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Gigascience. 2015 Jun 19;4:27. doi: 10.1186/s13742-015-0066-5. eCollection 2015.

The ocean sampling day consortium.

Kopf A1, Bicak M2, Kottmann R3, Schnetzer J1, Kostadinov I4, Lehmann K5, Fernandez-Guerra A6, Jeanthon C7, Rahav E8, Ullrich M4, Wichels A9, Gerdts G9, Polymenakou P10, Kotoulas G10, Siam R11, Abdallah RZ11, Sonnenschein EC12, Cariou T7, O'Gara F13, Jackson S12, Orlic S14, Steinke M15, Busch J16, Duarte B17, Caçador I17, Canning-Clode J18, Bobrova O19, Marteinsson V20, Reynisson E20, Loureiro CM21, Luna GM22, Quero GM22, Löscher CR23, Kremp A24, DeLorenzo ME25, Øvreås L26, Tolman J27, LaRoche J27, Penna A28, Frischer M29, Davis T30, Katherine B31, Meyer CP31, Ramos S32, Magalhães C32, Jude-Lemeilleur F33, Aguirre-Macedo ML34, Wang S35, Poulton N36, Jones S37, Collin R38, Fuhrman JA39, Conan P40, Alonso C41, Stambler N42, Goodwin K43, Yakimov MM44, Baltar F45, Bodrossy L46, Van De Kamp J46, Frampton DM46, Ostrowski M47, Van Ruth P48, Malthouse P48, Claus S49, Deneudt K49, Mortelmans J49, Pitois S50, Wallom D2, Salter I51, Costa R52, Schroeder DC53, Kandil MM54, Amaral V41, Biancalana F55, Santana R41, Pedrotti ML56, Yoshida T57, Ogata H57, Ingleton T58, Munnik K59, Rodriguez-Ezpeleta N60, Berteaux-Lecellier V61, Wecker P61, Cancio I62, Vaulot D7, Bienhold C63, Ghazal H64, Chaouni B65, Essayeh S66, Ettamimi S67, Zaid el H68, Boukhatem N69, Bouali A69, Chahboune R70, Barrijal S71, Timinouni M72, El Otmani F73, Bennani M72, Mea M4, Todorova N74, Karamfilov V74, Ten Hoopen P75, Cochrane G75, L'Haridon S76, Bizsel KC77, Vezzi A78, Lauro FM79, Martin P80, Jensen RM81, Hinks J79, Gebbels S82, Rosselli R78, De Pascale F78, Schiavon R78, Dos Santos A83, Villar E84, Pesant S85, Cataletto B86, Malfatti F86, Edirisinghe R87, Silveira JA35, Barbier M88, Turk V89, Tinta T89, Fuller WJ90, Salihoglu I90, Serakinci N90, Ergoren MC90, Bresnan E91, Iriberri J62, Nyhus PA92, Bente E93, Karlsen HE94, Golyshin PN95, Gasol JM96, Moncheva S97, Dzhembekova N97, Johnson Z98, Sinigalliano CD43, Gidley ML99, Zingone A100, Danovaro R101, Tsiamis G102, Clark MS103, Costa AC21, El Bour M104, Martins AM105, Collins RE106, Ducluzeau AL106, Martinez J107, Costello MJ108, Amaral-Zettler LA109, Gilbert JA110, Davies N111, Field D112, Glöckner FO1.

