TY - JOUR T1 - Dynamics of the Pacific Oyster Pathobiota during mortality episodes in Europe assessed by 16S rRNA gene profiling and a new target enrichment next‐generation sequencing strategy A1 - Lasa,Aide A1 - Cesare,Andrea A1 - Tassistro,Giovanni A1 - Borello,Alessio A1 - Gualdi,Stefano A1 - Furones,Dolors A1 - Carrasco,Noelia A1 - Cheslett,Deborah A1 - Brechon,Amanda A1 - Paillard,Christine A1 - Bidault,Adeline A1 - Pernet,Fabrice A1 - Canesi,Laura A1 - Edomi,Paolo A1 - Pallavicini,Alberto A1 - Pruzzo,Carla A1 - Vezzulli,Luigi AD - Department of Earth, Environmental and Life Sciences (DISTAV)University of Genoa Genoa ,Italy AD - Department of Microbiology and ParasitologyUniversidade de Santiago de Compostela Santiago de Compostela ,Spain AD - National Research Council –Water Research Institute (CNR‐IRSA), Largo Tonolli 50 28822 Verbania ,Italy AD - Department of Plant and Microbial BiologyUniversity of Zürich, Switzerland AD - IRTA,Sant Carles e la Ràpita Tarragona, Spain AD - Fish Health UnitThe Marine Institute, Rinville Oranmore Galway, Ireland AD - Laboratoire des sciences de l'Environnement Marin, Institut Universitaire Européen de la MUniversité de Bretagne Occidentale – UMR6539 CNRS/UBO/IRD/Ifremer Plouzané ,France AD - Ifremer, Physiologie Fonctionnelle des Organismes MarinsUMR 6539 LEMAR (CNRS/Ifremer/IRD/UBO) Technopole Iroise CS 10070 29280 PLOUZANE, france AD - Dept. of Life SciencesUniversity of Trieste, Italy UR - https://archimer.ifremer.fr/doc/00508/61952/ DO - 10.1111/1462-2920.14750 N2 - Infectious agents such as the bacteria Vibrio aestuarianus or Ostreid herpesvirus 1 (OsHV‐1) have been repeatedly associated with dramatic disease outbreaks of Crassostrea gigas beds in Europe. Beside roles played by these pathogens microbial infections in C. gigas may derive from the contribution of a larger number of microorganisms than previously thought, according to an emerging view supporting the polymicrobial nature of bivalve disease. In this study, the microbial communities associated with a large number of C. gigas samples collected during recurrent mortality episodes at different European sites were investigated by real‐time PCR and 16SrRNA gene‐based microbial profiling. A new target enrichment next‐generation sequencing protocol for selective capturing of 884 phylogenetic and virulence markers of the potential microbial pathogenic community in oyster tissue was developed allowing high taxonomic resolution analysis of the bivalve pathobiota. Comparative analysis of contrasting C. gigas samples conducted using these methods revealed that oyster experiencing mortality outbreaks displayed signs of microbiota disruption associated with the presence of previously undetected potential pathogenic microbial species mostly belonging to genus Vibrio and Arcobacter. The role of these species and their consortia should be targeted by future studies aiming to shed light on mechanisms underlying polymicrobial infections in C.gigas. Y1 - 2019/12 PB - Wiley JF - Environmental Microbiology SN - 1462-2912 VL - 21 IS - 12 SP - 4548 EP - 4562 ID - 61952 ER -