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, Sorbonne Université, FR2424, ABiMS, Station Biologique, 29680, Roscoff, France

  • Sorbonne Université officer :

Sorbonne Université, CNRS, FR2424, ABiMS, Station Biologique, 29680, Roscoff, France

JOBIM format

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

Acknowledgement example

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

2018

Publications

  • Jacquemot L., Bettarel Y., Monjol J. , Corre E., Halary S. , Desnues C., Ferrier-Pagès C., Bouvier T. , Baudoux A-C. Therapeutic potential of a new jumbo phage that infects the coral pathogen Vibrio coralliilyticus . Front. Microbiol. | doi: 10.3389/fmicb.2018.02501
  • Baptiste Houyvet; Bruno Zanuttini; Erwan Corre; Gildas Le Corguillé; Joël Henry; Céline Zatylny-Gaudin. "Design of antimicrobial peptides from a cuttlefish database ». Amino Acids. 2018 Nov;50(11):1573-1582. doi: 10.1007/s00726-018-2633-4
  • Annie Lebreton, Laurence Meslet-Cladière, Stéphanie Morin-Sardin, Emmanuel Coton, Jean-Luc Jany, Georges Barbier, Erwan Corre .Comparative analysis of five Mucor species transcriptomes. 2018.Genomics.https://doi.org/10.1016/j.ygeno.2018.09.003
  • Sarah Farhat, Isabelle Florent, Benjamin Noel, Ehsan Kayal, Corinne Da Silva, Estelle Bigeard, Adriana Alberti, Karine Labadie, Erwan Corre, Jean-Marc Aury, Stephane Rombauts, Patrick Wincker, Laure Guillou, Betina M. Porcel.  Comparative time-scale gene expression analysis highlights the infection processes of two Amoebophrya strains. Front. Microbiol., 02 October 2018 | https://doi.org/10.3389/fmicb.2018.02251 
  • Simon M. Dittami, Erwan Corre, Loraine Brillet-Gueguen, Noe Pontoizeau, Meziane Aite, Komlan Avia, Christophe Caron, Chung Hyun Cho, Jonas Collen, Alexandre Cormier, Ludovic Delage, Sylvie Doubleau, Clemence Frioux, Angelique Gobet, Irene Gonzalez-Navarrete, Agnes Groisillier, Cecile Herve, Didier Jollivet, Hetty KleinJan, Catherine Leblanc, Agnieszka P. Lipinska, Xi Liu, Dominique Marie, Gabriel V. Markov, Andre E. Minoche, Misharl Monsoor, Pierre Pericard, Marie-Mathilde Perrineau, Akira F. Peters, Anne Siegel, Amandine Simeon, Camille Trottier, Hwan So Yoon, Heinz Himmelbauer, Catherine Boyen, Thierry Tonon (2018) The genome of Ectocarpus subulatus highlights unique mechanisms for stress tolerance in brown algae. bioRxiv, 307165. doi:10.1101/307165
  • Alexandre Leduc; Céline Zatylny-Gaudin, PhD; Marie Robert, PhD; Erwan Corre, PhD; Gildas Le Corguillé; Hélène Castel, PhD; Antoine Lefevre-Scelles, PhD; Vincent Fournier, PhD; Enric Gisbert, PhD; Karl Blyth Andree, PhD; joel henry, PhD. Dietary aquaculture by-product hydrolysates: impact on the transcriptomic response of the intestinal mucosa of European seabass (Dicentrarchus labrax) fed low fish meal diets.BMC Genomics (2018) 19:396 https://doi.org/10.1186/s12864-018-4780-0
  • Arnaud Meng; Camille Marchet; Erwan Corre; Pierre Peterlongo; Adriana Alberti; Corinne Da Silva; Patrick Wincker; Eric Pelletier; Ian Probert; Johan Decelle; Stéphane Le Crom; Fabrice Not; Lucie Bittner. A de novo approach to disentangle/decouple partner identity and function in holobiont systems. accepted in Microbiome mai 2018
  • Héloïse Chassé,  Julie Aubert, Sandrine Boulben; Gildas Le Corguillé; Erwan Corre, Patrick Cormier, Julia Morales. 2018. "Translatome analysis at oocyte-to-embryo transition in sea urchin » accepted  in NAR 
  • Arnaud Meng, Erwan Corre, Ian Probert, Andres Gutierrez-Rodriguez, Raffaele Siano, Anita Annamale, Adriana Alberti, Corinne Da Silva, Patrick Wincker, Stephane Le Crom, Fabrice Not, Lucie Bittner. Analysis Of The Genomic Basis Of Functional Diversity In Dinoflagellates Using A Transcriptome-Based Sequence Similarity Network. bioRxiv preprint. doi: https://doi.org/10.1101/211243 accepted for publication in Molecular Ecology.
  • Jean-Philippe Buffet, Erwan Corre, Evelyne Duvernois-Berthet, Jérôme Fournier, and Pascal Jean Lopez. Adhesive gland transcriptomics uncovers a diversity of proteins and enzymes involved in glue formation in marine tube-building polychaetes. accepted in Acta Biomaterialia.
  • Stéphane L’Haridon, Erwan Corre, Yue Guan, Manikandan Vinu, Violetta La Cono, Michail Yakimov, Ulrich Stingl, Laurent Toffin and Mohamed Jebbar. Complete Genome Sequence of the Halophilic Methylotrophic Methanogen. Archaeon Methanohalophilus portucalensis Strain FDF-1^T. Genome Announc. January 2018 6:e01482-17; doi:10.1128/genomeA.01482-17  