Author information

1
Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, D-28359 Bremen, Germany ; Jacobs University Bremen gGmbH, Campus Ring 1, D-28759 Bremen, Germany.
2
University of Oxford, 7 Keble Road, OX1 3QG Oxford, Oxfordshire UK.
3
Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, D-28359 Bremen, Germany.
4
Jacobs University Bremen gGmbH, Campus Ring 1, D-28759 Bremen, Germany.
5
Centre for Ecology & Hydrology, MacLean Building, Benson Lane, Crowmarsh Gifford, OX10 8BB Wallingford, Oxfordshire UK.
6
Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, D-28359 Bremen, Germany ; University of Oxford, 7 Keble Road, OX1 3QG Oxford, Oxfordshire UK.
7
CNRS & Sorbonne Universités, UPMC Univ Paris 06, Station Biologique, Place Georges Teissier, F-29680 Roscoff, France.
8
Israel Oceanographic and Limnological Research, National Institute of Oceanography, Tel- Shikmona, POB 8030, 31080 Haifa, Israel.
9
Alfred Wegener Institute, Biologische Anstalt Helgoland, Kurpromenade 201, 27498 Helgoland, Germany.
10
Hellenic Centre for Marine Research, Institute of Marine Biology, Biotechnology and Aquaculture, Gournes Pediados, 71500 Heraklion, Crete Greece.
11
Biology Department and YJ-Science and Technology Research Center, American University in Cairo, New Cairo, 11835 Cairo Governorate Egypt.
12
Department of Systems Biology, Technical University of Denmark, Matematiktorvet 301, 2800 Kgs., Lyngby, Denmark.
13
National University of Ireland-University College Cork, Cork, Ireland ; Curtin University, Biomedical Sciences, Perth, Western Australia Australia.
14
Ruđer Bošković Institute, Bijenička cesta 54, 10 000, Zagreb, Croatia.
15
School of Biological Sciences, University of Essex, CO4 3SQ Colchester, Essex UK.
16
Institute for Chemistry and Biology of the Marine Environment (ICBM), Carl von Ossietzky University Oldenburg, Schleusenstrasse 1, 26383 Wilhemshaven, Germany.
17
Marine and Environmental Sciences Centre, Faculty of Sciences of the University of Lisbon, Campo Grande 1749-016, Lisbon, Portugal.
18
Marine and Environmental Sciences Centre, Faculty of Sciences of the University of Lisbon, Campo Grande 1749-016, Lisbon, Portugal ; Smithsonian Environmental Research Center, 21037 Edgewater, Maryland USA.
19
Department of Microbiology, Virology and Biotechnology, Odessa National II Mechnikov University, Dvoryanskaya str.2, 65082 Odessa, Ukraine.
20
Matis Ltd, Vinlandsleid 12, 113, Reykjavik, Iceland.
21
InBio/CIBIO, Departamento de Biologia da Universidade dos Açores, 9501-801 Ponta Delgada, Portugal.
22
National Research Council, Institute of Marine Sciences (CNR-ISMAR), Castello 2737/f, Arsenale Tesa 104, 30122 Venezia, Italy.
23
Institute of Microbiology/ GEOMAR, Am Botanischen Garten 1-9, 24118 Kiel, Germany.
24
Marine Research Centre, Finnish Environment Institute, Erik Palmenin aukio 1, 00560 Helsinki, Finland.
25
NOAA/National Ocean Service/NCCOS/Center for Coastal Environmental Health & Biomolecular Research Charleston, 29412 South Carolina, USA.
26
Department of Biology, University of Bergen, Thormøhlensgate 53B, 5020 Bergen, Norway.
27
LaRoche Research Group, Department of Biology, Dalhousie University, B3H 4R2 Halifax, Nova Scotia Canada.
28
Department of Biomolecular Sciences, University of Urbino, Viale Trieste 296, 61121 Pesaro, Italy.
29
University of Georgia's Skidaway Institute of Oceanography, 10 Ocean Science Circle, 31411 Savannah, Georgia USA.
30
NOAA-Great Lakes Environmental Research Laboratory, 4840 S State Road, 48108 Ann Arbor, Michigan USA.
31
National Museum of Natural History, Smithsonian Institution, 10th and Constitution Avenue NW, 20013 Washington, DC USA.
32
CIIMAR, Interdisciplinary Center of Environmental and Marine Research, University of Porto, Rua dos Bragas 289, 4050-123 Porto, Portugal.
33
Station Marine d'Arcachon, CNRS & Univ Bordeaux, 2 rue Professeur Jolyet, F-33120 Arcachon, France.
