Open science resources from the Tara Pacific expedition across coral reef and surface ocean ecosystems

Type Article
Date 2023-06
Language English
Author(s) Lombard FabienORCID1, 2, 3, Bourdin GuillaumeORCID1, 4, Pesant Stéphane5, Agostini Sylvain6, Baudena AlbertoORCID1, Boissin Emilie7, Cassar NicolasORCID8, 9, Clampitt Megan10, 11, 12, Conan Pascal13, 14, Da Silva Ophélie1, Dimier Céline1, Douville Eric15, Elineau Amanda1, Fin Jonathan16, Flores J. Michel17, Ghiglione Jean-FrançoisORCID13, Hume Benjamin C. C.ORCID18, Jalabert Laetitia1, John Seth G.ORCID, Kelly Rachel L.19, Koren IlanORCID17, 19, Lin Yajuan8, 9, 20, Marie Dominique21, McMinds RyanORCID, Mériguet Zoé1, 22, 23, Metzl NicolasORCID16, Paz-García David A.ORCID24, Pedrotti Maria Luiza1, Poulain JulieORCID25, Pujo-Pay MireilleORCID13, Ras Joséphine1, Reverdin Gilles16, Romac SarahORCID2, 21, Rouan Alice10, 11, 12, Röttinger EricORCID10, 11, 12, Vardi AssafORCID16, 26, Voolstra Christian R.ORCID18, Moulin Clémentine27, Iwankow Guillaume7, Banaigs Bernard7, Bowler ChrisORCID2, 28, de Vargas Colomban2, 21, Forcioli Didier10, 11, 12, Furla Paola10, 11, 12, Galand Pierre E.ORCID2, 29, Gilson Eric10, 11, 12, 30, Reynaud Stéphanie11, 31, Sunagawa ShinichiORCID32, Sullivan Matthew B.33, Thomas Olivier P.ORCID34, Troublé Romain27, Thurber Rebecca Vega23, Wincker PatrickORCID22, 25, Zoccola DidierORCID11, 31, Allemand DenisORCID11, 31, Planes Serge7, Boss EmmanuelORCID4, Gorsky Gaby1, 2
Affiliation(s) 1 : Sorbonne Université, Laboratoire d’Océanographie de Villefranche, UMR 7093, CNRS, Institut de la Mer de Villefranche, 06230, Villefranche sur mer, France
2 : Research Federation for the study of Global Ocean Systems Ecology and Evolution, FR2022/Tara GOSEE, 75000, Paris, France
3 : Institut Universitaire de France, 75231, Paris, France
4 : School of Marine Sciences, University of Maine, Orono, Maine, 04469, USA
5 : European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK
6 : Shimoda Marine Research Center, University of Tsukuba, 5-10-1, Shimoda, Shizuoka, Japan
7 : PSL Research University: EPHE-UPVD-CNRS, USR 3278 CRIOBE, Laboratoire d’Excellence CORAIL, Université de Perpignan, 52 Avenue Paul Alduy, 66860, Perpignan, Cedex, France
8 : Nicholas School of the Environment, Duke University, Durham, NC, USA
9 : Laboratoire des Sciences de l’Environnement Marin, UMR 6539 UBO/CNRS/IRD/IFREMER, Institut Universitaire Européen de la Mer, Brest, France
10 : Université Côte d’Azur, CNRS, INSERM, Institute for Research on Cancer and Aging, Nice (IRCAN), Nice, France
11 : Université Côte d’Azur, Institut Fédératif de Recherche - Ressources Marines (IFR MARRES), Nice, France
12 : LIA ROPSE, Laboratoire International Associé Université Côte d’Azur - Centre Scientifique de Monaco, Nice, Monaco
13 : Sorbonne Université, CNRS, Laboratoire d’Océanographie Microbienne, LOMIC, 66650, Banyuls Sur Mer, France
14 : Sorbonne Université, CNRS, OSU STAMAR - UAR2017, 75252 Paris, France
15 : Laboratoire des Sciences du Climat et de l’Environnement, LSCE/IPSL, CEA-CNRS-UVSQ, Université Paris-Saclay, Gif-sur-Yvette, France
16 : Laboratoire LOCEAN/IPSL, Sorbonne Université-CNRS-IRD-MNHN, Paris, 75005, France
17 : Weizmann Institute of Science, Department of Earth and Planetary Sciences, Rehovot, Israel
18 : Department of Biology, University of Konstanz, Konstanz, Germany
19 : Department of Earth Science, University of Southern California, Los Angeles, CA, USA
20 : Environmental Research Center, Duke Kunshan University, Kunshan, China
21 : Sorbonne Université, CNRS, Station Biologique de Roscoff, UMR 7144, AD2M, Roscoff, France
22 : Université Côte d’Azur, Maison de la Modélisation, de la Simulation et des Interactions (MSI), Nice, France
