Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards

Type Article
Date 2015-05
Language English
Author(s) Ten Hoopen Petra1, Pesant Stephane2, Kottmann Renzo3, Kopf Anna3, Bicak Mesude4, Claus Simon5, Deneudt Klaas5, Borremans CatherineORCID6, Thijsse Peter7, Dekeyzer Stefanie5, Schaap Dick M. A.7, Bowler Chris8, Gloeckner Frank Oliver3, 9, Cochrane Guy1
Affiliation(s) 1 : EMBL EBI, European Nucleotide Arch, Cambridge CB10 1SD, England.
2 : Univ Bremen, MARUM Ctr Marine Environm Sci, PANGAEA Data Publisher Earth & Environm Sci, D-28359 Bremen, Germany.
3 : Microbial Genom & Bioinformat Grp, Max Planck Inst Marine Microbial Ecol, D-28359 Bremen, Germany.
4 : Univ Oxford, Oxford E Res Ctr OeRC, Oxford, England.
5 : Vlaams Inst Voor Zee, B-8400 Oostende, Belgium.
6 : IDM SISMER, IFREMER Ctr BREST, F-29280 Plouzane, France.
7 : MARIS BV, NL-2273 JJ Voorburg, Netherlands.
8 : CNRS UMR8197 Inserm U1024, IBENS, Environm & Evolutionary Genom Sect, F-75005 Paris, France.
9 : Jacobs Univ Bremen gGmbH, D-28759 Bremen, Germany.
Source Standards In Genomic Sciences (1944-3277) (Biomed Central Ltd), 2015-05 , Vol. 10 , N. 20 , P. 1-10
DOI 10.1186/s40793-015-0001-5
WOS© Times Cited 11
Keyword(s) Data standard, Marine, Molecular, Biodiversity, Microbial, Bioinformatics, Reporting, Interoperability
Abstract Contextual data collected concurrently with molecular samples are critical to the use of metagenomics in the fields of marine biodiversity, bioinformatics and biotechnology. We present here Marine Microbial Biodiversity, Bioinformatics and Biotechnology (M2B3) standards for "Reporting" and "Serving" data. The M2B3 Reporting Standard (1) describes minimal mandatory and recommended contextual information for a marine microbial sample obtained in the epipelagic zone, (2) includes meaningful information for researchers in the oceanographic, biodiversity and molecular disciplines, and (3) can easily be adopted by any marine laboratory with minimum sampling resources. The M2B3 Service Standard defines a software interface through which these data can be discovered and explored in data repositories. The M2B3 Standards were developed by the European project Micro B3, funded under 7th Framework Programme "Ocean of Tomorrow", and were first used with the Ocean Sampling Day initiative. We believe that these standards have value in broader marine science.
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Ten Hoopen Petra, Pesant Stephane, Kottmann Renzo, Kopf Anna, Bicak Mesude, Claus Simon, Deneudt Klaas, Borremans Catherine, Thijsse Peter, Dekeyzer Stefanie, Schaap Dick M. A., Bowler Chris, Gloeckner Frank Oliver, Cochrane Guy (2015). Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards. Standards In Genomic Sciences, 10(20), 1-10. Publisher's official version : https://doi.org/10.1186/s40793-015-0001-5 , Open Access version : https://archimer.ifremer.fr/doc/00311/42266/