34
Centro de Investigación y de Estudios Avanzados (CINVESTAV), Unidad Mérida, Carretera Antigua a Progreso Km 6 Cordemex, C.P., 97310 Yucatan, Mexico.
35
Department of Biological Sciences, University of Southern Mississippi, 39406 Hattiesburg, Mississippi USA.
36
Bigelow Laboratory for Ocean Sciences, 60 Bigelow Drive, 04544 East Boothbay, Maine USA.
37
Smithsonian Marine Station, 701 Seaway Drive, 34949 Fort Pierce, Florida USA.
38
Smithsonian Tropical Research Institute, Apartado Postal 0843-03092, Balboa Ancon, Panama.
39
Wrigley Institute for Environmental Studies and Department of Biological Sciences, University of Southern California, 90089-0371 Los Angeles, California USA.
40
Sorbonne Universités, UPMC Univ Paris 06, CNRS, UMR7621, Laboratoire d'Océanographie Microbienne, Observatoire Océanologique, F-66651 Banyuls sur Mer, France.
41
Microbial Ecology of Aquatic Transitional Systems Research Group, Centro Universitario de la Región Este, Universidad de la República, Ruta 15, km 28.500, Rocha, Uruguay.
42
The Mina and Everard Goodman Faculty of Life Sciences, Bar-Ilan University, 5290002 Ramat-Gan, Israel ; Interuniversity Institute for Marine Sciences in Eilat, 88103 Eilat, Israel.
43
NOAA Atlantic Oceanographic and Meteorological Laboratory, Ocean Chemistry and Ecosystems Division, 4301 Rickenbacker Causeway, 33149 Miami, Florida USA.
44
Institute for Coastal Marine Environment, IAMC-CNR, Spianata S Raineri, 86 - 98122, Messina, Sicily Italy.
45
Department of Marine Science, University of Otago, PO Box 56, 9054 Dunedin, New Zealand.
46
CSIRO Oceans and Atmosphere Flagship, 7000 Hobart, Tasmania Australia.
47
Department of Chemistry and Biomolecular Science, Macquarie University, 2109 Sydney, Australia.
48
South Australian Research and Development Institute (SARDI) - Aquatic Sciences, PO Box 120, 5022 Henley Beach, South Australia Australia.
49
Flanders Marine Institute, InnovOcean site, Wandelaarkaai 7, 8400 Oostende, Belgium.
50
Centre for Environment, Fisheries and Aquaculture Science (CEFAS), Pakefield Road, NR33 0HT Lowestoft, Suffolk UK.
51
Sorbonne Universités, UPMC Univ Paris 06, CNRS, UMR7621, Laboratoire d'Océanographie Microbienne, Observatoire Océanologique, F-66651 Banyuls sur Mer, France ; Alfred-Wegener-Institut-Helmholtz-Zentrum für Polar-und Meeresforschung, Am Handelshafen 12, 27570 Bremerhaven, Germany.
52
Microbial Ecology and Evolution Research Group, Centre of Marine Sciences, Algarve University, Gambelas Campus, Building 7, Room 2.77, 8005-139 Faro, Portugal.
53
Marine Biological Association of the UK, Citadel Hill, PL1 2PB Plymouth, Devon UK.
54
Soil and Water Science Department, Faculty of Agriculture, Alexandria University, El-Shatbi, 21545 Alexandria, Egypt.
55
Marine Biogeochemistry - Argentine Institute of Oceanography, Camino La Carrindanga Km 7,5, 8000 Florida, Bahia Blanca Argentina.
56
Sorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 7093, LOV, Observatoire océanologique, F-Villefranche-sur-Mer, Paris, France.
57
Graduate School of Agriculture, Kyoto University, 606-8502 Sakyo-ku, Kyoto Japan.
58
Waters, Wetlands and Coasts, New South Wales Office of Environment and Heritage, Sydney South 1232, 59-61 Goulburn Street, 2001 PO Box A290, Sydney, New South Wales Australia ; Antarctic and Southern Ocean Studies, University of Tasmania, 7004 Hobart, Tasmania Australia.
59
Lwandle Technologies, Black River Park, Fir Road, 7925 Observatory, Cape Town South Africa.
60
Marine Research Division, AZTI, Txatxarramendi ugartea z/g, 48395 Sukarrieta, Bizkaia Spain.
61
CRIOBE, USR3278 CNRS-EPHE-UPVD, LabEx Corail, BP 1013-98729 Papetoai Moorea, French Polynesia.
62
University of the Basque Country, PO Box 644, E-48080 Bilbao, Basque Country Spain.
63
Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, D-28359 Bremen, Germany ; Alfred-Wegener-Institut-Helmholtz-Zentrum für Polar-und Meeresforschung, Am Handelshafen 12, 27570 Bremerhaven, Germany.
64
Polydisciplinary Faculty of Nador, University Mohammed Premier, Selouane, Nador Morocco ; Laboratory of Genetics and Biotechnology, University Mohammed Premier, Oujda, Morocco.
65
Laboratory of Genetics and Biotechnology, University Mohammed Premier, Oujda, Morocco ; Faculty of Sciences of Rabat, University Mohammed Fifth Rabat, Rabat, Morocco.
66
Polydisciplinary Faculty of Nador, University Mohammed Premier, Selouane, Nador Morocco.
67
Laboratory of Genetics and Biotechnology, University Mohammed Premier, Oujda, Morocco ; Polydisciplinary Faculty of Taza, University Sidi Mohammed Ben Abdallah, Fes, Morocco.
68
Faculty of Sciences of Rabat, University Mohammed Fifth Rabat, Rabat, Morocco.
69
Laboratory of Genetics and Biotechnology, University Mohammed Premier, Oujda, Morocco.
70
Polydisciplinary Faculty of Nador, University Mohammed Premier, Selouane, Nador Morocco ; Faculté des Sciences et Techniques de Tanger, Université Abdelmalek Essaâdi, Tanger, Morocco.
71
Faculté des Sciences et Techniques de Tanger, Université Abdelmalek Essaâdi, Tanger, Morocco.
72
Pasteur Institute of Morocco, 1 Place Louis Pasteur, 20100 Casablanca, Morocco.
73
Microbiology, Health and Environment Team, Department of Biology, Faculty of Sciences, Chouaib Doukkali University, Rte Ben Maachou, BP 20 Avenue des Facultés, El Jadida, Morocco.
74
Institute of Biodiversity and Ecosystem Research (IBER), Bulgarian Academy of Sciences, 2 Gagarin Street, 1113 Sofia, Bulgaria.
75
European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, CB10 1SD Cambridge, Cambridgeshire UK.
76
Université de Bretagne Occidentale (UBO, UEB), Institut Universitaire Européen de la Mer (IUEM), Place Nicolas Copernic, F-29280 Plouzané, France.
77
Dokuz Eylul University (DEU), Institute of Marine Sciences and Technology (IMST), Baku Bulvard, No: 100, Inciralti, 35340 Izmir, Balcova Turkey.
78
Department of Biology, University of Padova, Via Ugo Bassi 58/B, 35121 Padova, Italy.
79
Singapore Centre for Environmental Life Sciences Engineering, 60 Nanyang Drive, SBS 01N-27, 637551 Singapore, Singapore.
80
Earth Observatory of Singapore, Nanyang Technological University, 50 Nanyang Avenue, 639798 Singapore, Singapore.
81
Indigo V Expeditions, ONE°15 Marina, #01-01, 11 Cove Drive, Sentosa Cove, 098497 Singapore, Singapore.
82
School of Marine Science and Technology, Newcastle University, Dove Marine Laboratory, Cullercoats, NE30 4PZ Tyne and Wear UK.
83
IPMA, Department of Sea and Marine Resources, Avenida de Brasília, s/n, 1449-006 Lisboa, Portugal.
84
Aix Marseille Université, CNRS, IGS UMR 7256, 163 Avenue de Luminy, 13288 Marseille, France.
85
PANGAEA - Data Publisher for Earth & Environmental Science, MARUM Center for Marine Environmental Sciences, University Bremen, Hochschulring 18, 28359 Bremen, Germany.
86
OGS, National Institute of Oceanography and Experimental Geophysics, Via Auguste Piccard, 54, 34151, Santa Croce, Trieste, Italy.
87
Department of Physical Sciences, Faculty of Applied Sciences, Rajarata University of Sri Lanka, Mihintale, Sri Lanka.
88
Mediterranean Science Commission, 16 Bd de Suisse, 98 000 Monaco, Monaco.
89
Marine Biology Station, National Institute of Biology, Fornače 41, 6330 Piran, Slovenia.
90
Near East University, TRNC Mersin 10, 99138 Nicosia, Northern Cyprus.
91
Phytoplankton Ecology, Marine Scotland Marine Laboratory, 375 Victoria Road, AB11 9DB Aberdeen, Aberdeenshire UK.
92
Kind of Blue Project ABS and Citizen Science, Gaustadvn 6, 0372 Oslo, Norway.
93
Section for Aquatic Biology and Toxicology, Department of Biosciences, University of Oslo, PO Box 1066, 0316 Blindern, Oslo Norway.
94
Drøbak Field Station, Marine Biology Research station, Biologiveien 2, 1440 Drøbak, Norway.
95
