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Marine Microbial Biodiversity, Bioinformatics, Biotechnology Checklist

Abbreviation: Micro B3

General Information

The Micro B3 checklist is a multi-disciplinary standard developed by the Micro B3 Consortium for description of marine microbial sampling. Content of the standard is grouped into six categories covering various aspects of marine microbial sampling. These categories are environment, measurement, sampling, event, sample and organism. Full adoption of the standard allows generation of data records, which are MIxS compliant but also compliant to minimal reporting requirements of the oceanographic and marine biodiversity community, i.e. respectively the Common Data Index (CDI) and the OBIS schema, advancing the metadata interoperability across research domains. Nucleotide sequences of marine microbial samples described according to the Micro B3 checklist can be placed into a very rich environmental context. This checklist had originally been called the M2B3 checklist

Homepage http://www.ebi.ac.uk/ena/submit/microb3-checklist

Countries that developed this resource Belgium , Germany , Netherlands , United Kingdom

Created in 2014

Taxonomic range

All

Subjects

User-defined Tags

Interoperability

How to cite this record FAIRsharing.org: Micro B3; Marine Microbial Biodiversity, Bioinformatics, Biotechnology Checklist; DOI: https://doi.org/10.25504/FAIRsharing.2b3at8; Last edited: Feb. 26, 2020, 11:55 a.m.; Last accessed: Oct 16 2021 3:01 p.m.

Publication for citation Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards. Ten Hoopen P,Pesant S,Kottmann R,Kopf A,Bicak M,Claus S,Deneudt K,Borremans C,Thijsse P,Dekeyzer S,Schaap DM,Bowler C,Glockner FO,Cochrane G; Stand Genomic Sci ; 2015; 10.1186/s40793-015-0001-5;

This record is maintained by pth ORCID

Record added: June 10, 2015, 10:45 a.m.
Record updated: Feb. 26, 2020, 11:55 a.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.2b3at8' by 'The FAIRsharing Team' at 12:32, 17 Jan 2019 (not approved):

'miriam_id' has been modified:
Before:
After: None

'description' has been modified:
Before: The Micro B3 checklist is a multi-disciplinary standard developed by the Micro B3 Consortium for description of marine microbial sampling. Content of the standard is grouped into six categories covering various aspects of marine microbial sampling. These categories are environment, measurement, sampling, event, sample and organism. Full adoption of the standard allows generation of data records, which are MIxS compliant but also compliant to minimal reporting requirements of the oceanographic and marine biodiversity community, i.e. respectively the Common Data Index (CDI) and the OBIS schema, advancing the metadata interoperability across research domains. Nucleotide sequences of marine microbial samples described according to the Micro B3 checklist can be placed into a very rich environmental context. This checklist had originally been called the M2B3 checklist

After: The Micro B3 checklist is a multi-disciplinary standard developed by the Micro B3 Consortium for description of marine microbial sampling. Content of the standard is grouped into six categories covering various aspects of marine microbial sampling. These categories are environment, measurement, sampling, event, sample and organism. Full adoption of the standard allows generation of data records, which are MIxS compliant but also compliant to minimal reporting requirements of the oceanographic and marine biodiversity community, i.e. respectively the Common Data Index (CDI) and the OBIS schema, advancing the metadata interoperability across research domains. Nucleotide sequences of marine microbial samples described according to the Micro B3 checklist can be placed into a very rich environmental context. This checklist had originally been called the M2B3 checklist

Edits to 'https://fairsharing.org/FAIRsharing.2b3at8' by 'The FAIRsharing Team' at 12:13, 17 Jan 2019 (approved):

