcriptomes de Mucor spp.. JOBIM 2016  Lyon 28 au 30 juin
  • Monsoor Misharl, Eric Fontanillas, Julie Baffard, Pierre-Guillaume Brun, Erwan Corre, Christophe Caron, Didier Jollivet. « AdaptSearch » : a galaxy pipeline for the search of adaptive mutations and positively selected genes from RNASeq orthologs . JOBIM 2016  Lyon 28 au 30 juin


2015

Publications

  • Alexis Dereeper, Felix Homa, Gwendoline Andres, Guilhem Sempere, Gautier Sarah, Yann Hueber, Jean-François Dufayard and Manuel Ruiz. 2015. SNiPlay3: a web-based application for exploration and large scale analyses of genomic variations. Nucl. Acids Res. doi: 10.1093/nar/gkv351

  • Ronan Lagadec, Laurent Laguerre, Arnaud Menuet, Anis Amara, Claire Rocancourt, Pierre Péricard, Benoît G. Godard, Maria Celina Rodicio, Isabel Rodriguez-Moldes, Hélène Mayeur, Quentin Rougemont, Sylvie Mazan & Agnès Boutet. 2015. The ancestral role of nodal signalling in breaking L/R symmetry in the vertebrate forebrain. Nature Communications 6,  doi:10.1038/ncomms7686

  • James E. Tarver, Alexandre Cormier, Natalia Pinzón, Richard S. Taylor, Wilfrid Carré, Martina Strittmatter, Hervé Seitz, Susana M. Coelho and J. Mark Cock. microRNAs and the evolution of complex multicellularity: identification of a large, diverse complement of microRNAs in the brown alga Ectocarpus. Nucl. Acids Res. (27 July 2015) 43 (13): 6384-6398.; doi: 10.1093/nar/gkv578

  • Dominique Boeuf, Stephane Audic, Loraine Brillet-Gueguen, Christophe Caron, Christian Jeanthon. 2015. MicRhoDE: a curated database for the analysis of microbial rhodopsin diversity and evolution Database 2015; doi: 10.1093/database/bav080

  • Marie Robert, Céline Zatylny-Gaudin, Vincent Fournier, Erwan Corre, Gildas Le Corguillé, Benoît Bernay, Joël Henry. (2015). Molecular characterization of peptide fractions of a Tilapia (Oreochromis niloticus) by-product hydrolysate and in vitro evaluation of antibacterial activity. Process Biochemestry. 12/2014; DOI:10.1016/j.procbio.2014.12.022

  • V. Cornet,B.Houyvet, J.Henry, B.Bernay,E.Corre, G. Le Corguillé, C. Zatylny-Gaudin. The Toll/NF-<kappa>B pathway in cuttlefish symbiotic accessory nidamental gland. Developmental Comparative Immunology Volume 53, Issue 1, November 2015,Pages 42–46

  • Zatylnyc-Gaudin Celine, Cornet Valérie, Leduc Alexandre, Zanuttini Bruno, Corre Erwan, Le Corguillé Gildas, Bernay Benoît, Garderes Johan, Kraut Alexandra, Couté Yohann & Henry Joël. Neuropeptidome of the cephalopod Sepia officinalis identification tissue mapping and expression pattern of neurotransmitters and neurohormones during egg-laying. Journal of Proteome Research. Decembre 2015 DOI: 10.1021/acs.jproteome.5b00463

  • Gregory Farrant, Mark Hoebeke, Frédéric Partensky, Gwendoline Andres, Erwan Corre and Laurence Garczarek. WiseScaffolder : an algorithm for the semi-automatic scaffolding of Next Generation Sequencing data. BMC Bioinformatics. 2015; 16(1): 281. doi: 10.1186/s12859-015-0705-y

  • Barbara Gasse; Xi Liu, Erwan Corre, Jean-Yves Sire. Amelotin gene structure and expression during enamel formation in the opossum Monodelphis domestica. PLoS One. 2015; 10(7): e0133314.

