Not logged in
PANGAEA.
Data Publisher for Earth & Environmental Science

Ocean Sampling Day Consortium, Participants (2015): Registry of samples and environmental context from the Ocean Sampling Day 2014. PANGAEA, https://doi.org/10.1594/PANGAEA.854419

Always quote citation above when using data! You can download the citation in several formats below.

RIS CitationBibTeX CitationShow MapGoogle Earth

Abstract:
The Ocean Sampling Day (OSD) is a simultaneous sampling campaign of the world's oceans which took place (for the first time) on the summer solstice (June 21st) in the year 2014. These cumulative samples, related in time, space and environmental parameters, provide insights into fundamental rules describing microbial diversity and function and contribute to the blue economy through the identification of novel, ocean-derived biotechnologies. We see OSD data as a reference data set for generations of experiments to follow in the coming decade. The present data set includes a description of each sample collected during the Ocean Sampling Day 2014 and provides contextual environmental data measured concurrently with the collection of water samples for genomic analyses.
Related to:
Kopf-Klindworth, Anna; Bicak, Mesude; Kottmann, Renzo; Schnetzer, Julia; Kostadinov, Ivaylo; Lehmann, Katja; Fernandez-Guerra, Antonio; Jeanthon, Christian; Rahav, Eyal; Ullrich, Matthias; Wichels, Antje; Gerdts, Gunnar; Paraskevi, Polymenakou; Kotoulas, Giorgos; Siam, Rania; Abdallah, Rehab Zohier; Sonnenschein, Eva C; Cariou, Thierry; O'Gara, Fergal; Jackson, Stephen; Orlic, Sandi; Steinke, Michael; Busch, Julia; Duarte, Bernardo; Cacador, Isabel; Canning-Clode, Joao; Bobrova, Oleksandra; Marteinsson, Viggo T; Reynisson, Eyjolfur; Loureiro, Isabel; Luna, Gian Marco; Quero, Grazia Marina; Löscher, Carolin R; Kremp, Anke; DeLorenzo, Marie E; Øvreås, Lise; Tolman, Jennifer; LaRoche, Julie; Penna, Antonella; Frischer, Marc; Davis, Timothy; Barker, Katherine; Meyer, Christopher P; Ramos, Sandra; Magalhães, Catarina; Jude-Lemeilleur, Florence; Aguirre-Macedo, Ma Leopoldina; Wang, Shiao; Poulton, Nicole; Jones, Michael Scott; Collin, Rachel; Fuhrman, Jed A; Conan, Pascal; Alonso, Cecilia; Stambler, Noga; Goodwin, Kelly; Yakimov, Michael M; Baltar, Federico; Bodrossy, Levente; Van De Kamp, Jodie; Frampton, Dion; Ostrowski, Martin; van Ruth, Paul; Malthouse, Paul; Claus, Simon; Deneudt, Klaas; Mortelmans, Jonas; Pitois, Sophie; Wallom, David; Salter, Ian; Costa, Rodrigo; Schroeder, Declan C; Kandil, Mahrous M; Amaral, Valentina; Biancalana, Florencia; Santana, Rafael; Pedrotti, Maria Luiza; Yoshida, Takashi; Ogata, Hiroyuki; Ingleton, Tim; Munnik, Kate; Rodríguez-Ezpeleta, Naiara; Berteaux-Lecellier, Veronique; Wecker, Patricia; Cancio, Ibon; Vaulot, Daniel; Bienhold, Christina; Ghazal, Hassan; Chaouni, Bouchra; Essayeh, Soumya; Ettamimi, Sara; Zaid, El Houcine; Boukhatem, Noureddine; Bouali, Abderrahim; Chahboune, Rajaa; Barrijal, Said; Timinouni, Mohammed; El Otmani, Fatim; Bennani, Mohamed; Mea, Marianna; Todorova, Nadezhda; Karamfilov, Ventzislav; ten Hoopen, Petra; Cochrane, Guy; L'Haridon, Stephane; Bizsel, Kemal Can; Vezzi, Alessandro; Lauro, Federico M; Martin, Patrick; Jensen, Rachelle M; Hinks, Jamie; Gebbels, Susan; Rosselli, Riccardo; De Pascale, Fabio; Schiavon, Riccardo; dos Santos, Antonina; Villar, Emilie; Pesant, Stephane; Cataletto, Bruno; Malfatti, Francesca; Edirisinghe, Ranjith; Herrera Silveira, Jorge A; Barbier, Michele; Turk, Valentina; Tinta, Tinkara; Fuller, Wayne J; Salihoglu, Ilkay; Serakinci, Nedime; Ergoren, Mahmut Cerkez; Bresnan, Eileen; Iriberri, Juan; Fronth Nyhus, Paul Anders; Bente, Edvardsen; Karlsen, Hans Erik; Golyshin, Peter N; Gasol, Josep M; Moncheva, Snejana; Dzhembekova, Nina; Johnson, Zackary; Sinigalliano, Christopher David; Gidley, Maribeth Louise; Zingone, Adriana; Danovaro, Roberto; Tsiamis, George; Clark, Melody S; Costa, Ana Cristina; El Bour, Monia; Martins, Ana; Collins, R Eric; Ducluzeau, Anne-Lise; Martinez, Jonathan; Costello, Mark J; Amaral-Zettler, Linda A; Gilbert, Jack Anthony; Davies, Neil; Field, Dawn; Glöckner, Frank Oliver (2015): The ocean sampling day consortium. GigaScience, 4(1), https://doi.org/10.1186/s13742-015-0066-5
