Cargando…

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

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”...

Descripción completa

Detalles Bibliográficos
Autores principales: ten Hoopen, Petra, Pesant, Stéphane, Kottmann, Renzo, Kopf, Anna, Bicak, Mesude, Claus, Simon, Deneudt, Klaas, Borremans, Catherine, Thijsse, Peter, Dekeyzer, Stefanie, Schaap, Dick MA, Bowler, Chris, Glöckner, Frank Oliver, Cochrane, Guy
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4511511/
https://www.ncbi.nlm.nih.gov/pubmed/26203332
http://dx.doi.org/10.1186/s40793-015-0001-5
_version_ 1782382343475953664
author ten Hoopen, Petra
Pesant, Stéphane
Kottmann, Renzo
Kopf, Anna
Bicak, Mesude
Claus, Simon
Deneudt, Klaas
Borremans, Catherine
Thijsse, Peter
Dekeyzer, Stefanie
Schaap, Dick MA
Bowler, Chris
Glöckner, Frank Oliver
Cochrane, Guy
author_facet ten Hoopen, Petra
Pesant, Stéphane
Kottmann, Renzo
Kopf, Anna
Bicak, Mesude
Claus, Simon
Deneudt, Klaas
Borremans, Catherine
Thijsse, Peter
Dekeyzer, Stefanie
Schaap, Dick MA
Bowler, Chris
Glöckner, Frank Oliver
Cochrane, Guy
author_sort ten Hoopen, Petra
collection PubMed
description 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 7(th) 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.
format Online
Article
Text
id pubmed-4511511
institution National Center for Biotechnology Information
language English
publishDate 2015
publisher BioMed Central
record_format MEDLINE/PubMed
spelling pubmed-45115112015-07-23 Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards ten Hoopen, Petra Pesant, Stéphane Kottmann, Renzo Kopf, Anna Bicak, Mesude Claus, Simon Deneudt, Klaas Borremans, Catherine Thijsse, Peter Dekeyzer, Stefanie Schaap, Dick MA Bowler, Chris Glöckner, Frank Oliver Cochrane, Guy Stand Genomic Sci Commentary 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 7(th) 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. BioMed Central 2015-05-08 /pmc/articles/PMC4511511/ /pubmed/26203332 http://dx.doi.org/10.1186/s40793-015-0001-5 Text en Copyright © 2015 ten Hoopen et al.; licensee BioMed Central. http://creativecommons.org/licenses/by/4.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Commentary
ten Hoopen, Petra
Pesant, Stéphane
Kottmann, Renzo
Kopf, Anna
Bicak, Mesude
Claus, Simon
Deneudt, Klaas
Borremans, Catherine
Thijsse, Peter
Dekeyzer, Stefanie
Schaap, Dick MA
Bowler, Chris
Glöckner, Frank Oliver
Cochrane, Guy
Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards
title Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards
title_full Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards
title_fullStr Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards
title_full_unstemmed Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards
title_short Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards
title_sort marine microbial biodiversity, bioinformatics and biotechnology (m2b3) data reporting and service standards
topic Commentary
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4511511/
https://www.ncbi.nlm.nih.gov/pubmed/26203332
http://dx.doi.org/10.1186/s40793-015-0001-5
work_keys_str_mv AT tenhoopenpetra marinemicrobialbiodiversitybioinformaticsandbiotechnologym2b3datareportingandservicestandards
AT pesantstephane marinemicrobialbiodiversitybioinformaticsandbiotechnologym2b3datareportingandservicestandards
AT kottmannrenzo marinemicrobialbiodiversitybioinformaticsandbiotechnologym2b3datareportingandservicestandards
AT kopfanna marinemicrobialbiodiversitybioinformaticsandbiotechnologym2b3datareportingandservicestandards
AT bicakmesude marinemicrobialbiodiversitybioinformaticsandbiotechnologym2b3datareportingandservicestandards
AT claussimon marinemicrobialbiodiversitybioinformaticsandbiotechnologym2b3datareportingandservicestandards
AT deneudtklaas marinemicrobialbiodiversitybioinformaticsandbiotechnologym2b3datareportingandservicestandards
AT borremanscatherine marinemicrobialbiodiversitybioinformaticsandbiotechnologym2b3datareportingandservicestandards
AT thijssepeter marinemicrobialbiodiversitybioinformaticsandbiotechnologym2b3datareportingandservicestandards
AT dekeyzerstefanie marinemicrobialbiodiversitybioinformaticsandbiotechnologym2b3datareportingandservicestandards
AT schaapdickma marinemicrobialbiodiversitybioinformaticsandbiotechnologym2b3datareportingandservicestandards
AT bowlerchris marinemicrobialbiodiversitybioinformaticsandbiotechnologym2b3datareportingandservicestandards
AT glocknerfrankoliver marinemicrobialbiodiversitybioinformaticsandbiotechnologym2b3datareportingandservicestandards
AT cochraneguy marinemicrobialbiodiversitybioinformaticsandbiotechnologym2b3datareportingandservicestandards