  • Cornet V, Henry J, Goux D, Duval E, Bernay B, Le Corguillé G, Corre E, et al. (2015) How Egg Case Proteins Can Protect Cuttlefish Offspring? PLoS One 10(7): e0132836. doi:10.1371/journal.pone.0132836

  • Simon M. Dittami, Laëtitia Duboscq-Bidot, Morgan Perennou, Angélique Gobet, Erwan Corre, Catherine Boyen, Thierry Tonon. Host-microbe interactions as a driver of brown algal acclimation to salinity gradients. The ISME Journal , (26 June 2015) | doi:10.1038/ismej.2015.104

  • Sergio Balzano, Erwan Corre, Johan Decelle, Roberto Sierra, Patrick Wincker, Corinne Da Silva, Julie Poulain, Jan Pawlowski, Fabrice Not. Transcriptome analyses to investigate symbiotic relationships between marine protists. Front Microbiol. 2015 Mar 17;6:98, section Microbial Physiology and Metabolism

Oral communications

  • Olivier Inizan, Gildas Le Corguillé et al. An initiative to federate the galactic community in France: the IFB Galaxy Working Group. GCC2015 Norwich. 7-8 of July

  • Thierry Tonon et al. Comparative analysis of marine and freshwater brown algae: insights into the biology and evolution of an extremophile Ectocarpus (9OR.14) EPC6 Londres. 23-28 August 2015

  • Simon Dittami et al. Microbiomes impact algal acclimation: the example of a freshwater strain of Ectocarpus (4KN.2) EPC6 Londres. 23-28 August 2015

  • Andres Gutierrez-Rodriguez, Daniel Richter, Arnaud Meng, Lucie Bittner, Erwan Corre, Fabrice Not. A physio-molecular integrative approach to assess global patterns of microalgal and photosymbiotic oxidative stress in marine environment. Conferences Jacques Monod. Marine Eco-Systems Biology. Roscoff (Brittany), France June 22-26, 2015.

  • Simon M. Dittami , Laëtitia Duboscq-Bidot , Morgan Perennou , Angélique Gobet , Erwan Corre , Thierry Tonon, Boyen Catherine. The association of marine bacteria with the brown alga Ectocarpus: a stress-resistant holobiont. Conferences Jacques Monod. Marine Eco-Systems Biology. Roscoff (Brittany), France June 22-26, 2015.

  • V. Cornet, B.Houyvet, J.Henry, D.Goux, E. Duval, B.Bernay, E.Corre, G. Le Corguillé, C. Zatylny-Gaudin. How cuttlefish protect their offsprin? Annual meeting of the society of Experimental Biology 30 june –3 july 2015, Pragues (Czech Republic).

  • C Zatylny-Gaudin, V. Cornet, M. Endress, B. Houyvet, B. Bernay, G. Le Corguillé, E. Corre, J. Henry. The impact of “omics” approaches in the understanding of reproduction and predation in the cuttlefish Sepia officinalis. Annual meeting of the society of Experimental Biology 30 june –3 july 2015, Pragues (Czech Republic). Communication affichée

  • V. Cornet, B.Houyvet, J.Henry, , B.Bernay, E.Corre, G. Le Corguillé, C. Zatylny-Gaudin. The Toll/NF-κB pathway: a key to beneficial bacterial symbiosis in cuttlefish reproductive glands. Annual meeting of the society of Experimental Biology 30 june –3 july 2015, Pragues (Czech Republic).

  • Joël Henry, Valérie Cornet, Alexandre Leduc, Bruno Zanuttini, Erwan Corre, Gildas Le Corguillé, Benoît Bernay, A Kraut, Céline Zatylny-Gaudin . Caractérisation du neuropeptidome de la seiche Sepia officinalis : identification des neuropeptides impliqués dans la ponte. 19ème Congrès du Groupe Français des Peptides et des Protéines .17-22 mai 2015 . Portbail, Normandie, France

  • Marie Robert, Alexandre Leduc, CéLine Zatylny-Gaudin, Benoit Bernay, Erwan Corre, Gildas Le Corguillé, Vincent Fournier et Joël Henry. Caractérisation structurale et fonctionnelle de deux hydrolysats fonctionnels destinés à l’alimentation d’espèces aquacoles. 19ème Congrès du Groupe Français des Peptides et des Protéines .17-22 mai 2015 . Portbail, Normandie, France.