School of Biological Sciences, College of Natural Sciences, Bangor University, LL57 2UW Gwynedd, Bangor UK.
96
Departament de Biologia Marina i Oceanografia, Institut de Ciències del Mar-CSIC, Pg Marítim de la Barceloneta 37-49, E08003 Barcelona, Catalunya Spain.
97
Fridtjof Nansen Institute of Oceanology, First May Street 40, 9000 Varna, Bulgaria.
98
Nicholas School of the Environment and Biology Department, Duke University, 135 Marine Lab Road, 28516 Beaufort, North Carolina USA.
99
NOAA Atlantic Oceanographic and Meteorological Laboratory, Ocean Chemistry and Ecosystems Division, 4301 Rickenbacker Causeway, 33149 Miami, Florida USA ; Cooperative Institute of Marine and Atmospheric Sciences, Rosenstiel School of Marine & Atmospheric Science, University of Miami, 4600 Rickenbacker Causeway, 33149 Miami, Florida USA.
100
Stazione Zoologica Anton Dohrn, Villa Comunale, 80121 Napoli, Italy.
101
Stazione Zoologica Anton Dohrn, Villa Comunale, 80121 Napoli, Italy ; Department of Life and Environmental Sciences, Polytechnic University of Marche, Via Brecce Bianche, 60131 Ancona, Italy.
102
Department of Environmental and Natural Resources Management, University of Patras, 2 Seferi Street, 301 00 Agrinio, Greece.
103
British Antarctic Survey, Natural Environment Research Council, High Cross, Madingley Road, CB3 0ET Cambridge, Cambridgeshire UK.
104
Institut National des Sciences et Technologies de la Mer (INSTM), 28 rue du 2 mars 1934, 2025 Salammbô, Tunisia.
105
InBio/CIBIO, Departamento de Biologia da Universidade dos Açores, 9501-801 Ponta Delgada, Portugal ; Department of Oceanography and Fisheries, University of the Azores, PT-9901-862 Horta, Portugal.
106
University of Alaska Fairbanks, Box 757220, 99775 Fairbanks, Alaska USA.
107
University of Hawaii at Manoa, Kewalo Marine Laboratory, 41 Ahui St., Honolulu, 96813 Hawaii, USA.
108
Institute of Marine Science, University of Auckland, Private Bag 92019, Auckland, 1142 New Zealand.
109
Marine Biological Laboratory, 7 MBL Street, Woods Hole, 02543 Massachusetts, USA ; Department of Earth, Environmental, and Planetary Sciences, Brown University, 02912 Providence, Rhode Island USA.
110
College of Environmental and Resource Sciences, Zhejiang University, 310058 Hangzhou, China ; Institute for Genomic and Systems Biology, Bioscience Division, Argonne National Laboratory, 9700 South Cass Avenue, 60439 Argonne, Illinois USA ; University of Chicago, 1101 E 57th Street, 60637 Chicago, Illinois USA ; Marine Biological Laboratory, 7 MBL Street, Woods Hole, 02543 Massachusetts, USA.
111
Jacobs University Bremen gGmbH, Campus Ring 1, D-28759 Bremen, Germany ; Gump South Pacific Research Station, University of California Berkeley, BP 244 98728 Moorea, French Polynesia.
112
Jacobs University Bremen gGmbH, Campus Ring 1, D-28759 Bremen, Germany ; University of Oxford, 7 Keble Road, OX1 3QG Oxford, Oxfordshire UK.

Abstract

Ocean Sampling Day was initiated by the EU-funded Micro B3 (Marine Microbial Biodiversity, Bioinformatics, Biotechnology) project to obtain a snapshot of the marine microbial biodiversity and function of the world's oceans. It is a simultaneous global mega-sequencing campaign aiming to generate the largest standardized microbial data set in a single day. This will be achievable only through the coordinated efforts of an Ocean Sampling Day Consortium, supportive partnerships and networks between sites. This commentary outlines the establishment, function and aims of the Consortium and describes our vision for a sustainable study of marine microbial communities and their embedded functional traits.

KEYWORDS:

Bacteria; Biodiversity; Genomics; Health Index; Marine; Metagenomics; Micro B3; Microorganism; OSD; Ocean sampling day; Standards

PMID:
26097697
PMCID:
PMC4473829
DOI:
10.1186/s13742-015-0066-5
[Indexed for MEDLINE]
Free PMC Article

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