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Interoperable vocabulary for marine microbial flow cytometry

dc.rights.licenseopenen_US
dc.contributor.authorTHYSSEN, Melilotus
dc.contributor.authorGRÉGORI, Gérald
dc.contributor.authorCRÉACH, Véronique
dc.contributor.authorLAHBIB, Soumaya
dc.contributor.authorDUGENNE, Mathilde
dc.contributor.authorAARDEMA, Hedy M.
dc.contributor.authorARTIGAS, Luis-Felipe
dc.contributor.authorHUANG, Bangqin
dc.contributor.authorBARANI, Aude
dc.contributor.authorBEAUGEARD, Laureen
dc.contributor.authorBELLAAJ-ZOUARI, Amel
dc.contributor.authorBERAN, Alfred
dc.contributor.authorCASOTTI, Raffaella
dc.contributor.authorDEL AMO, Yolanda
dc.contributor.authorDENIS, Michel
dc.contributor.authorDUBELAAR, George B.J.
dc.contributor.authorENDRES, Sonja
dc.contributor.authorHARAGUCHI, Lumi
dc.contributor.authorKARLSON, Bengt
dc.contributor.authorLAMBERT, Christophe
dc.contributor.authorLOUCHART, Arnaud
dc.contributor.authorMARIE, Dominique
dc.contributor.authorMONCOIFFÉ, Gwenaëlle
dc.contributor.authorPECQUEUR, David
dc.contributor.authorRIBALET, François
dc.contributor.authorRIJKEBOER, Machteld
dc.contributor.authorSILOVIC, Tina
dc.contributor.authorSILVA, Ricardo
dc.contributor.authorMARRO, Sophie
dc.contributor.authorSOSIK, Heidi M.
dc.contributor.authorSOURISSEAU, Marc
dc.contributor.authorTARRAN, Glen
dc.contributor.authorVAN OOSTENDE, Nicolas
dc.contributor.authorZHAO, Li
dc.contributor.authorZHENG, Shan
dc.date.accessioned2023-04-05T09:01:00Z
dc.date.available2023-04-05T09:01:00Z
dc.date.issued2022-11-18
dc.identifier.issn2296-7745en_US
dc.identifier.urihttps://oskar-bordeaux.fr/handle/20.500.12278/172769
dc.description.abstractEnThe 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.
dc.language.isoENen_US
dc.rightsAttribution 3.0 United States*
dc.rights.urihttp://creativecommons.org/licenses/by/3.0/us/*
dc.subject.enflow cytometry
dc.subject.enmarine microorganisms
dc.subject.enstandardization
dc.subject.envocabulary
dc.subject.enFAIR principle interoperable vocabulary for marine flow cytometry
dc.title.enInteroperable vocabulary for marine microbial flow cytometry
dc.typeArticle de revueen_US
dc.identifier.doi10.3389/fmars.2022.975877en_US
dc.subject.halSciences de l'environnementen_US
bordeaux.journalFrontiers in Marine Scienceen_US
bordeaux.volume9en_US
bordeaux.hal.laboratoriesEPOC : Environnements et Paléoenvironnements Océaniques et Continentaux - UMR 5805en_US
bordeaux.institutionUniversité de Bordeauxen_US
bordeaux.institutionCNRSen_US
bordeaux.teamECOBIOCen_US
bordeaux.peerReviewedouien_US
bordeaux.inpressnonen_US
hal.exportfalse
dc.rights.ccCC BYen_US
bordeaux.COinSctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=Frontiers%20in%20Marine%20Science&rft.date=2022-11-18&rft.volume=9&rft.eissn=2296-7745&rft.issn=2296-7745&rft.au=THYSSEN,%20Melilotus&GR%C3%89GORI,%20G%C3%A9rald&CR%C3%89ACH,%20V%C3%A9ronique&LAHBIB,%20Soumaya&DUGENNE,%20Mathilde&rft.genre=article


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