  • V. Cornet, J. Henry, Didier Goux, E. Duval, E. Corre, G. Le Corguillé, B. Bernay, C. Zatylny-Gaudin. Les SepECPs : Une nouvelle classe de protéines capsulaires impliquées dans la protection de l’œuf chez Sepia officinalis.19ème Congrès du Groupe Français des Peptides et des Protéines .17-22 mai 2015 . Portbail, Normandie, France

  • Gildas Le Corguillé, Misharl Monsoor, W4M group et Christophe Caron, Workflow4Metabolomics : un environnement pour l’analyse à haut-débit. Gen2Bio. 26 mars. La Baule

  • Vaulot, D.; Lopes dos Santos, A.; Pollina, T.; Corre, E.: Picoeucaryote Metagenomes From The South-Eastern Pacific Ocean. ASLO 2015. Aquatic Sciences Meeting. 22-27 February 2015. Granada Spain

  • Lopes, A. S.; Gourvil, P.; Romac, S.; Pollina, T.; Corre, E.; Rodriguez-Hernandez, F.; Garrido, J. L.; Audic, S.; de Vargas, C.; Vaulot, D.: Ecological Diversity Of Prasinophytes Clade Vii, The Dominant Green Algae In Open Oceans. ASLO 2015. Aquatic Sciences Meeting: 22-27 February 2015. Granada Spain

  • L. Brillet-Guéguen, G. Le Corguillé, G. Andres, C. Caron, V. Loux. Planemo: no more crap! Galaxy Day 2015, Paris

Posters

  • Marie TREMBLAY-FRANCO, Cécile CANLET, Yann GUITTON, Daniel JACOB, Gildas LE CORGUILLE, Jean-François MARTIN, Misharl MONSOOR, Nils PAULHE, Mélanie PETERA, Camille VACQUIE, Franck GIACOMONI, Estelle PUJOS-GUILLOT, Christophe CARON, Etienne THEVENOT. New tools and workflows on W4M, The Galaxy matabolomic infrastructure. RFMF. 9 au 11 juin 2015. Lilles

  • Gildas Le Corguillé, Misharl Monsoor, W4M group et Christophe Caron, Workflow4Metabolomics : un environnement pour l’analyse à haut-débit. Gen2Bio. 26 mars 2015. La Baule

  • L. Brillet- Guéguen, C. Caron, V. Loux and the French Galaxy Working Group. A French Galaxy Tool Shed to federate the national infrastructures and offering quality assessed tools. Galaxy Community Conference 2015 et Actes Jobim 2015

  • Liu X, Corre E and Sire JY. Looking for Secretory Calcium-Binding PhosphoProtein (SCPP) transcripts in jaw transcriptomes. F1000Research 2015, 4:874 (doi: 10.7490/f1000research.1110625.1)

  • Arnaud Meng, Lucie Bittner, Anita Annamale, Fabrice Not, Erwan Corre, Stéphane Le Crom. De novo assembly pipeline for transcriptomic analysis. JOBIM 2015. F1000Research 2015, 4:533 (doi: 10.7490/f1000research.1110281.1)

  • Noé Pontoizeau, Simon M. Dittami, Irene Gonzàlez, André E. Minoche, Alexandre Cormier, Pierre Pericard, Erwan Corre, Catherine Boyen, Heinz Himmelbauer, Thierry Tonon. Comparative Analysis of Marine and  Freshwater Brown Algae: Insights Into the Biology and Evolution of an Extremophile Ectocarpus. Actes Jobim 2015

  • Caroline VERNETTE, Emma PRUDENT, Erwan CORRE, Gildas LE CORGUILLÉ, Christophe CARON. Enhanced Blast on Galaxy. Actes Jobim 2015


2014

Publications

  • Franck Giacomoni,†, Gildas Le Corguillé,†, Misharl Monsoor, Marion Landi, Pierre Pericard, Mélanie Pétéra, Christophe Duperier, Marie Tremblay-Franco, Jean-François Martin, Daniel Jacob, Sophie Goulitquer, Etienne A. Thévenot, Christophe Caron. (2014). Workflow4Metabolomics: A collaborative research infrastructure forin computational metabolomics. Bioinformatics, doi: 10.1093/bioinformatics/btu813

  • Robert, M., Zatylny-Gaudin, C., Fournier, V., Corre, E., Le Corguillé, G., Bernay, B., & Henry, J. (2014). Transcriptomic and peptidomic analysis of protein hydrolysates from the white shrimp (L. vannamei). Journal of Biotechnology, 186C, 30–37. doi:10.1016/j.jbiotec.2014.06.020

  • Sophia Ahmed, J Mark Cock, Eugenie Pessia, Remy Luthringer, Alexandre Cormier, Marine Robuchon, Lieven Sterck, Akira F Peters, Simon M Dittami, Erwan Corre, Myriam Valero, Jean-Marc Aury, Denis Roze, Yves Van de Peer, John Bothwell, Gabriel A B Marais, Susana M Coelho (2014). A Haploid System of Sex Determination in the Brown Alga Ectocarpus sp. Current Biology : CB, 24(17), 1945–1957.

