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ODFM, an omics data resource from microorganisms associated with fermented foods
ODFM is a data management system that integrates comprehensive omics information for microorganisms associated with various fermented foods, additive ingredients, and seasonings (e.g. kimchi, Korean fermented vegetables, fermented seafood, solar salt, soybean paste, vinegar, beer, cheese, sake, and...
Autores principales: | , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8058077/ https://www.ncbi.nlm.nih.gov/pubmed/33879798 http://dx.doi.org/10.1038/s41597-021-00895-x |
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author | Whon, Tae Woong Ahn, Seung Woo Yang, Sungjin Kim, Joon Yong Kim, Yeon Bee Kim, Yujin Hong, Ji-Man Jung, Hojin Choi, Yoon-E Lee, Se Hee Roh, Seong Woon |
author_facet | Whon, Tae Woong Ahn, Seung Woo Yang, Sungjin Kim, Joon Yong Kim, Yeon Bee Kim, Yujin Hong, Ji-Man Jung, Hojin Choi, Yoon-E Lee, Se Hee Roh, Seong Woon |
author_sort | Whon, Tae Woong |
collection | PubMed |
description | ODFM is a data management system that integrates comprehensive omics information for microorganisms associated with various fermented foods, additive ingredients, and seasonings (e.g. kimchi, Korean fermented vegetables, fermented seafood, solar salt, soybean paste, vinegar, beer, cheese, sake, and yogurt). The ODFM archives genome, metagenome, metataxonome, and (meta)transcriptome sequences of fermented food-associated bacteria, archaea, eukaryotic microorganisms, and viruses; 131 bacterial, 38 archaeal, and 28 eukaryotic genomes are now available to users. The ODFM provides both the Basic Local Alignment Search Tool search-based local alignment function as well as average nucleotide identity-based genetic relatedness measurement, enabling gene diversity and taxonomic analyses of an input query against the database. Genome sequences and annotation results of microorganisms are directly downloadable, and the microbial strains registered in the archive library will be available from our culture collection of fermented food-associated microorganisms. The ODFM is a comprehensive database that covers the genomes of an entire microbiome within a specific food ecosystem, providing basic information to evaluate microbial isolates as candidate fermentation starters for fermented food production. |
format | Online Article Text |
id | pubmed-8058077 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-80580772021-05-05 ODFM, an omics data resource from microorganisms associated with fermented foods Whon, Tae Woong Ahn, Seung Woo Yang, Sungjin Kim, Joon Yong Kim, Yeon Bee Kim, Yujin Hong, Ji-Man Jung, Hojin Choi, Yoon-E Lee, Se Hee Roh, Seong Woon Sci Data Article ODFM is a data management system that integrates comprehensive omics information for microorganisms associated with various fermented foods, additive ingredients, and seasonings (e.g. kimchi, Korean fermented vegetables, fermented seafood, solar salt, soybean paste, vinegar, beer, cheese, sake, and yogurt). The ODFM archives genome, metagenome, metataxonome, and (meta)transcriptome sequences of fermented food-associated bacteria, archaea, eukaryotic microorganisms, and viruses; 131 bacterial, 38 archaeal, and 28 eukaryotic genomes are now available to users. The ODFM provides both the Basic Local Alignment Search Tool search-based local alignment function as well as average nucleotide identity-based genetic relatedness measurement, enabling gene diversity and taxonomic analyses of an input query against the database. Genome sequences and annotation results of microorganisms are directly downloadable, and the microbial strains registered in the archive library will be available from our culture collection of fermented food-associated microorganisms. The ODFM is a comprehensive database that covers the genomes of an entire microbiome within a specific food ecosystem, providing basic information to evaluate microbial isolates as candidate fermentation starters for fermented food production. Nature Publishing Group UK 2021-04-20 /pmc/articles/PMC8058077/ /pubmed/33879798 http://dx.doi.org/10.1038/s41597-021-00895-x Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . |
spellingShingle | Article Whon, Tae Woong Ahn, Seung Woo Yang, Sungjin Kim, Joon Yong Kim, Yeon Bee Kim, Yujin Hong, Ji-Man Jung, Hojin Choi, Yoon-E Lee, Se Hee Roh, Seong Woon ODFM, an omics data resource from microorganisms associated with fermented foods |
title | ODFM, an omics data resource from microorganisms associated with fermented foods |
title_full | ODFM, an omics data resource from microorganisms associated with fermented foods |
title_fullStr | ODFM, an omics data resource from microorganisms associated with fermented foods |
title_full_unstemmed | ODFM, an omics data resource from microorganisms associated with fermented foods |
title_short | ODFM, an omics data resource from microorganisms associated with fermented foods |
title_sort | odfm, an omics data resource from microorganisms associated with fermented foods |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8058077/ https://www.ncbi.nlm.nih.gov/pubmed/33879798 http://dx.doi.org/10.1038/s41597-021-00895-x |
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