	'organizations' has been modified:
		Before:
			Engineering and Physical Sciences Research Council (EPSRC), UK|https://www.epsrc.ac.uk|Funds
			European Commission FP7|https://ec.europa.eu/research/fp7/index_en.cfm|Funds
			University of Oxford, UK|https://www.cs.ox.ac.uk/|Funds
			Center for Marine Environmental Sciences (MARUM), University of Bremen, Bremen, Germany|http://www.marum.de/|Maintains
			French Research Institute for Exploitation of the Sea (IFREMER), France|http://wwz.ifremer.fr/institut_eng/|Maintains
			Departement de Biologie (IBENS), Ecole Normale Superieure, Paris, France|http://www.biologie.ens.fr/depbio/,lang=eng|Maintains
			International Council for the Exploration of the Sea (ICES), Copenhagen, Denmark|http://www.ices.dk/Pages/default.aspx|Maintains
			Marine and Ocean Data Management (MARIS), Voorburg, The Netherlands|http://www.maris.nl/|Maintains
			Max Planck Institute for Marine Microbiology (MPIMM), Bremen, Germany|http://www.mpi-bremen.de/Institut.html|Maintains
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
			The Flanders Marine Institute (VLIZ), Belgium|http://www.vliz.be/en/organisation|Maintains
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Funds,Undefined
		After:
			Engineering and Physical Sciences Research Council (EPSRC), UK|https://www.epsrc.ac.uk|Funds
			European Commission FP7|https://ec.europa.eu/research/fp7/index_en.cfm|Funds
			University of Oxford, UK|https://www.cs.ox.ac.uk/|Funds
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Funds
			Center for Marine Environmental Sciences (MARUM), University of Bremen, Bremen, Germany|http://www.marum.de/|Maintains
			French Research Institute for Exploitation of the Sea (IFREMER), France|http://wwz.ifremer.fr/institut_eng/|Maintains
			Departement de Biologie (IBENS), Ecole Normale Superieure, Paris, France|http://www.biologie.ens.fr/depbio/,lang=eng|Maintains
			International Council for the Exploration of the Sea (ICES), Copenhagen, Denmark|http://www.ices.dk/Pages/default.aspx|Maintains
			Marine and Ocean Data Management (MARIS), Voorburg, The Netherlands|http://www.maris.nl/|Maintains
			Max Planck Institute for Marine Microbiology (MPIMM), Bremen, Germany|http://www.mpi-bremen.de/Institut.html|Maintains
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
			The Flanders Marine Institute (VLIZ), Belgium|http://www.vliz.be/en/organisation|Maintains
		Added:
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Funds
		Removed:
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Funds,Undefined

Edits to 'https://fairsharing.org/FAIRsharing.2b3at8' by 'The FAIRsharing Team' at 12:12, 17 Jan 2019 (approved):

	'organizations' has been modified:
		Before:
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Undefined
			Center for Marine Environmental Sciences (MARUM), University of Bremen, Bremen, Germany|http://www.marum.de/|Maintains
			Engineering and Physical Sciences Research Council (EPSRC), UK|https://www.epsrc.ac.uk|Funds
			European Commission FP7|https://ec.europa.eu/research/fp7/index_en.cfm|Funds
			French Research Institute for Exploitation of the Sea (IFREMER), France|http://wwz.ifremer.fr/institut_eng/|Maintains
			Departement de Biologie (IBENS), Ecole Normale Superieure, Paris, France|http://www.biologie.ens.fr/depbio/,lang=eng|Maintains
			International Council for the Exploration of the Sea (ICES), Copenhagen, Denmark|http://www.ices.dk/Pages/default.aspx|Maintains
			Marine and Ocean Data Management (MARIS), Voorburg, The Netherlands|http://www.maris.nl/|Maintains
			Max Planck Institute for Marine Microbiology (MPIMM), Bremen, Germany|http://www.mpi-bremen.de/Institut.html|Maintains
			Swiss Institute of Bioinformatics (SIB), Switzerland|https://www.sib.swiss|Maintains
			The Flanders Marine Institute (VLIZ), Belgium|http://www.vliz.be/en/organisation|Maintains
			University of Oxford, UK|https://www.cs.ox.ac.uk/|Funds
		After:
			Engineering and Physical Sciences Research Council (EPSRC), UK|https://www.epsrc.ac.uk|Funds
			European Commission FP7|https://ec.europa.eu/research/fp7/index_en.cfm|Funds
			University of Oxford, UK|https://www.cs.ox.ac.uk/|Funds
			Center for Marine Environmental Sciences (MARUM), University of Bremen, Bremen, Germany|http://www.marum.de/|Maintains
			French Research Institute for Exploitation of the Sea (IFREMER), France|http://wwz.ifremer.fr/institut_eng/|Maintains
			Departement de Biologie (IBENS), Ecole Normale Superieure, Paris, France|http://www.biologie.ens.fr/depbio/,lang=eng|Maintains
			International Council for the Exploration of the Sea (ICES), Copenhagen, Denmark|http://www.ices.dk/Pages/default.aspx|Maintains
			Marine and Ocean Data Management (MARIS), Voorburg, The Netherlands|http://www.maris.nl/|Maintains
			Max Planck Institute for Marine Microbiology (MPIMM), Bremen, Germany|http://www.mpi-bremen.de/Institut.html|Maintains
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
			The Flanders Marine Institute (VLIZ), Belgium|http://www.vliz.be/en/organisation|Maintains
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Funds,Undefined
		Added:
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Funds,Undefined
		Removed:
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Undefined
			Swiss Institute of Bioinformatics (SIB), Switzerland|https://www.sib.swiss|Maintains