  • Godard, B. G., Coolen, M., Le Panse, S., Gombault, A., Ferreiro-Galve, S., Laguerre, L., Ronan Lagadec, Patrick Wincker, Julie Poulain, Corinne Da Silva, Shigehiro Kuraku, Wilfrid Carre, Agnes Boutet and Sylvie Mazan. (2014). Mechanisms of endoderm formation in a cartilaginous fish reveal ancestral and homoplastic traits in jawed vertebrates. Biology Open, 3(11), 1098–1107. doi:10.1242/bio.20148037

  • Valérie Cornet, Joël Henry, Erwan Corre, Gildas Le Corguille, Bruno Zanuttini, Céline Zatylny-Gaudin. (2014). Dual role of the cuttlefish salivary proteome in defense and predation ». Journal of Proteomics, 108, 209–222. doi:10.1016/j.jprot.2014.05.019.

  • Gregory Carrier, Matthieu Garnier, Loic Le Cunff, Gael Bougaran, Ian Probert, Colomban De Vargas, Erwan Corre, Jean-Paul Cadoret and Bruno Saint-Jean. 2014 Comparative transcriptome of wild type and selected strains of the microalgae Tisochrysis lutea provides insights into the genetic basis, lipid metabolism and the life cycle. PLoS ONE, 9(1), e86889. doi:10.1371/journal.pone.0086889

  • Emmanuelle Pales Espinosa, Erwan Corre and Bassem Allam. 2014. Pallial mucus of the oyster Crassostrea virginica regulates the expression of putative virulence genes of its pathogen Perkinsus marinus. International Journal for Parasitology, 44(5), 305–317. doi:10.1016/j.ijpara.2014.01.006

  • Lipinska A, Cormier A, Luthringer R, Peters AF, Corre E, Gachon CMM, Cock JM, Coelho SM. 2014. Sexual dimorphism and the evolution of sex-biased gene expression in the brown alga Ectocarpus. Mol Biol Evol. 2015 Jun;32(6):1581-97

Oral communications

  • E. Corre. Marine microbial and metagenomic developement : Data & Tools. Réunion Bioinformatique microbienne - IFB et FG WP Variants - 25 Septembre 2014 - Institut Pasteur

  • Stéphane L’Haridon, Morgane Chalopin, Erwan Roussel, Erika Arcadi, Violetta La Cono, Mickael Yakimov, Erwan Corre, Laurent Toffin and Mohamed Jebbar. Methanohalophilus From Deep-sea Hypersaline Anoxic Lakes. Extremophiles 2014. 10th International Congress on Extremophiles ( Extremophiles 2014), September 7 - 11, 2014, Saint Petersburg, Russia (Poster).

  • Emma Prudent, Gildas Le Corguillé. Private BLAST: Using Galaxy. Lightning Talk. Galaxy Community Conference (GCC2014) June 30 July 2, 2014 Johns Hopkins University, Baltimore, USA

  • Stéphane Audic, Erwan Corre. Metagenic data analysis in the TARA project. Galaxy pipeline. WP2.7.2 France genomique. Metagenomic . 26 Mai 2014 -Lyon

  • Morales, Julia ; Chassé, Héloïse ; Boulben, Sandrine ; Corre, Erwann; Le Corguillé, Gildas ; Glippa, Virginie ; Coson, Bertrand ; Belle, Robert ; Mulner-Lorillon, Odile; Cormier, Patrick. Translatome analysis following fertilization. Developmental Biology of the Sea Urchin XXII. April 23-27, 2014. Woods Hole. USA

  • O. Godfroy, G. Le Corguillé, D. Scornet, M. Perennou, E. Corre, S. Coelho, M. Cock. EctoTILLING, a reverse genetic tool for Ectocarpus. Journées du PEPI IBIS les 31 mars et 1er avril 2014 à Paris

  • J Henry, V Cornet, A Leduc, B Zanuttini, E Corre, G Le Corguille, B Bernay, A Kraut, C Zatylny-Gaudin.Egg-Laying Regulation In The Cephalopod Sepia Officinalis: Identification And Mapping Of The Neuropeptidome Overexpressed During Spawning. 20th International Symposium On Regulatory Peptides (Regpep2014). September 7 - 10, 2014. Kyoto Garden Palace, Kyoto, Japan. Journal Of Molecular Neuroscience .Volume 53. Pages S142-S142.