2017

Publications

  • Baptiste Houyvet; Yolande Bouchon-Navaro; Bouchon Claude; Didier Goux; Benoit Bernay; Erwan Corre; Celine Zatylny-Gaudin. Identification of a moronecidin-like antimicrobial peptide in the venomous fish Pterois volitans: functional and structural study of pteroicidin-<alpha>.  accepted in  Fish and Shellfish Immunology. 02/11/2017
  • Simon M. Dittami, Erwan Corre. Detection of bacterial contaminants and hybrid sequences in the genome of the kelp  Saccharina japonica using Taxoblast. accepted in  PeerJ. 30/10/2017
  • Björn Grüning, Ryan Dale, Andreas Sjödin, Jillian Rowe, Brad A. Chapman, Christopher H. Tomkins-Tinch, Renan Valieris, The Bioconda Team (Gildas le Corguillé inside), Johannes Köster.Bioconda: A sustainable and comprehensive software distribution for the life sciences. bioRxiv 207092, October 2017. doi: https://doi.org/10.1101/207092.
  • Bérénice Batut, Saskia Hiltemann, Andrea Bagnacani, Dannon Baker, Vivek Bhardwaj, Clemens Blank, Anthony Bretaudeau, Loraine Guéguen, Martin Čech, John Chilton, Dave Clements, Olivia Doppelt-Azeroual, Anika Erxleben, Mallory Freeberg, Simon Gladman, Youri Hoogstrate, Hans-Rudolf Hotz, Torsten Houwaart, Pratik Jagtap, Delphine Lariviere, Gildas Le Corguillé, Thomas Manke, Fabien Mareuil, Fidel Ramírez, Devon Ryan, Florian Sigloch, Nicola Soranzo, Joachim Wolff, Pavankumar Videm, Markus Wolfien, Aisanjiang Wubuli, Dilmurat Yusuf, Rolf Backofen, Anton Nekrutenko, Björn Grüning. Community-driven data analysis training for biology. Cell Systems. Volume 6, Issue 6, p752–758.e1, 27 June 2018. https://doi.org/10.1016/j.cels.2018.05.012. bioRxiv 225680; doi: https://doi.org/10.1101/225680
  • Adriana Lopes dos Santos, Thibaut Pollina, Priscillia Gourvila, Erwan Corre,  Dominique Marie , José Luis Garrido , Francisco Rodríguez , Mary-Hélène Noële, Daniel Vaulot and Wenche Eikrem. Chloropicophyceae, a new class of picoplanktonic prasinophytes from the sunlit oceans.Scientific Reports accepted (1):1-20 · October 2017. DOI: 10.1038/s41598-017-12412-5.
  • Ehsan Kayal, Bastian Bentlage, M. Sabrina Pankey, Aki H. Ohdera, Monica Medina, David C. Plachetzki, Allen G. Collins, Joseph F. Ryan. Comprehensive phylogenomic analyses resolve cnidarian relationships and the origins of key organismal traits. 2017. Accepted in BMC Evolutionary Biology.
  • Lina-Juana Dolch, Guillaume Tourcier, Mariette Bedhomme, Séverine Collin, Leonardo Magneschi, Melissa Conte, Khawla Seddiki, Josselin Lupette, Erwan Corre, Dimitris Petroutsos, Laurent Fourage, Giovanni Finazzi, Fabrice Rébeillé, Juliette Jouhet, Patrick McGuinn, Eric Maréchal. Nitric oxide mediates nitrite-sensing and adaptation and triggers a remodeling of glycerolipids in Phaeodactylum . accepted in  Plant Physiology
  • Thomas F, Bordron P, Eveillard D, Michel G (2017) Gene expression analysis of of Zobellia galactanivorans   during the degradation of algal polysaccharides reveals both  substrate-specific and shared transcriptome-wide responses.  Frontiers in Microbiology, in the press. doi:  10.3389/fmicb.2017.01808
  • Guitton Y, Tremblay-Franco M, Le Corguillé G, Martin JF, Pétéra M, Roger-Mele P, Delabrière A, Goulitquer S, Monsoor M, Duperier C, Canlet C, Servien R, Tardivel P, Caron C, Giacomoni F, Thévenot. E. 2017. Create, run, share, publish, and reference your LC-MS, FIA-MS, GC-MS, and NMR data analysis workflows with the Workflow4Metabolomics 3.0 Galaxy online infrastructure for metabolomics. Int J Biochem Cell Biol. 2017 Jul 12. pii: S1357-2725(17)30157-7. doi: 10.1016/j.biocel.2017.07.002.
  • Jean-Yves Toullec, Erwan Corre, Perrine Mandon, Marcelo Gonzalez-Aravena, Céline Ollivaux and Chi-Ying Lee. Characterization of the neuropeptidome of a Southern Ocean decapod, the shrimp Chorismus antarcticus. Focus on a new decapod ITP-like belonging to the CHH peptide family. General and Comparative Endocrinology ;252:60-78 · July 2017. DOI: 10.1016/j.ygcen.2017.07.015
  • Petra ten Hoopen; Robert D Finn; Lars Ailo Bongo; Erwan Corre; Bruno Fosso; Folker Meyer; Alex Mitchell; Eric Pelletier; Graziano Pesole; Monica Santamaria; Nils Peder Willassen; Guy Cochrane.2017. The metagenomic data life-cycle: standards and best practices. GigaScience · June 2017. DOI: 10.1093/gigascience/gix047 
  • 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. accepted in Current Biology  feb. 2017. 
  • 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.
  • Dorrell, Richard G and Gile, Gillian and McCallum, Giselle and Méheust, Raphaël and Bapteste, Eric P and Klinger, Christen M and Brillet-Guéguen, Loraine and Freeman, Katalina D and Richter, Daniel J and Bowler, Chris. (2017). Chimeric origins of ochrophytes and haptophytes revealed through an ancient plastid proteome. eLife, 6, [e23717]. DOI: 10.7554/eLife.23717
  • van Rijswijk M, Beirnaert C, Caron C, Le Corguillé G., et al. The future of metabolomics in ELIXIR. F1000Research 2017, 6 (ELIXIR):1649 (doi: 10.12688/f1000research.12342.1)

