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MediaDive: the expert-curated cultivation media database
We present MediaDive (https://mediadive.dsmz.de), a comprehensive and expert-curated cultivation media database, which comprises recipes, instructions and molecular compositions of >3200 standardized cultivation media for >40 000 microbial strains from all domains of life. MediaDive is designe...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9825534/ https://www.ncbi.nlm.nih.gov/pubmed/36134710 http://dx.doi.org/10.1093/nar/gkac803 |
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author | Koblitz, Julia Halama, Philipp Spring, Stefan Thiel, Vera Baschien, Christiane Hahnke, Richard L Pester, Michael Overmann, Jörg Reimer, Lorenz Christian |
author_facet | Koblitz, Julia Halama, Philipp Spring, Stefan Thiel, Vera Baschien, Christiane Hahnke, Richard L Pester, Michael Overmann, Jörg Reimer, Lorenz Christian |
author_sort | Koblitz, Julia |
collection | PubMed |
description | We present MediaDive (https://mediadive.dsmz.de), a comprehensive and expert-curated cultivation media database, which comprises recipes, instructions and molecular compositions of >3200 standardized cultivation media for >40 000 microbial strains from all domains of life. MediaDive is designed to enable broad range applications from every-day-use in research and diagnostic laboratories to knowledge-driven support of new media design and artificial intelligence-driven data mining. It offers a number of intuitive search functions and comparison tools, for example to identify media for related taxonomic groups and to integrate strain-specific modifications. Besides classical PDF archiving and printing, the state-of-the-art website allows paperless use of media recipes on mobile devices for convenient wet-lab use. In addition, data can be retrieved using a RESTful web service for large-scale data analyses. An internal editor interface ensures continuous extension and curation of media by cultivation experts from the Leibniz Institute DSMZ, which is interlinked with the growing microbial collections at DSMZ. External user engagement is covered by a dedicated media builder tool. The standardized and programmatically accessible data will foster new approaches for the design of cultivation media to target the vast majority of uncultured microorganisms. |
format | Online Article Text |
id | pubmed-9825534 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-98255342023-01-10 MediaDive: the expert-curated cultivation media database Koblitz, Julia Halama, Philipp Spring, Stefan Thiel, Vera Baschien, Christiane Hahnke, Richard L Pester, Michael Overmann, Jörg Reimer, Lorenz Christian Nucleic Acids Res Database Issue We present MediaDive (https://mediadive.dsmz.de), a comprehensive and expert-curated cultivation media database, which comprises recipes, instructions and molecular compositions of >3200 standardized cultivation media for >40 000 microbial strains from all domains of life. MediaDive is designed to enable broad range applications from every-day-use in research and diagnostic laboratories to knowledge-driven support of new media design and artificial intelligence-driven data mining. It offers a number of intuitive search functions and comparison tools, for example to identify media for related taxonomic groups and to integrate strain-specific modifications. Besides classical PDF archiving and printing, the state-of-the-art website allows paperless use of media recipes on mobile devices for convenient wet-lab use. In addition, data can be retrieved using a RESTful web service for large-scale data analyses. An internal editor interface ensures continuous extension and curation of media by cultivation experts from the Leibniz Institute DSMZ, which is interlinked with the growing microbial collections at DSMZ. External user engagement is covered by a dedicated media builder tool. The standardized and programmatically accessible data will foster new approaches for the design of cultivation media to target the vast majority of uncultured microorganisms. Oxford University Press 2022-09-22 /pmc/articles/PMC9825534/ /pubmed/36134710 http://dx.doi.org/10.1093/nar/gkac803 Text en © The Author(s) 2022. Published by Oxford University Press on behalf of Nucleic Acids Research. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Database Issue Koblitz, Julia Halama, Philipp Spring, Stefan Thiel, Vera Baschien, Christiane Hahnke, Richard L Pester, Michael Overmann, Jörg Reimer, Lorenz Christian MediaDive: the expert-curated cultivation media database |
title | MediaDive: the expert-curated cultivation media database |
title_full | MediaDive: the expert-curated cultivation media database |
title_fullStr | MediaDive: the expert-curated cultivation media database |
title_full_unstemmed | MediaDive: the expert-curated cultivation media database |
title_short | MediaDive: the expert-curated cultivation media database |
title_sort | mediadive: the expert-curated cultivation media database |
topic | Database Issue |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9825534/ https://www.ncbi.nlm.nih.gov/pubmed/36134710 http://dx.doi.org/10.1093/nar/gkac803 |
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