  • C Zatylny-Gaudin, M Endress, V Cornet, B Bernay, E Corre, G Lecorguille, J Henry. Female Sex Peptides In The Control Of Cuttlefish Reproduction. 20th International Symposium On Regulatory Peptides (Regpep2014). September 7 - 10, 2014. Kyoto Garden Palace, Kyoto, Japan. Journal Of Molecular Neuroscience .Volume 53. Pages S144-S144.

  • L. Brillet-Guéguen, C. Caron, V. Loux, Groupe de Travail Galaxy IFB. Developing a sharing strategy for tools and workflows between France Génomique platforme with Galaxy. Galaxy Day 2014, Paris

Posters

  • Monsoor M., Le Corguille G., Landi M., Petera M., Pericard P., Duperier C., Tremblay-Franco M., Martin J., Goulitquer S., Thévenot E., Giacomoni F. and Caron C. (2014). workflow4metabolomics.org. Galaxy Community Conference 2014, Baltimore

  • Gregory Carrier, Matthieu Garnier, Loïc Le Cunff, Gaël Bougaran , Ian Probert, Colomban De Vargas, Erwan Corre, Catherine Rouxel, Aurélie Charrier, Bruno Saint-Jean and Jean-Paul Cadoret.. Comparative transcriptome of wild type and selected strains of the microalgae Tisochrysis lutea provides insights into the genetic basis, lipid metabolism and the life cycle. Alg’n’Chem - 3& March - 3 April 2014 - Montpellier France.


2013

Publications

  • Janouškovec J, Liu SL, Martone PT, Carré W, Leblanc C, Collén J, Keeling PJ. 2013.Evolution of red algal plastid genomes: ancient architectures, introns, horizontal gene transfer, and taxonomic utility of plastid markers.PLoS One. 2013;8(3):e59001. doi: 10.1371/journal.pone.0059001. Epub 2013 Mar 25.

  • Collén J., Porcel B., Carré W., Ball S., Chaparro C., Tonon T., Barbeyron T., Michel G., Noel B., Valentin K., Elias M., Artiguenave F., Arun A., Aury J.M., Barbosa-Neto J.F., Bothwell J.H., Bouget F.Y., Brillet L., Cabello-Hurtado F., Capella-Gutíerrez S., Charrier B., Cladière L., Cock J.M., Coelho S.M., Colleoni C., Czjzek M., Da Silva C., Delage L., Denoeud F., Deschamps P., Dittami S.M., Gabaldón T., Gachon C.M., Groisillier A., Hervé C., Jabbari K., Katinka M., Kloareg B., Kowalczyk N., Labadie K., Leblanc C., Lopez P.J., McLachlan D., Meslet-Cladiere L., Moustafa A., Nehr Z., Nyvall Collén P., Panaud O., Partensky F., Poulain J., Rensing S.A., Rousvoal S., Samson G., Symeonidi A., Weissenbach J., Zambounis A., Wincker P., Boyen C. 2013, Genome structure and metabolic features in the red seaweed Chondrus crispus shed light on evolution of the Archaeplastida. Proc Natl Acad Sci U S A. 2013 Mar 26;110(13):5247-52. doi: 10.1073/pnas.1221259110.

  • Gosselin P, Martineau Y, Morales J, Czjzek M, Glippa V, Gauffeny I, Morin E, Le Corguillé G, Pyronnet S, Cormier P, Cosson B. Tracking a refined eIF4E-binding motif reveals Angel1 as a new partner of eIF4E. Nucleic Acids Res. 2013 Sep;41(16):7783-92. doi: 10.1093/nar/gkt569.

  • Dupont, Samuel; Corre, Erwan; Li, Yanyan; Vacelet, Jean; Bourguet-Kondracki, Marie-Lise. 2013. First insights into the microbiome of a carnivorous sponge. FEMS Microbiol Ecol. 2013 Jul 12. doi: 10.1111/1574-6941.12178.

  • Toullec J-Y, Corre E, Bernay B, Thorne MAS, Cascella K, et al. (2013) Transcriptome and Peptidome Characterisation of the Main Neuropeptides and Peptidic Hormones of a Euphausiid: The Ice Krill, Euphausia crystallorophias. PLoS ONE 8(8): e71609. doi:10.1371/journal.pone.0071609

Oral communications

  • A.Cormier, J. Bothwell, M. Cock, E. Corre and S. Coelho (2013). Sex determination and differentiation in the brown alga Ectocarpus. Journées de la Société Phycologique de France, Roscoff – 16 au 18 décembre 2013.

  • Luthringer R., Cormier, A., Peters AF., Corre, E., Cock JM., Coelho SM. Evolution of sexual dimorphism in the brown algae. Journées de la Société Phycologique de France, Roscoff – 16 au 18 décembre 2013.