	'name' has been modified:
		Before: Marine Microbial Biodiversity, Bioinformatics and Biotechnology data reporting and service standards
		After: Marine Microbial Biodiversity, Bioinformatics, Biotechnology Checklist

	'licences' has been modified:
		Before:
		After:
			EBI Terms of Use|http://www.ebi.ac.uk/about/terms-of-use|Data
		Added:
			EBI Terms of Use|http://www.ebi.ac.uk/about/terms-of-use|Data
		Removed:

	'user_defined_tags' has been modified:
		Before:
		After:
			Interoperability
		Added:
			Interoperability
		Removed:

	'miriam_id' has been modified:
		Before: None
		After: 

	'publications' has been modified:
		Before:
			Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards|Petra ten Hoopen, Stphane Pesant, Renzo Kottmann, Anna Kopf, Mesude Bicak, Simon Claus, Klaas Deneudt, Catherine Borremans, Peter Thijsse, Stefanie Dekeyzer, Dick MA Schaap, Chris Bowler, Frank Oliver Glckner and Guy Cochrane|Standards in Genomic Sciences|2015
		After:
			Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards.|Ten Hoopen P,Pesant S,Kottmann R,Kopf A,Bicak M,Claus S,Deneudt K,Borremans C,Thijsse P,Dekeyzer S,Schaap DM,Bowler C,Glockner FO,Cochrane G|Stand Genomic Sci|2015
		Added:
			Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards.|Ten Hoopen P,Pesant S,Kottmann R,Kopf A,Bicak M,Claus S,Deneudt K,Borremans C,Thijsse P,Dekeyzer S,Schaap DM,Bowler C,Glockner FO,Cochrane G|Stand Genomic Sci|2015
		Removed:
			Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards|Petra ten Hoopen, Stphane Pesant, Renzo Kottmann, Anna Kopf, Mesude Bicak, Simon Claus, Klaas Deneudt, Catherine Borremans, Peter Thijsse, Stefanie Dekeyzer, Dick MA Schaap, Chris Bowler, Frank Oliver Glckner and Guy Cochrane|Standards in Genomic Sciences|2015

	'shortname' has been modified:
		Before: M2B3
		After: Micro B3

	'description' has been modified:
		Before: The M2B3 consists of a Data Reporting Standard and Data Service Standard. The M2B3 Data Reporting Standard harmonises contextual data reporting associated with sampling for microbial organisms in a global network of marine stations. The M2B3 Reporting standard spans the biodiversity, molecular and oceanographic domains and adopts existing standards of each discipline. It represents a unique intersection of existing reporting requirements across all three domains. The Standard specifies descriptor usage and formats and indicates appropriate units, where applicable. 
The M2B3 Service Standard specifies service protocols and a minimal set of core interoperability descriptors, which are central to integration of data from independent resources and allow connection between diverse data across molecular, biodiversity and oceanographic domains. 

