@article{RN116,
   author = {Carradec, Q. and Pelletier, E. and Da Silva, C. and Alberti, A. and Seeleuthner, Y. and Blanc-Mathieu, R. and Lima-Mendez, G. and Rocha, F. and Tirichine, L. and Labadie, K. and Kirilovsky, A. and Bertrand, A. and Engelen, S. and Madoui, M. A. and Meheust, R. and Poulain, J. and Romac, S. and Richter, D. J. and Yoshikawa, G. and Dimier, C. and Kandels-Lewis, S. and Picheral, M. and Searson, S. and Tara Oceans, Coordinators and Jaillon, O. and Aury, J. M. and Karsenti, E. and Sullivan, M. B. and Sunagawa, S. and Bork, P. and Not, F. and Hingamp, P. and Raes, J. and Guidi, L. and Ogata, H. and de Vargas, C. and Iudicone, D. and Bowler, C. and Wincker, P.},
   title = {A global ocean atlas of eukaryotic genes},
   journal = {Nat Commun},
   volume = {9},
   number = {1},
   pages = {373},
   note = {Carradec, Quentin
Pelletier, Eric
Da Silva, Corinne
Alberti, Adriana
Seeleuthner, Yoann
Blanc-Mathieu, Romain
Lima-Mendez, Gipsi
Rocha, Fabio
Tirichine, Leila
Labadie, Karine
Kirilovsky, Amos
Bertrand, Alexis
Engelen, Stefan
Madoui, Mohammed-Amin
Meheust, Raphael
Poulain, Julie
Romac, Sarah
Richter, Daniel J
Yoshikawa, Genki
Dimier, Celine
Kandels-Lewis, Stefanie
Picheral, Marc
Searson, Sarah
Jaillon, Olivier
Aury, Jean-Marc
Karsenti, Eric
Sullivan, Matthew B
Sunagawa, Shinichi
Bork, Peer
Not, Fabrice
Hingamp, Pascal
Raes, Jeroen
Guidi, Lionel
Ogata, Hiroyuki
de Vargas, Colomban
Iudicone, Daniele
Bowler, Chris
Wincker, Patrick
eng
294823/European Research Council/International
Research Support, Non-U.S. Gov't
England
Nat Commun. 2018 Jan 25;9(1):373. doi: 10.1038/s41467-017-02342-1.},
   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.},
   keywords = {Amino Acid Sequence
Animals
*Aquatic Organisms
Atlases as Topic
Bacteria/classification/genetics
Biodiversity
Ecosystem
Eukaryota/classification/*genetics
Eukaryotic Cells/cytology/*metabolism
*Metagenome
Metagenomics/methods
Oceans and Seas
*Phylogeny
Phytoplankton/classification/genetics
Seawater
Viruses/classification/genetics
Zooplankton/classification/*genetics},
   ISSN = {2041-1723 (Electronic)
2041-1723 (Linking)},
   DOI = {10.1038/s41467-017-02342-1},
   url = {https://www.ncbi.nlm.nih.gov/pubmed/29371626},
   year = {2018},
   type = {Journal Article}
}

{"_id":"XwF8yM7SYKizy7MFi","bibbaseid":"carradec-pelletier-dasilva-alberti-seeleuthner-blancmathieu-limamendez-rocha-etal-aglobaloceanatlasofeukaryoticgenes-2018","author_short":["Carradec, Q.","Pelletier, E.","Da Silva, C.","Alberti, A.","Seeleuthner, Y.","Blanc-Mathieu, R.","Lima-Mendez, G.","Rocha, F.","Tirichine, L.","Labadie, K.","Kirilovsky, A.","Bertrand, A.","Engelen, S.","Madoui, M. A.","Meheust, R.","Poulain, J.","Romac, S.","Richter, D. J.","Yoshikawa, G.","Dimier, C.","Kandels-Lewis, S.","Picheral, M.","Searson, S.","Tara Oceans, C.","Jaillon, O.","Aury, J. M.","Karsenti, E.","Sullivan, M. B.","Sunagawa, S.","Bork, P.","Not, F.","Hingamp, P.","Raes, J.","Guidi, L.","Ogata, H.","de Vargas, C.","Iudicone, D.","Bowler, C.","Wincker, P."],"bibdata":{"bibtype":"article","type":"Journal