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Nat Commun. 2018 Jan 25;9(1):373. doi: 10.1038/s41467-017-02342-1.

A global ocean atlas of eukaryotic genes.

Author information

1
CEA - Institut de Biologie François Jacob, Genoscope, Evry, 91057, France.
2
CNRS UMR Metabolic Genomics, Evry, 91057, France.
3
Univ Evry, Evry, 91057, France.
4
CEA - Institut de Biologie François Jacob, Genoscope, Evry, 91057, France. eric.pelletier@genoscope.cns.fr.
5
CNRS UMR Metabolic Genomics, Evry, 91057, France. eric.pelletier@genoscope.cns.fr.
6
Univ Evry, Evry, 91057, France. eric.pelletier@genoscope.cns.fr.
7
Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto, 611-0011, Japan.
8
Department of Microbiology and Immunology, Rega Institute, KU Leuven, Herestraat 49, Leuven, 3000, Belgium.
9
VIB Center for Microbiology, Herestraat 49, Leuven, 3000, Belgium.
10
Cellular and Molecular Microbiology, Faculté des Sciences, Université Libre, de Bruxelles (ULB), Belgium.
11
Interuniversity Institute for Bioinformatics in Brussels, ULB-VUB, Boulevard du Triomphe CP 263, 1050, Brussels, Belgium.
12
Ecole Normale Supérieure, PSL Research University, Institut de Biologie de l'Ecole Normale Supérieure (IBENS), CNRS UMR 8197, INSERM U1024, 46 rue d'Ulm, Paris, F-75005, France.
13
CNRS, UMR 7144, Station Biologique de Roscoff, Place Georges Teissier, Roscoff, 29680, France.
14
Sorbonne Universités, UPMC Univ Paris 06, UMR 7144, Station Biologique de Roscoff, Place Georges Teissier, Roscoff, 29680, France.
15
Structural and Computational Biology, European Molecular Biology Laboratory, Meyerhofstr. 1, Heidelberg, 69117, Germany.
16
Directors' Research European Molecular Biology Laboratory, Meyerhofstr. 1, Heidelberg, 69117, Germany.
17
Sorbonne Universités, UPMC Université Paris 06, CNRS, Laboratoire d'oceanographie de Villefranche (LOV), Observatoire Océanologique, Villefranche-sur-Mer, 06230, France.
18
Department of Oceanography, University of Hawaii, Honolulu, 96844, Hawaii, USA.
19
Departments of Microbiology and Civil, Environmental and Geodetic Engineering, Ohio State University, Columbus, OH, 43210, USA.
20
Department of Biology, Institute of Microbiology, Vladimir-Prelog-Weg 4, Zürich, 8093, Switzerland.
21
Molecular Medicine Partnership Unit, University of Heidelberg and European Molecular Biology Laboratory, Heidelberg, 69120, Germany.
22
Max Delbrück Centre for Molecular Medicine, Berlin, 13125, Germany.
23
Department of Bioinformatics, University of Wuerzburg, Würzburg, 97074, Germany.
24
Aix Marseille Univ, Université de Toulon, CNRS, IRD, MIO, Marseille, 13284, France.
25
Stazione Zoologica Anton Dohrn, Villa Comunale, Naples, 80121, Italy.
26
Ecole Normale Supérieure, PSL Research University, Institut de Biologie de l'Ecole Normale Supérieure (IBENS), CNRS UMR 8197, INSERM U1024, 46 rue d'Ulm, Paris, F-75005, France. cbowler@biologie.ens.fr.
27
CEA - Institut de Biologie François Jacob, Genoscope, Evry, 91057, France. pwincker@genoscope.cns.fr.
28
CNRS UMR Metabolic Genomics, Evry, 91057, France. pwincker@genoscope.cns.fr.
29
Univ Evry, Evry, 91057, France. pwincker@genoscope.cns.fr.

Abstract

While our knowledge about the roles of microbes and viruses in the ocean has increased tremendously due to recent advances in genomics and metagenomics, research on marine microbial eukaryotes and zooplankton has benefited much less from these new technologies because of their larger genomes, their enormous diversity, and largely unexplored physiologies. Here, we use a metatranscriptomics approach to capture expressed genes in open ocean Tara Oceans stations across four organismal size fractions. The individual sequence reads cluster into 116 million unigenes representing the largest reference collection of eukaryotic transcripts from any single biome. The catalog is used to unveil functions expressed by eukaryotic marine plankton, and to assess their functional biogeography. Almost half of the sequences have no similarity with known proteins, and a great number belong to new gene families with a restricted distribution in the ocean. Overall, the resource provides the foundations for exploring the roles of marine eukaryotes in ocean ecology and biogeochemistry.

PMID:
29371626
PMCID:
PMC5785536
DOI:
10.1038/s41467-017-02342-1
[Indexed for MEDLINE]
Free PMC Article

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