Further details:
ten Hoopen, Petra; Cochrane, Guy; MicroB3 Consortium (2014): Ocean Sampling Day Handbook - Version of June 2014. Version 2.0, OSD_Handbook_v2_June_2014.pdf
ten Hoopen, Petra; Pesant, Stephane; Kottmann, Renzo; Kopf-Klindworth, Anna; Bicak, Mesude; Claus, Simon; Deneudt, Klaas; Borremans, Catherine; Thijsse, Peter; Dekeyzer, Stefanie; Schaap, Dick; Bowler, Chris; Glöckner, Frank Oliver; Cochrane, Guy (2015): Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards. Standards in Genomic Sciences, 10(1), https://doi.org/10.1186/s40793-015-0001-5
Funding:
Seventh Framework Programme (FP7), grant/award no. 287589: MicroB3 - Microbial Biodiversity, Bioinformatics and Biotechnology
Coverage:
Median Latitude: 36.275617 * Median Longitude: -8.815968 * South-bound Latitude: -67.344000 * West-bound Longitude: -157.843510 * North-bound Latitude: 78.453333 * East-bound Longitude: 174.818567
Date/Time Start: 2014-06-12T11:20:00 * Date/Time End: 2014-07-13T07:40:00
Minimum DEPTH, water: m * Maximum DEPTH, water: 80 m
Event(s):
OSD1_20140621T1110Z * Latitude Start: 50.151000 * Longitude Start: -4.130000 * Latitude End: 50.151000 * Longitude End: -4.130000 * Date/Time Start: 2014-06-21T11:10:00 * Date/Time End: 2014-06-21T11:25:00 * Campaign: OSD-Jun-2014 * Method/Device: Bottle, Niskin 10-L (NIS_10L) * Comment: [OBJECTIVE: To collect surface seawater on the summer solstice day from the L4 mooring in the Western English Channel (OSD1) and to filter the water using the standardized protocol NPL022. The filters will be sent to Germany and subsequently processed and analysed for the prokariotic fraction. The results will be part of the global campaign OSD data-set which will allow the scientific community to better understand the microbial diversity and function in the light of climate change assessment. The data-set so established will be used as a reference for future studies and the base for developing biotechnologies.][PLATFORM: Research vessel - MBA SEPIA][DEVICE REPORTED: 10 L Niskin bottle][DESCRIPTION: 20 L of surface seawater (0-2m) were aliquoted and filtered through 5 sterivex cartridge filters using a peristaltic pump.]
OSD2_20140620T1126Z * Latitude Start: 48.777800 * Longitude Start: -3.937500 * Latitude End: 48.777800 * Longitude End: -3.937500 * Date/Time Start: 2014-06-20T11:26:00 * Date/Time End: 2014-06-20T11:45:00 * Campaign: OSD-Jun-2014 * Method/Device: Bottle, Niskin 5-L (NIS_5L) * Comment: [OBJECTIVE: Our [OBJECTIVE is to contribute to the OSD dataset on marine microbial diversity and functions and possibly its analysis. We are particularly interested by the structure and fucntions of prokaryotic and eukaryotic communities and their in situ interactions.][PLATFORM: RV Neomysis][DEVICE REPORTED: 5L Niskin bottle][DESCRIPTION: clear water]
OSD3_20140620T0540Z * Latitude Start: 54.181940 * Longitude Start: 7.900000 * Latitude End: 54.181940 * Longitude End: 7.900000 * Date/Time Start: 2014-06-20T05:40:00 * Date/Time End: 2014-06-20T06:00:00 * Campaign: OSD-Jun-2014 * Method/Device: Bucket, plastic 10-L ([BUCKET-10]) * Comment: [OBJECTIVE: OSD2014 at Helgoland][PLATFORM: Aade][DEVICE REPORTED: 10L Bucket][DESCRIPTION: surface water sampling]
Parameter(s):
#NameShort NameUnitPrincipal InvestigatorMethod/DeviceComment
1Sample IDSample IDKottmann, RenzoSite_Date_Depth_Protocol
2Sample code/labelSample labelKottmann, Renzoregistered at the European Nucleotides Archive (ENA)INSDC biosample accession number
3Sample code/labelSample labelKottmann, Renzoregistered at the European Nucleotides Archive (ENA)INSDC bioarchive accession number
4Sample code/labelSample labelKottmann, Renzoregistered at the European Nucleotides Archive (ENA)INSDC sample accession number(s)
5Accession number, geneticsAccess no genKottmann, Renzopublished at the European Nucleotides Archiverelated to the INSDC sample accession number(s)
6Campaign of eventCampaignOcean Sampling Day Consortium, Participants
7SiteSiteKottmann, Renzolabel