		After: The Micro B3 checklist is a multi-disciplinary standard developed by the Micro B3 Consortium for description of marine microbial sampling. Content of the standard is grouped into six categories covering various aspects of marine microbial sampling. These categories are environment, measurement, sampling, event, sample and organism. Full adoption of the standard allows generation of data records, which are MIxS compliant but also compliant to minimal reporting requirements of the oceanographic and marine biodiversity community, i.e. respectively the Common Data Index (CDI) and the OBIS schema, advancing the metadata interoperability across research domains. Nucleotide sequences of marine microbial samples described according to the Micro B3 checklist can be placed into a very rich environmental context. This checklist had originally been called the M2B3 checklist

Edits to 'https://fairsharing.org/FAIRsharing.2b3at8' by 'The FAIRsharing Team' at 17:24, 22 Dec 2016 (approved):

	'name' has been modified:
		Before: Marine Microbial Biodiversity, Bioinformatics and Biotechnology (M2B3) data reporting and service standards
		After: Marine Microbial Biodiversity, Bioinformatics and Biotechnology data reporting and service standards

In Collections

RDA Covid-19 WG Resources

Support

General

online documentation

OSD Handbook

Additional Information

Contact

Petra ten Hoopen ORCID

Tools

No tools defined

Schemas

No XSD schemas defined

Access / Retrieve Data

Conditions of Use

Applies to: Data use

EMBL-EBI Terms of Use

Publications

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

Ten Hoopen P,Pesant S,Kottmann R,Kopf A,Bicak M,Claus S,Deneudt K,Borremans C,Thijsse P,Dekeyzer S,Schaap DM,Bowler C,Glockner FO,Cochrane G
Stand Genomic Sci 2015

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

Minimum Information about any (x) Sequence

Terminology Artifacts

Models and Formats

Ocean Biogeographic Information System Schema

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases (2)

European Nucleotide Archive
The European Nucleotide Archive (ENA) is a globally comprehensive data resource for nucleotide sequence, spanning raw data, alignments and assemblies, functional and taxonomic annotation and rich contextual data relating to sequenced samples and experimental design. Serving both as the database of record for the output of the world's sequencing activity and as a platform for the management, sharing and publication of sequence data, the ENA provides a portfolio of services for submission, data management, search and retrieval across web and programmatic interfaces. The ENA is part of the International Nucleotide Sequence Database Collaboration (INSDC), which comprises the DNA DataBank of Japan (DDBJ), the European Molecular Biology Laboratory (EMBL), and GenBank at the NCBI. These three organizations exchange data on a daily basis.

PANGAEA - Data Publisher for Earth and Environmental Science
The information system PANGAEA is operated as an Open Access library aimed at archiving, publishing and distributing georeferenced data from earth system research. PANGAEA is a member of the ICSU World Data System (WDS).

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

This record is maintained by pth ORCID

Funds

Engineering and Physical Sciences Research Council (EPSRC), UK (Government body)
European Commission FP7 (Government body)
University of Oxford, UK (University)
European Commission under FP7 Grant Agreement (Government body)

Maintains

Center for Marine Environmental Sciences (MARUM), University of Bremen, Bremen, Germany (University)
French Research Institute for Exploitation of the Sea (IFREMER), France (Research institute)
Departement de Biologie (IBENS), Ecole Normale Superieure, Paris, France (Research institute)
International Council for the Exploration of the Sea (ICES), Copenhagen, Denmark (Consortium)
Marine and Ocean Data Management (MARIS), Voorburg, The Netherlands (Consortium)
Max Planck Institute for Marine Microbiology (MPIMM), Bremen, Germany (Research institute)
European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK (Research institute) Lead
The Flanders Marine Institute (VLIZ), Belgium (Research institute)

Grant Number(s)

287589 (European Commission under FP7 Grant Agreement)

Marine Microbial Biodiversity, Bioinformatics, Biotechnology Checklist

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