Single-cell genomics of multiple uncultured stramenopiles reveals underestimated functional diversity across oceans
Type | Article | ||||||||||||||||||||||||||||||||||||
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Date | 2018-01 | ||||||||||||||||||||||||||||||||||||
Language | English | ||||||||||||||||||||||||||||||||||||
Author(s) | Seeleuthner Yoann1, 2, 3, Mondy Samuel1, 2, 3, Lombard Vincent4, 5, 6, Carradec Quentin1, 2, 3, Pelletier Eric1, 2, 3, Wessner Marc1, 2, 3, Leconte Jade1, 2, 3, Mangot Jean-Francois7, Poulain Julie1, 2, Labadie Karine1, 2, Logares Ramiro7, Sunagawa Shinichi8, 9, de Berardinis Veronique2, 3, Salanoubat Marcel2, 3, Dimier Celine10, 11, 12, Kandels-Lewis Stefanie8, 13, Picheral Marc14, Searson Sarah15, Pesant Stephane16, 17, Poulton Nicole18, Stepanauskas Ramunas18, Bork Peer8, Bowler Chris, Hingamp Pascal19, Sullivan Matthew B.20, 21, Iudicone Daniele22, Massana Ramon7, Aury Jean-Marc1, Henrissat Bernard4, 5, 6, 23, Karsenti Eric12, Jaillon Olivier1, 2, 3, Sieracki Mike24, de Vargas Colomban10, 11, Wincker Patrick1, 2, 3, Tara Oceans Coordinators | ||||||||||||||||||||||||||||||||||||
Contributor(s) | Speich Sabrina | ||||||||||||||||||||||||||||||||||||
Affiliation(s) | 1 : GENOSCOPE, CEA Inst Biol Francois Jacob, 2 Rue Gaston Cremieux, F-91057 Evry, France. 2 : CNRS, UMR 8030, CP5706, Evry, France. 3 : Univ Evry, UMR 8030, CP5706, Evry, France. 4 : CNRS, UMR 7257, F-13288 Marseille, France. 5 : Aix Marseille Univ, UMR 7257, F-13288 Marseille, France. 6 : INRA, USC 1408 AFMB, F-13288 Marseille, France. 7 : CSIC, Inst Ciencies Mar, Dept Marine Biol & Oceanog, E-08003 Barcelona, Catalonia, Spain. 8 : European Mol Biol Lab, Struct & Computat Biol, Meyerhofstr 1, D-69117 Heidelberg, Germany. 9 : Swiss Fed Inst Technol, Inst Microbiol, Dept Biol, Vladimir Prelog Weg 4, CH-8093 Zurich, Switzerland. 10 : CNRS, UMR 7144, Stn Biol Roscoff, Pl Georges Teissier, F-29680 Roscoff, France. 11 : Sorbonne Univ, UPMC, Univ Paris 06, UMR 7144,Stn Biol Roscoff, Pl Georges Teissier, F-29680 Roscoff, France. 12 : PSL Res Univ, Ecole Normale Super, IBENS, CNRS,INSERM,UMR 8197, U1024,46 Rue Ulm, F-75005 Paris, France. 13 : Directors Res European Mol Biol Lab, Meyerhofstr 1, D-69117 Heidelberg, Germany. 14 : Sorbonne Univ, UPMC, Univ Paris 06, CNRS,LOV,Observ Oceanol, F-06230 Villefranche Sur Mer, France. 15 : Univ Hawaii, Dept Oceanog, Honolulu, HI 96815 USA. 16 : Univ Bremen, PANGAEA Data Publisher Earth & Environm Sci, D-28359 Bremen, Germany. 17 : Univ Bremen, MARUM Ctr Marine Environm Sci, D-28359 Bremen, Germany. 18 : Bigelow Lab Ocean Sci, East Boothbay, ME 04544 USA. 19 : Aix Marseille Univ, Univ Toulon, CNRS, IRD,MIO UM 110, F-13288 Marseille, France. 20 : Ohio State Univ, Dept Microbiol, Columbus, OH 43210 USA. 21 : Ohio State Univ, Dept Civil Environm & Geodet Engn, Columbus, OH 43210 USA. 22 : Stn Zool Anton Dohrn, Villa Comunale, I-80121 Naples, Italy. 23 : King Abdulaziz Univ, Dept Biol Sci, Jeddah 21589, Saudi Arabia. 24 : Natl Sci Fdn, Arlington, VA 22230 USA. |
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Source | Nature Communications (2041-1723) (Nature Publishing Group), 2018-01 , Vol. 9 , N. 310 , P. 10p. | ||||||||||||||||||||||||||||||||||||
DOI | 10.1038/s41467-017-02235-3 | ||||||||||||||||||||||||||||||||||||
WOS© Times Cited | 60 | ||||||||||||||||||||||||||||||||||||
Abstract | Single-celled eukaryotes (protists) are critical players in global biogeochemical cycling of nutrients and energy in the oceans. While their roles as primary producers and grazers are well appreciated, other aspects of their life histories remain obscure due to challenges in culturing and sequencing their natural diversity. Here, we exploit single-cell genomics and metagenomics data from the circumglobal Tara Oceans expedition to analyze the genome content and apparent oceanic distribution of seven prevalent lineages of uncultured heterotrophic stramenopiles. Based on the available data, each sequenced genome or genotype appears to have a specific oceanic distribution, principally correlated with water temperature and depth. The genome content provides hypotheses for specialization in terms of cell motility, food spectra, and trophic stages, including the potential impact on their lifestyles of horizontal gene transfer from prokaryotes. Our results support the idea that prominent heterotrophic marine protists perform diverse functions in ocean ecology. |
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