Article","author":[{"propositions":[],"lastnames":["Carradec"],"firstnames":["Q."],"suffixes":[]},{"propositions":[],"lastnames":["Pelletier"],"firstnames":["E."],"suffixes":[]},{"propositions":[],"lastnames":["Da","Silva"],"firstnames":["C."],"suffixes":[]},{"propositions":[],"lastnames":["Alberti"],"firstnames":["A."],"suffixes":[]},{"propositions":[],"lastnames":["Seeleuthner"],"firstnames":["Y."],"suffixes":[]},{"propositions":[],"lastnames":["Blanc-Mathieu"],"firstnames":["R."],"suffixes":[]},{"propositions":[],"lastnames":["Lima-Mendez"],"firstnames":["G."],"suffixes":[]},{"propositions":[],"lastnames":["Rocha"],"firstnames":["F."],"suffixes":[]},{"propositions":[],"lastnames":["Tirichine"],"firstnames":["L."],"suffixes":[]},{"propositions":[],"lastnames":["Labadie"],"firstnames":["K."],"suffixes":[]},{"propositions":[],"lastnames":["Kirilovsky"],"firstnames":["A."],"suffixes":[]},{"propositions":[],"lastnames":["Bertrand"],"firstnames":["A."],"suffixes":[]},{"propositions":[],"lastnames":["Engelen"],"firstnames":["S."],"suffixes":[]},{"propositions":[],"lastnames":["Madoui"],"firstnames":["M.","A."],"suffixes":[]},{"propositions":[],"lastnames":["Meheust"],"firstnames":["R."],"suffixes":[]},{"propositions":[],"lastnames":["Poulain"],"firstnames":["J."],"suffixes":[]},{"propositions":[],"lastnames":["Romac"],"firstnames":["S."],"suffixes":[]},{"propositions":[],"lastnames":["Richter"],"firstnames":["D.","J."],"suffixes":[]},{"propositions":[],"lastnames":["Yoshikawa"],"firstnames":["G."],"suffixes":[]},{"propositions":[],"lastnames":["Dimier"],"firstnames":["C."],"suffixes":[]},{"propositions":[],"lastnames":["Kandels-Lewis"],"firstnames":["S."],"suffixes":[]},{"propositions":[],"lastnames":["Picheral"],"firstnames":["M."],"suffixes":[]},{"propositions":[],"lastnames":["Searson"],"firstnames":["S."],"suffixes":[]},{"propositions":[],"lastnames":["Tara","Oceans"],"firstnames":["Coordinators"],"suffixes":[]},{"propositions":[],"lastnames":["Jaillon"],"firstnames":["O."],"suffixes":[]},{"propositions":[],"lastnames":["Aury"],"firstnames":["J.","M."],"suffixes":[]},{"propositions":[],"lastnames":["Karsenti"],"firstnames":["E."],"suffixes":[]},{"propositions":[],"lastnames":["Sullivan"],"firstnames":["M.","B."],"suffixes":[]},{"propositions":[],"lastnames":["Sunagawa"],"firstnames":["S."],"suffixes":[]},{"propositions":[],"lastnames":["Bork"],"firstnames":["P."],"suffixes":[]},{"propositions":[],"lastnames":["Not"],"firstnames":["F."],"suffixes":[]},{"propositions":[],"lastnames":["Hingamp"],"firstnames":["P."],"suffixes":[]},{"propositions":[],"lastnames":["Raes"],"firstnames":["J."],"suffixes":[]},{"propositions":[],"lastnames":["Guidi"],"firstnames":["L."],"suffixes":[]},{"propositions":[],"lastnames":["Ogata"],"firstnames":["H."],"suffixes":[]},{"propositions":["de"],"lastnames":["Vargas"],"firstnames":["C."],"suffixes":[]},{"propositions":[],"lastnames":["Iudicone"],"firstnames":["D."],"suffixes":[]},{"propositions":[],"lastnames":["Bowler"],"firstnames":["C."],"suffixes":[]},{"propositions":[],"lastnames":["Wincker"],"firstnames":["P."],"suffixes":[]}],"title":"A global ocean atlas of eukaryotic genes","journal":"Nat Commun","volume":"9","number":"1","pages":"373","note":"Carradec, Quentin Pelletier, Eric Da Silva, Corinne Alberti, Adriana Seeleuthner, Yoann Blanc-Mathieu, Romain Lima-Mendez, Gipsi Rocha, Fabio Tirichine, Leila Labadie, Karine Kirilovsky, Amos Bertrand, Alexis Engelen, Stefan Madoui, Mohammed-Amin Meheust, Raphael Poulain, Julie Romac, Sarah Richter, Daniel J Yoshikawa, Genki Dimier, Celine Kandels-Lewis, Stefanie Picheral, Marc Searson, Sarah Jaillon, Olivier Aury, Jean-Marc Karsenti, Eric Sullivan, Matthew B Sunagawa, Shinichi Bork, Peer Not, Fabrice Hingamp, Pascal Raes, Jeroen Guidi, Lionel Ogata, Hiroyuki de Vargas, Colomban Iudicone, Daniele Bowler, Chris Wincker, Patrick eng 294823/European Research Council/International Research Support, Non-U.S. Gov't England Nat Commun. 