23 : Department of Microbiology, Oregon State University, Corvallis, OR, USA
24 : Centro de Investigaciones Biológicas del Noroeste (CIBNOR), La Paz, Baja California Sur, 23096, México
25 : Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, Evry, France
26 : Weizmann Institute of Science, Department of Plant and Environmental Science, Rehovot, Israel
27 : Tara Ocean Foundation, Paris, France
28 : Institut de Biologie de l’Ecole Normale Supérieure, Ecole Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France
29 : Sorbonne Université, CNRS, Laboratoire d’Ecogéochimie des Environnements Benthiques, UMR 8222, LECOB, Banyuls-sur-Mer, France
30 : Department of Medical Genetics, CHU, Nice, France
31 : Centre Scientifique de Monaco, 8 Quai Antoine Ier, MC-98000, Antoine, Monaco
32 : Department of Biology, Institute of Microbiology and Swiss Institute of Bioinformatics, ETH Zürich, Zurich, Switzerland
33 : Department of Microbiology and Department of Civil, Environmental and Geodetic Engineering, The Ohio State University, Columbus, OH, USA
34 : School of Biological and Chemical Sciences, Ryan Institute, University of Galway, University Road, Galway, Ireland
Source Scientific Data (2052-4463) (Springer Science and Business Media LLC), 2023-06 , Vol. 10 , N. 1 , P. 324 (25p.)
DOI 10.1038/s41597-022-01757-w
WOS© Times Cited 11
Abstract

The Tara Pacific expedition (2016–2018) sampled coral ecosystems around 32 islands in the Pacific Ocean and the ocean surface waters at 249 locations, resulting in the collection of nearly 58 000 samples. The expedition was designed to systematically study warm-water coral reefs and included the collection of corals, fish, plankton, and seawater samples for advanced biogeochemical, molecular, and imaging analysis. Here we provide a complete description of the sampling methodology, and we explain how to explore and access the different datasets generated by the expedition. Environmental context data were obtained from taxonomic registries, gazetteers, almanacs, climatologies, operational biogeochemical models, and satellite observations. The quality of the different environmental measures has been validated not only by various quality control steps, but also through a global analysis allowing the comparison with known environmental large-scale structures. Such publicly released datasets open the perspective to address a wide range of scientific questions.
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Lombard Fabien, Bourdin Guillaume, Pesant Stéphane, Agostini Sylvain, Baudena Alberto, Boissin Emilie, Cassar Nicolas, Clampitt Megan, Conan Pascal, Da Silva Ophélie, Dimier Céline, Douville Eric, Elineau Amanda, Fin Jonathan, Flores J. Michel, Ghiglione Jean-François, Hume Benjamin C. C., Jalabert Laetitia, John Seth G., Kelly Rachel L., Koren Ilan, Lin Yajuan, Marie Dominique, McMinds Ryan, Mériguet Zoé, Metzl Nicolas, Paz-García David A., Pedrotti Maria Luiza, Poulain Julie, Pujo-Pay Mireille, Ras Joséphine, Reverdin Gilles, Romac Sarah, Rouan Alice, Röttinger Eric, Vardi Assaf, Voolstra Christian R., Moulin Clémentine, Iwankow Guillaume, Banaigs Bernard, Bowler Chris, de Vargas Colomban, Forcioli Didier, Furla Paola, Galand Pierre E., Gilson Eric, Reynaud Stéphanie, Sunagawa Shinichi, Sullivan Matthew B., Thomas Olivier P., Troublé Romain, Thurber Rebecca Vega, Wincker Patrick, Zoccola Didier, Allemand Denis, Planes Serge, Boss Emmanuel, Gorsky Gaby (2023). Open science resources from the Tara Pacific expedition across coral reef and surface ocean ecosystems. Scientific Data, 10(1), 324 (25p.). Publisher's official version : https://doi.org/10.1038/s41597-022-01757-w , Open Access version : https://archimer.ifremer.fr/doc/00840/95226/