FN Archimer Export Format PT J TI Interoperable vocabulary for marine microbial flow cytometry BT AF Thyssen, Melilotus Grégori, Gérald Créach, Véronique Lahbib, Soumaya Dugenne, Mathilde Aardema, Hedy M. Artigas, Luis-Felipe Huang, Bangqin Barani, Aude Beaugeard, Laureen Bellaaj-Zouari, Amel Beran, Alfred Casotti, Raffaella Del Amo, Yolanda Denis, Michel Dubelaar, George B.J. Endres, Sonja Haraguchi, Lumi Karlson, Bengt Lambert, Christophe Louchart, Arnaud Marie, Dominique Moncoiffé, Gwenaëlle Pecqueur, David Ribalet, François Rijkeboer, Machteld Silovic, Tina Silva, Ricardo Marro, Sophie Sosik, Heidi M. Sourisseau, Marc Tarran, Glen Van Oostende, Nicolas Zhao, Li Zheng, Shan AS 1:1;2:1;3:2;4:1;5:3;6:4;7:5;8:6;9:1;10:7;11:8;12:9;13:10;14:11;15:1;16:12;17:13;18:14;19:15;20:16;21:5;22:17;23:18;24:19;25:20;26:21;27:22;28:23;29:3;30:24;31:25;32:26;33:27;34:28;35:28; FF 1:;2:;3:;4:;5:;6:;7:;8:;9:;10:;11:;12:;13:;14:;15:;16:;17:;18:;19:;20:;21:;22:;23:;24:;25:;26:;27:;28:;29:;30:;31:PDG-ODE-DYNECO-PELAGOS;32:;33:;34:;35:; C1 Aix Marseille Université, Université de Toulon, CNRS, IRD, MIO, Marseille, France Centre for Environment, Fisheries and Aquaculture, Lowestoft, United Kingdom Sorbonne Université, CNRS, UMR 7093, Laboratoire d’Océanographie de Villefranche-sur-Mer (LOV), Villefranche-sur-Mer, France Department of Climate Geochemistry, Max Plank Institute for Chemistry, Mainz, Germany Université du Littoral Côte d’Opale, Université de Lille, IRD, CNRS, UMR 8187, LOG, Laboratoire d’Océanologie et de Géosciences, Wimereux, France National Observation and Research Station for the Taiwan Strait Marine Ecosystem, State Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen, China Laboratoire LIENSs Littoral, Environnement et Sociétés, UMR 7266 Université de La Rochelle - CNRS, La Rochelle, France Institut National des Sciences et Technologies de la Mer, INSTM, Salammbô, Tunisia Physical Oceanography Group, National Institute of Oceanography and Applied Geophysics – OGS, Trieste, Italy Stazione Zoologica Anton Dohrn, Department of Integrative Marine Ecology, Napoli, Italy Université de Bordeaux-CNRS, UMR 5805, Environnement"s et Paléoenvironnements Océaniques et Continentaux (EPOC), Arcachon, France Cytobuoy b.v., Woerden, Netherlands Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research, Project Polarstern II, Bremerhaven, Germany Marine Research Centre, Finnish Environment Institute, Helsinki, Finland Swedish Meteorological and Hydrological Institute, Oceanographic Research, Västra Frölunda, Sweden CNRS, Univ Brest, IRD, Ifremer, LEMAR, Plouzane, France Sorbonne University, UPMC Univ Paris 06, CNRS, UMR 7144, Roscoff, France National Oceanography Centre, British Oceanographic Data Centre, Liverpool, United Kingdom Sorbonne Université, CNRS, Observatoire Océanologique de Banyuls s/mer, Banyuls sur Mer, France School of Oceanography, University of Washington, Seattle, WA, United States Laboratory for Hydrobiological Analysis, Rijkswaterstaat (RWS), Lelystad, Netherlands Mercator Ocean International, Ramonville Saint - Agne, France Instituto Nacional de Investigación y Desarrollo Pesquero (INIDEP), Buenos Aires, Argentina Biology Department, Woods Hole Oceanographic Institution, Biology Department, Woods Hole, MA, United States IFREMER, DYNECO, Pelagos Laboratory, Plouzané, France Plymouth Marine Laboratory, Plymouth, United Kingdom Department of Geosciences, Princeton University, Princeton, NJ, United States Key Laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China C2 UNIV AIX MARSEILLE, FRANCE CEFAS, UK UNIV SORBONNE, FRANCE MAX PLANCK INST CHEM, GERMANY UNIV LITTORAL COTE D'OPALE, FRANCE UNIV XIAMEN, CHINA UNIV LA ROCHELLE, FRANCE INSTM, TUNISIA OGS, ITALY STAZ ZOOL ANTON DOHRN, ITALY UNIV BORDEAUX, FRANCE CYTOBUOY B.V., NETHERLANDS INST A WEGENER, GERMANY SYKE MARINE RES CTR, FINLAND SMHI, SWEDEN CNRS, FRANCE UNIV SORBONNE, FRANCE NOC, UK UNIV SORBONNE, FRANCE UNIV WASHINGTON, USA RWS, NETHERLANDS MERCATOR OCEAN, FRANCE INIDEP, ARGENTINA WHOI, USA IFREMER, FRANCE PML, UK UNIV PRINCETON, USA CHINESE ACAD SCI, CHINA SI BREST SE PDG-ODE-DYNECO-PELAGOS UM LEMAR IN WOS Ifremer UPR WOS Cotutelle UMR DOAJ copubli-france copubli-europe copubli-univ-france copubli-int-hors-europe copubli-sud IF 3.7 TC 9 UR https://archimer.ifremer.fr/doc/00806/91756/97734.pdf https://archimer.ifremer.fr/doc/00806/91756/97735.docx LA English DT Article DE ;flow cytometry;marine microorganisms;standardization;vocabulary;FAIR principle interoperable vocabulary for marine flow cytometry AB The recent development of biological sensors has extended marine plankton studies from conducting laboratory bench work to in vivo and real-time observations. Flow cytometry (FCM) has shed new light on marine microorganisms since the 1980s through its single-cell approach and robust detection of the smallest cells. FCM records valuable optical properties of light scattering and fluorescence from cells passing in a single file in front of a narrow-collimated light source, recording tens of thousands of cells within a few minutes. Depending on the instrument settings, the sampling strategy, and the automation level, it resolves the spatial and temporal distribution of microbial marine prokaryotes and eukaryotes. Cells are usually classified and grouped on cytograms by experts and are still lacking standards, reducing data sharing capacities. Therefore, the need to make FCM data sets FAIR (Findability, Accessibility, Interoperability, and Reusability of digital assets) is becoming critical. In this paper, we present a consensus vocabulary for the 13 most common marine microbial groups observed with FCM using blue and red-light excitation. The authors designed a common layout on two-dimensional log-transformed cytograms reinforced by a decision tree that facilitates the characterization of groups. The proposed vocabulary aims at standardising data analysis and definitions, to promote harmonisation and comparison of data between users and instruments. This represents a much-needed step towards FAIRification of flow cytometric data collected in various marine environments. PY 2022 PD NOV SO Frontiers In Marine Science SN 2296-7745 PU Frontiers Media SA VL 9 UT 000926476900001 DI 10.3389/fmars.2022.975877 ID 91756 ER EF