2018 Jan 25;9(1):373. doi: 10.1038/s41467-017-02342-1.","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.","keywords":"Amino Acid Sequence Animals *Aquatic Organisms Atlases as Topic Bacteria/classification/genetics Biodiversity Ecosystem Eukaryota/classification/*genetics Eukaryotic Cells/cytology/*metabolism *Metagenome Metagenomics/methods Oceans and Seas *Phylogeny Phytoplankton/classification/genetics Seawater Viruses/classification/genetics Zooplankton/classification/*genetics","issn":"2041-1723 (Electronic) 2041-1723 (Linking)","doi":"10.1038/s41467-017-02342-1","url":"https://www.ncbi.nlm.nih.gov/pubmed/29371626","year":"2018","bibtex":"@article{RN116,\r\n author = {Carradec, Q. and Pelletier, E. and Da Silva, C. and Alberti, A. and Seeleuthner, Y. and Blanc-Mathieu, R. and Lima-Mendez, G. and Rocha, F. and Tirichine, L. and Labadie, K. and Kirilovsky, A. and Bertrand, A. and Engelen, S. and Madoui, M. A. and Meheust, R. and Poulain, J. and Romac, S. and Richter, D. J. and Yoshikawa, G. and Dimier, C. and Kandels-Lewis, S. and Picheral, M. and Searson, S. and Tara Oceans, Coordinators and Jaillon, O. and Aury, J. M. and Karsenti, E. and Sullivan, M. B. and Sunagawa, S. and Bork, P. and Not, F. and Hingamp, P. and Raes, J. and Guidi, L. and Ogata, H. and de Vargas, C. and Iudicone, D. and Bowler, C. and Wincker, P.},\r\n title = {A global ocean atlas of eukaryotic genes},\r\n journal = {Nat Commun},\r\n volume = {9},\r\n number = {1},\r\n pages = {373},\r\n note = {Carradec, Quentin\r\nPelletier, Eric\r\nDa Silva, Corinne\r\nAlberti, Adriana\r\nSeeleuthner, Yoann\r\nBlanc-Mathieu, Romain\r\nLima-Mendez, Gipsi\r\nRocha, Fabio\r\nTirichine, Leila\r\nLabadie, Karine\r\nKirilovsky, Amos\r\nBertrand, Alexis\r\nEngelen, Stefan\r\nMadoui, Mohammed-Amin\r\nMeheust, Raphael\r\nPoulain, Julie\r\nRomac, Sarah\r\nRichter, Daniel J\r\nYoshikawa, Genki\r\nDimier, Celine\r\nKandels-Lewis, Stefanie\r\nPicheral, Marc\r\nSearson, Sarah\r\nJaillon, Olivier\r\nAury, Jean-Marc\r\nKarsenti, Eric\r\nSullivan, Matthew B\r\nSunagawa, Shinichi\r\nBork, Peer\r\nNot, Fabrice\r\nHingamp, Pascal\r\nRaes, Jeroen\r\nGuidi, Lionel\r\nOgata, Hiroyuki\r\nde Vargas, Colomban\r\nIudicone, Daniele\r\nBowler, Chris\r\nWincker, Patrick\r\neng\r\n294823/European Research Council/International\r\nResearch Support, Non-U.S. Gov't\r\nEngland\r\nNat Commun. 2018 Jan 25;9(1):373. doi: 10.1038/s41467-017-02342-1.},\r\n 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.},\r\n keywords = {Amino Acid Sequence\r\nAnimals\r\n*Aquatic Organisms\r\nAtlases as Topic\r\nBacteria/classification/genetics\r\nBiodiversity\r\nEcosystem\r\nEukaryota/classification/*genetics\r\nEukaryotic Cells/cytology/*metabolism\r\n*Metagenome\r\nMetagenomics/methods\r\nOceans and Seas\r\n*Phylogeny\r\nPhytoplankton/classification/genetics\r\nSeawater\r\nViruses/classification/genetics\r\nZooplankton/classification/*genetics},\r\n ISSN = {2041-1723 (Electronic)\r\n2041-1723 (Linking)},\r\n DOI = {10.1038/s41467-017-02342-1},\r\n url = {https://www.ncbi.nlm.nih.gov/pubmed/29371626},\r\n year = {2018},\r\n type = {Journal Article}\r\n}\r\n\r\n","author_short":["Carradec, Q.","Pelletier, E.","Da Silva, C.","Alberti, A.","Seeleuthner, Y.","Blanc-Mathieu, R.","Lima-Mendez, G.","Rocha, F.","Tirichine, L.","Labadie, K.","Kirilovsky, A.","Bertrand, A.","Engelen, S.","Madoui, M. 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