  • Simon M. Dittami, Laëtitia Duboscq-Bidot, Morgan Perennou, Erwan Corre, Catherine Boyen, Thierry Tonon. Diversity of bacteria associated to brown algae of the genus Ectocarpus and their importance for acclimation. Journées de la Société Phycologique de France, Roscoff – 16 au 18 décembre 2013.

  • Gildas Le Corguillé, Misharl Monsoor, Christophe Caron. GalaxyDay. Paris 04/12/2013.

  • Gildas Le Corguillé. Journée Axe Bioinformatique Biogenouest. Rennes. 29/11/2013.

  • Samuel Dupont, Erwan Corre, Alyssa Carré-Mlouka, Yanyan Li, Isabelle Domart- Coulon, Jean Vacelet and Marie-Lise Bourguet-Kondracki. EXPLORING THE MICROBIAL DIVERSITY ASSOCIATED WITH A CARNIVOROUS SPONGE. 14th International Symposium on Marine Natural Products / 8th European Conference on Marine Natural Products. September 15th - 20th, 2013 La Toja Island, Galicia Spain.

  • Gregory Farrant, Erwan Corre, Christophe Caron, Frédéric Partensky and Laurence Garczarek. Model organisms-oriented metagenomics: recruitment of Illumina reads on marine picocyanobacterial genomes. Session plénière Jobim 2013.

  • Ahmed S , Cock JM, Pessia E Luthringer R , Cormier A , Robuchon M , Sterck L , Peters AF, DittamiS ,Corre E,Valero,M,AuryJ-M,RozeD,VandePeerY ,BothwellJH,MaraisG, Coelho Susana M. Evolution of an ancient pair of haploid sex chromosomes. Jacques Monod conferences . Recent advences on the evolution of sex and genetic systemes. Roscoff, 22-26 may 2013.

  • Pierre Pericard, Gildas Le Corguillé, Urszula Czerwinska, Marion Landi, Franck Giacomoni, Christophe Duperier, Jean-François Martin, Sophie Goulitquer, Estelle Pujos-Guillot and Christophe Caron. A Small Step into Galaxy, a Faster Pace for Metabolomics. Session parallèle Jobim 2013 & RFMF Amiens 2013.

  • Gildas Le Corguillé, Pierre Pericard, Urszula Czerwinska, Marion Landi, Franck Giacomoni, Christophe Duperier, Jean-François Martin, Sophie Goulitquer, Estelle Pujos-Guillot and Christophe Caron. A Small Step into Galaxy, a Faster Pace for Metabolomics. Lightning Talk. Galaxy Community Conference (GCC2013) June 30 July 2, 2013 University of Oslo, Oslo, Norway

  • Antoine Gravot, Misharl Monsoor. Approches métabolomiques pour l’étude de la résistance quantitative à la hernie chez les crucifères. Journée Corsaire. Novembre 2013. Rennes

Posters

  • Samuel DUPONT , Erwan CORRE , Isabelle DOMART-COULON, Yan-yan LI , Jean VACELET and Marie-Lise BOURGUET-KONDRACKI. EXPLORING THE MICROBIAL DIVERSITY IN THE MARINE CARNIVOROUS SPONGE ASBESTOPLUMA HYPOGEA. FEMS. 5th congress of european microbiologists. 2013. july 21-25

  • Christophe Caron, Wilfrid Carré, Alexandre Cormier, Sandra Derozier, Franck Giacomoni, Olivier Inizan, Gildas Le Corguillé, Alban Lermine, Sarah Maman, Pierre Pericard and Franck Samson. Toward a cyber Galaxy ? Actes Jobim 2013.

  • Nicolas Guilhot, Sébastien Theil, Frederic Choulet, Christophe Caron, Alexandre Cormier, Catherine Feuillet and Philippe Leroy. TriAnnot : un outil bioinformatique puissant pour l’identification de gènes d’intérêt agronomique dans les génomes des plantes. Actes Jobim 2013.

  • Gwendoline Andres, Alexandre Cormier, Mylene Lorre-Guidt, Mark Hoebeke, Michel Groc, Philippe Dru and Christophe Caron. EMBRC-France e-infrastructure.Actes Jobim 2013.

  • Alexandre Cormier, John Bothwell, Mark Cock, Erwan Corre and Susana Coelho. Identification of female sex locus in the brown alga Ectocarpus. Actes Jobim 2013.