8SiteSiteKottmann, Renzonumber
9Event labelEventOcean Sampling Day Consortium, Participants
10Method/Device of eventMethod/DeviceOcean Sampling Day Consortium, Participants
11Comment of eventCommentOcean Sampling Day Consortium, Participants
12URI of eventURIOcean Sampling Day Consortium, Participants
13Date/Time of eventDate/TimeOcean Sampling Day Consortium, Participants
14Latitude of eventLatitudeOcean Sampling Day Consortium, Participants
15Longitude of eventLongitudeOcean Sampling Day Consortium, Participants
16Date/Time of event 2Date/Time 2Ocean Sampling Day Consortium, Participants
17Latitude of event 2Latitude 2Ocean Sampling Day Consortium, Participants
18Longitude of event 2Longitude 2Ocean Sampling Day Consortium, Participants
19DEPTH, waterDepth watermOcean Sampling Day Consortium, ParticipantsGeocode
20Time zoneTZKottmann, Renzoof OSD site
21Local TimeLocal timeKottmann, Renzoof sampling at OSD site
22CountryCountryKottmann, Renzoclosest coast (iso3 code)
23CountryCountryKottmann, Renzodistance between site and closest coast (metre)
24Biogeographical provinceBG provinceKottmann, RenzoLonghurst (2007) registered at marineregions.orgclosest to sampling site (abbreviation)
25Biogeographical provinceBG provinceKottmann, RenzoLonghurst (2007) registered at marineregions.orgclosest to sampling site (description)
26Biogeographical provinceBG provinceKottmann, RenzoLonghurst (2007) registered at marineregions.orgdistance between sampling site and the closest biogeographical province (decimal degrees)
27Large Marine ecosystemLMEKottmann, Renzoclosest to sampling site (description)
28Large Marine ecosystemLMEKottmann, Renzodistance between site and the closets LME (metre)
29Geographic name/localityLocalityKottmann, Renzoof OSD site
30Geographic name/localityLocalityKottmann, RenzoIHO General Sea Areas (1953) registered at www.marineregions.orgof ocean and sea regions
31Uniform resource locator/link to referenceURL refKottmann, RenzoIHO General Sea Areas (1953) registered at www.marineregions.orgof ocean and sea regions
32BiomeBiomeKottmann, Renzofull name (ENVO:ID)
33Environmental featureEnv featureKottmann, Renzoterms registered at EnvO, the Environmental Ontologyfull name (ENVO:ID)
34MaterialMaterialKottmann, Renzoterms registered at EnvO, the Environmental Ontologyfull name (ENVO:ID)
35Sample methodSample methodKottmann, RenzoProtocol Label
36Sample methodSample methodKottmann, RenzoQuantity (Litre)
37Sample methodSample methodKottmann, RenzoContainer
38Sample methodSample methodKottmann, RenzoContent
39Sample methodSample methodKottmann, RenzoSize-fraction, upper threshold (micrometre)
40Sample methodSample methodKottmann, RenzoSize-fraction, lower threshold (micrometre)
41Sample methodSample methodKottmann, RenzoTreatment, chemicals
42Sample methodSample methodKottmann, RenzoTreatment, storage
43Temperature, waterTemp°CKottmann, Renzo
44SalinitySalKottmann, Renzo
45pHpHKottmann, Renzounknown scale
46Phosphate[PO4]3-µmol/lKottmann, Renzo
47Nitrate[NO3]-µmol/lKottmann, Renzo
48Carbon, organic, particulatePOCµg/lKottmann, Renzo
49Nitrite[NO2]-µmol/lKottmann, Renzo
50Carbon, organic, dissolvedDOCµmol/lKottmann, Renzo
51Plankton abundancePlank#/m3Kottmann, Renzoof nano and microplankton
52Radiation, photosynthetically activePARµmol/m2/sKottmann, Renzodownward PAR
53ConductivityCondmS/cmKottmann, Renzo
54Primary production of carbonPP Cmg/m3/dayKottmann, Renzoisotope uptake
55OxygenO2µmol/kgKottmann, Renzo
56Nitrogen, organic, particulatePONµmol/lKottmann, Renzo
57Plankton abundancePlank#/m3Kottmann, Renzoof meso and macroplankton
58Bacteria, production as carbonBact prod Cmg/m3/dayKottmann, Renzo
59Nitrogen, organic, dissolvedDONmg/lKottmann, Renzo
60Ammonium[NH4]+µmol/lKottmann, Renzo
61SilicateSi(OH)4µmol/lKottmann, Renzo
62Turbidity (Formazin Turbidity Unit)TurbidityFTUKottmann, Renzo
63FluorometerFluorometerVKottmann, Renzo
64Chlorophyll aChl amg/m3Kottmann, Renzo
Size:
7078 data points

Download Data

Download dataset as tab-delimited text — use the following character encoding:

View dataset as HTML (shows only first 2000 rows)