Oral communications/ Posters

  • Barbeyron T, Brillet-Guéguen L, Carré W., Carrière C, Caron C, Czjzek M, Hoebeke M, Michel G. Matching the diversity of sulfated biomolecules: creation of a classification database for sulfatases reflecting their substrate specificity. EnzyBio 2017 (GT Enzymes – SFBBM), Le Croisic (9-12 mai 2017). Oral presentation.
  • Houyvet B., Bouchon-Navaro Y., Bouchon C., Bernay B., Corre E., Zatylny-Gaudin C .  Antimicrobial peptides in venomous fish Pterois volitans. 7th International Meeting on Antimicrobial Peptides IMAP University of Copenhagen (Denmark) August 25 -27, 2017.
  • Houyvet B., Zanuttini B., Corre E., Henry J., Zatylny-Gaudin C. Design of antimicrobial peptides from a cuttlefish database. 7th International Meeting on Antimicrobial Peptides IMAP University of Copenhagen ( Denmark)  August 25 -27, 2017
  • Ehsan Kayal, Lourdes Velo Suarez,Laure Guillou, Erwan Corre, Christophe Six, Estelle Bigeard, Dominique Marie. Possible hijacking of the host plastids by an intracellular parasite (Amoebophrya sp., Syndiniales) of microalgae. 15th International Congress of Protistology. 30/7 4/08/2017 Prague Czech Republic
  • Annie Lebreton, Stéphanie Morin-Sardin, Laurence Meslet-Cladière, Jean-Luc Jany, Emmanuel Coton, Georges Barbier, Erwan Corre. Transcriptional studies of five fungal Mucor species. Journées Ouvertes en Biologie, Informatique et Mathématiques (JOBIM), 2017. Lille, 3-6 juillet 2017.
  • Jean-Michel Escoubas, Samuel Dupont, Bruno Petton, Ana Lokmer, Eve Toulza, Caroline Montagnani, David Pecqueur, Laure Guillou, Christelle Desnues, Julien De Lorgeril, Yannick Gueguen, Guillaume Mitta and Erwan Core. A holistic approach to investigate the establishment and dynamics of the blood-microbiota (bacteria, protists and viruses) in a marine invertebrate. IWH17: Interdisciplinary Workshop on Holobionts. University of Bordeaux. BORDEAUX, France, November 6-8, 2017
  • Gobet, A., Corre, E., Correc, G., Delage, L., Dittami, S., Kleinjan, H., Rousvoal, S., Tanguy, G. and Leblanc, C..Characterization of the epiphytic bacterial community associated to the kelp laminaria digitata. IPC 11 11th International Phycological Congress. 13-19 August 2017. Szczecin, Poland.
  • Fabrice Not,Emilie Villar,Arnaud Meng,Charles Bachy,Christophe Six,Lucie Bittner,Cédric Leroux,Adriana Alberti,Damien Eveillar, Erwan Corre. Ecophysiology of plankton photosymbiosis. 15th International Congress of Protistology. 30/7 4/08/2017  Prague Czech Republic
