Interoperable vocabulary for marine microbial ...
Type de document :
Compte-rendu et recension critique d'ouvrage
Titre :
Interoperable vocabulary for marine microbial flow cytometry
Auteur(s) :
Thyssen, Melilotus [Auteur]
Institut méditerranéen d'océanologie [MIO]
Grégori, Gérald [Auteur]
Institut méditerranéen d'océanologie [MIO]
Créach, Véronique [Auteur]
Centre for Environment, Fisheries and Aquaculture Science [Lowestoft] [CEFAS]
Lahbib, Soumaya [Auteur]
Dugenne, Mathilde [Auteur]
Laboratoire d'océanographie de Villefranche [LOV]
Aardema, Hedy [Auteur]
Huang, Bangqin [Auteur]
Barani, Aude [Auteur]
Institut méditerranéen d'océanologie [MIO]
Beaugeard, Laureen [Auteur]
Bellaaj-Zouari, Amel [Auteur]
Institut National des Sciences et Technologies de la Mer [Salammbô] [INSTM]
Beran, Alfred [Auteur]
Casotti, Raffaella [Auteur]
Stazione Zoologica Anton Dohrn [SZN]
del Amo, Yolanda [Auteur]
Université de Bordeaux [UB]
Denis, Michel [Auteur]
Institut méditerranéen d'océanologie [MIO]
Dubelaar, George [Auteur]
Endres, Sonja [Auteur]
Haraguchi, Lumi [Auteur]
Finnish Environment Institute [SYKE]
Karlson, Bengt [Auteur]
Swedish Meteorological and Hydrological Institute [SMHI]
Lambert, Christophe [Auteur]
Louchart, Arnaud [Auteur]
Marie, Dominique [Auteur]
Moncoiffé, Gwenaëlle [Auteur]
Pecqueur, David [Auteur]
Observatoire océanologique de Banyuls [OOB]
Ribalet, François [Auteur]
Rijkeboer, Machteld [Auteur]
Silovic, Tina [Auteur]
Silva, Ricardo [Auteur]
Marro, Sophie [Auteur]
Sosik, Heidi [Auteur]
Sourisseau, Marc [Auteur]
Tarran, Glen [Auteur]
van Oostende, Nicolas [Auteur]
Zhao, Li [Auteur]
Zheng, Shan [Auteur]
Artigas, Luis Felipe [Auteur]
Laboratoire d’Océanologie et de Géosciences (LOG) - UMR 8187 [LOG]
Université du Littoral Côte d'Opale [ULCO]
Institut méditerranéen d'océanologie [MIO]
Grégori, Gérald [Auteur]
Institut méditerranéen d'océanologie [MIO]
Créach, Véronique [Auteur]
Centre for Environment, Fisheries and Aquaculture Science [Lowestoft] [CEFAS]
Lahbib, Soumaya [Auteur]
Dugenne, Mathilde [Auteur]
Laboratoire d'océanographie de Villefranche [LOV]
Aardema, Hedy [Auteur]
Huang, Bangqin [Auteur]
Barani, Aude [Auteur]
Institut méditerranéen d'océanologie [MIO]
Beaugeard, Laureen [Auteur]
Bellaaj-Zouari, Amel [Auteur]
Institut National des Sciences et Technologies de la Mer [Salammbô] [INSTM]
Beran, Alfred [Auteur]
Casotti, Raffaella [Auteur]
Stazione Zoologica Anton Dohrn [SZN]
del Amo, Yolanda [Auteur]
Université de Bordeaux [UB]
Denis, Michel [Auteur]
Institut méditerranéen d'océanologie [MIO]
Dubelaar, George [Auteur]
Endres, Sonja [Auteur]
Haraguchi, Lumi [Auteur]
Finnish Environment Institute [SYKE]
Karlson, Bengt [Auteur]
Swedish Meteorological and Hydrological Institute [SMHI]
Lambert, Christophe [Auteur]
Louchart, Arnaud [Auteur]
Marie, Dominique [Auteur]
Moncoiffé, Gwenaëlle [Auteur]
Pecqueur, David [Auteur]
Observatoire océanologique de Banyuls [OOB]
Ribalet, François [Auteur]
Rijkeboer, Machteld [Auteur]
Silovic, Tina [Auteur]
Silva, Ricardo [Auteur]
Marro, Sophie [Auteur]
Sosik, Heidi [Auteur]
Sourisseau, Marc [Auteur]
Tarran, Glen [Auteur]
van Oostende, Nicolas [Auteur]
Zhao, Li [Auteur]
Zheng, Shan [Auteur]
Artigas, Luis Felipe [Auteur]
Laboratoire d’Océanologie et de Géosciences (LOG) - UMR 8187 [LOG]
Université du Littoral Côte d'Opale [ULCO]
Titre de la revue :
Frontiers in Marine Science
Éditeur :
Frontiers Media
Date de publication :
2022-11-18
ISSN :
2296-7745
Mot(s)-clé(s) en anglais :
flow cytometry
marine microorganisms
standardization
vocabulary
FAIR principle interoperable vocabulary for marine flow cytometry
marine microorganisms
standardization
vocabulary
FAIR principle interoperable vocabulary for marine flow cytometry
Discipline(s) HAL :
Planète et Univers [physics]/Océan, Atmosphère
Sciences du Vivant [q-bio]/Ecologie, Environnement
Sciences du Vivant [q-bio]/Ecologie, Environnement
Résumé en anglais : [en]
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 ...
Lire la suite >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.Lire moins >
Lire la suite >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.Lire moins >
Langue :
Anglais
Vulgarisation :
Non
Projet Européen :
Commentaire :
This article is part of the Research Topic Best Practices in Ocean Observing
Source :
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