TY - JOUR
T1 - Viral to metazoan marine plankton nucleotide sequences from the Tara Oceans expedition
AU - Genoscope Technical Team
AU - Tara Oceans Consortium Coordinators
AU - Alberti, Adriana
AU - Poulain, Julie
AU - Engelen, Stefan
AU - Labadie, Karine
AU - Romac, Sarah
AU - Ferrera, Isabel
AU - Albini, Guillaume
AU - Aury, Jean Marc
AU - Belser, Caroline
AU - Bertrand, Alexis
AU - Cruaud, Corinne
AU - Da Silva, Corinne
AU - Dossat, Carole
AU - Gavory, Frédérick
AU - Gas, Shahinaz
AU - Guy, Julie
AU - Haquelle, Maud
AU - Jacoby, E'Krame
AU - Jaillon, Olivier
AU - Lemainque, Arnaud
AU - Pelletier, Eric
AU - Samson, Gaëlle
AU - Wessner, Mark
AU - Acinas, Silvia G.
AU - Royo-Llonch, Marta
AU - Cornejo-Castillo, Francisco M.
AU - Logares, Ramiro
AU - Fernández-Gómez, Beatriz
AU - Bowler, Chris
AU - Cochrane, Guy
AU - Amid, Clara
AU - Hoopen, Petra Ten
AU - De Vargas, Colomban
AU - Grimsley, Nigel
AU - Desgranges, Elodie
AU - Kandels-Lewis, Stefanie
AU - Ogata, Hiroyuki
AU - Poulton, Nicole
AU - Sieracki, Michael E.
AU - Stepanauskas, Ramunas
AU - Sullivan, Matthew B.
AU - Brum, Jennifer R.
AU - Duhaime, Melissa B.
AU - Poulos, Bonnie T.
AU - Hurwitz, Bonnie L.
AU - Pesant, Stéphane
AU - Karsenti, Eric
AU - Wincker, Patrick
AU - Bazire, Pascal
AU - Beluche, Odette
N1 - Funding Information:
We thank the commitment of the following people and sponsors: CNRS (in particular Groupement de Recherche GDR3280), European Molecular Biology Laboratory (EMBL), Genoscope/CEA, the French Government 'Investissements d'Avenir' programmes OCEANOMICS (ANR-11-BTBR-0008) and FRANCE GENOMIQUE (ANR-10-INBS-09-08), Agence Nationale de la Recherche, European Union FP7 (MicroB3/No.287589) and the U.S. National Science Foundation awards DEB-1031049, OCE- -0623288, OCE-821374 and OCE-1019242 (to M.E.S. and R.S.) and OCE-1335810 (to R.S.). Additional funding was provided by Spanish Ministry of Science and Innovation grant CGL2011-26848/BOS MicroOcean PANGENOMICS and by Japan Society for the Promotion of Science (JSPS)/KAKENHI (grant numbers 26430184, 16H06429, 16K21723 and 16H06437). We also thank the support and commitment of agnès b. and Etienne Bourgois, the Veolia Environment Foundation, Region Bretagne, Lorient Agglomeration, World Courier, Illumina, the Eléctricité de France (EDF) Foundation, Fondation pour la recherche sur la biodiversité (FRB), the Foundation Prince Albert II de Monaco, the Tara Foundation, its schooner and teams. We thank MERCATOR-CORIOLIS and ACRI-ST for providing daily satellite data during the expedition. We are also grateful to the French Ministry of Foreign Affairs for supporting the expedition and to the countries who graciously granted sampling permissions. Tara Oceans would not exist without continuous support from 23 institutes (http://oceans.taraexpeditions.org/ en/m/science/les-labos-impliques/). This article is contribution number 53 of Tara Oceans.
Publisher Copyright:
© The Author(s) 2017.
PY - 2017/8/1
Y1 - 2017/8/1
N2 - A unique collection of oceanic samples was gathered by the Tara Oceans expeditions (2009-2013), targeting plankton organisms ranging from viruses to metazoans, and providing rich environmental context measurements. Thanks to recent advances in the field of genomics, extensive sequencing has been performed for a deep genomic analysis of this huge collection of samples. A strategy based on different approaches, such as metabarcoding, metagenomics, single-cell genomics and metatranscriptomics, has been chosen for analysis of size-fractionated plankton communities. Here, we provide detailed procedures applied for genomic data generation, from nucleic acids extraction to sequence production, and we describe registries of genomics datasets available at the European Nucleotide Archive (ENA, www.ebi.ac.uk/ena). The association of these metadata to the experimental procedures applied for their generation will help the scientific community to access these data and facilitate their analysis. This paper complements other efforts to provide a full description of experiments and open science resources generated from the Tara Oceans project, further extending their value for the study of the world's planktonic ecosystems.
AB - A unique collection of oceanic samples was gathered by the Tara Oceans expeditions (2009-2013), targeting plankton organisms ranging from viruses to metazoans, and providing rich environmental context measurements. Thanks to recent advances in the field of genomics, extensive sequencing has been performed for a deep genomic analysis of this huge collection of samples. A strategy based on different approaches, such as metabarcoding, metagenomics, single-cell genomics and metatranscriptomics, has been chosen for analysis of size-fractionated plankton communities. Here, we provide detailed procedures applied for genomic data generation, from nucleic acids extraction to sequence production, and we describe registries of genomics datasets available at the European Nucleotide Archive (ENA, www.ebi.ac.uk/ena). The association of these metadata to the experimental procedures applied for their generation will help the scientific community to access these data and facilitate their analysis. This paper complements other efforts to provide a full description of experiments and open science resources generated from the Tara Oceans project, further extending their value for the study of the world's planktonic ecosystems.
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U2 - 10.1038/sdata.2017.93
DO - 10.1038/sdata.2017.93
M3 - Article
C2 - 28763055
AN - SCOPUS:85026786061
VL - 4
JO - Scientific data
JF - Scientific data
SN - 2052-4463
M1 - 170093
ER -