  • Gabriel MARKOV, Jean GIRARD, Camille TROTTIER, Cédric LEROUX, Elodie LACROIX, Ludovic DELAGE, Jonas COLLÉN, Simon DITTAMI, Erwan CORRE, Catherine BOYEN, Anne SIEGEL, Catherine LEBLANC. Patchwork evolution of cholesterol biosynthetic pathway in the model red alga Chondrus crispus. Symposium Substances Naturelles ICSN-UPSACLAY (15ème Symposium ICSN).Gif-sur-Yvette, IMAGIF, 29 et 30 juin 2017.
  • Markov G., Girard J., Trottier C., Guéguen L., Leroux C., Lacroix E., Delage L., Collén J., Dittami S., Corre E., Boyen C., Siegel A., Leblanc C. (2017). Patchwork evolution of metabolic pathways in red and brown macroalgae. Communication orale, 8th annual meeting of the EFOR network, Algae Workshop, 3d May 2017, Paris.
  • THOMAS François, CORRE Erwan, CEBRON Aurélie. DNA-SIP and metagenomic revealsshifts in active phenanthrene-degrading bacteria of rhizosphere and bulk soil from a historically contaminated site. 14th Symposium on Bacterial Genetics and Ecology "Talking with the neighbours" 4–8 June 2017. Aberdeen, Scotland
  • Laure Guillou, Erwan Corre, Christophe Six, Lourdes Velo Suarez, Ehsan Kayal. Possible hijacking of the host plastids by an intracellular parasite (Amoebophrya spp., Syndiniales) of microalgae. Microbiology Society 3-7April2017. Edinburgh UK 
  • Poster: Barbeyron T, Brillet-Guéguen L, Carré W., Carrière C, Caron C, Czjzek M, Hoebeke M, Michel G. Matching the diversity of sulfated biomolecules: creation of a classification database for sulfatases reflecting their substrate specificity. CBM12 - The 12th Carbohydrate Bioengineering Meeting, Vienna, Austria (April 23-26, 2017).
  • Hugo Doré, Mark Hoebeke. Cyanorak V2: Un système d’information pour la comparaison des génomes des picocyanobactéries marines. Gen2Bio 2017 - Nantes. Oral presentation.
  • Hugo DORE, Gregory FARRANT, Frédéric PARTENSKY, Florian HUMILY, Morgane RATIN, Antoine BISCH, Loraine GUÉGUEN, Mark HOEBEKE, Erwann CORRE, Gildas LE CORGUILLÉ, David J. SCANLAN and Laurence GARCZAREK. Genomic bases of long-term adaptation to environmental conditions in Prochlorococcus and Synechococcus. Annual Conference of the Microbiology Society, Edinburgh, April 2017. Oral presentation.
  • Gobet A., Corre E., Correc G., Delage L., Dittami S., Kleinjan H., Rousvoal S., Tanguy G. and Leblanc C. Characterization of the epiphytic bacterial community associated to the kelp Laminaria digitata.- 11th International Phycological Congress, 13-19 August 2017, Szczecin, Poland
  • Gildas Le Corguillé, Franck Giacomoni, Pierrick Roger-Mele, Christophe Duperier, Mélanie Pétéra, Yann Guitton, Marie Tremblay-Franco, Jean-François Martin, Cécile Canlet, Alexis Delabrière, Etienne Thévenot, Christophe Caron. Workflow4Metabolomics:Towards an international computing infrastructure and a tools showcase for Metabolomics. GCC2017, Montepellier, June 2017. Oral presentation.

Remerciements