A database for risk assessment and comparative genomic analysis of foodborne Vibrio parahaemolyticus in China

Vibrio parahaemolyticus is a major foodborne pathogen worldwide. The increasing number of cases of V. parahaemolyticus infections in China indicates an urgent need to evaluate the prevalence and genetic diversity of this pathogenic bacterium. In this paper, we introduce the Foodborne Vibrio parahaem...

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Autores principales: Pang, Rui, Li, Yanping, Chen, Moutong, Zeng, Haiyan, Lei, Tao, Zhang, Junhui, Ding, Yu, Wang, Juan, Wu, Shi, Ye, Qinghua, Zhang, Jumei, Wu, Qingping
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2020
Materias:
Data Descriptor
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7532206/
https://www.ncbi.nlm.nih.gov/pubmed/33009407
http://dx.doi.org/10.1038/s41597-020-00671-3
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author Pang, Rui
Li, Yanping
Chen, Moutong
Zeng, Haiyan
Lei, Tao
Zhang, Junhui
Ding, Yu
Wang, Juan
Wu, Shi
Ye, Qinghua
Zhang, Jumei
Wu, Qingping
author_facet Pang, Rui
Li, Yanping
Chen, Moutong
Zeng, Haiyan
Lei, Tao
Zhang, Junhui
Ding, Yu
Wang, Juan
Wu, Shi
Ye, Qinghua
Zhang, Jumei
Wu, Qingping
author_sort Pang, Rui
collection PubMed
description Vibrio parahaemolyticus is a major foodborne pathogen worldwide. The increasing number of cases of V. parahaemolyticus infections in China indicates an urgent need to evaluate the prevalence and genetic diversity of this pathogenic bacterium. In this paper, we introduce the Foodborne Vibrio parahaemolyticus genome database (FVPGD), the first scientific database of foodborne V. parahaemolyticus distribution and genomic data in China, based on our previous investigations of V. parahaemolyticus contamination in different kinds of food samples across China from 2011 to 2016. The dataset includes records of 2,499 food samples and 643 V. parahaemolyticus strains from supermarkets and marketplaces distributed over 39 cities in China; 268 whole-genome sequences have been deposited in this database. A spatial view on the risk situations of V. parahaemolyticus contamination in different food types is provided. Additionally, the database provides a functional interface of sequence BLAST, core genome multilocus sequence typing, and phylogenetic analysis. The database will become a powerful tool for risk assessment and outbreak investigations of foodborne pathogens in China.
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spelling pubmed-75322062020-10-19 A database for risk assessment and comparative genomic analysis of foodborne Vibrio parahaemolyticus in China Pang, Rui Li, Yanping Chen, Moutong Zeng, Haiyan Lei, Tao Zhang, Junhui Ding, Yu Wang, Juan Wu, Shi Ye, Qinghua Zhang, Jumei Wu, Qingping Sci Data Data Descriptor Vibrio parahaemolyticus is a major foodborne pathogen worldwide. The increasing number of cases of V. parahaemolyticus infections in China indicates an urgent need to evaluate the prevalence and genetic diversity of this pathogenic bacterium. In this paper, we introduce the Foodborne Vibrio parahaemolyticus genome database (FVPGD), the first scientific database of foodborne V. parahaemolyticus distribution and genomic data in China, based on our previous investigations of V. parahaemolyticus contamination in different kinds of food samples across China from 2011 to 2016. The dataset includes records of 2,499 food samples and 643 V. parahaemolyticus strains from supermarkets and marketplaces distributed over 39 cities in China; 268 whole-genome sequences have been deposited in this database. A spatial view on the risk situations of V. parahaemolyticus contamination in different food types is provided. Additionally, the database provides a functional interface of sequence BLAST, core genome multilocus sequence typing, and phylogenetic analysis. The database will become a powerful tool for risk assessment and outbreak investigations of foodborne pathogens in China. Nature Publishing Group UK 2020-10-02 /pmc/articles/PMC7532206/ /pubmed/33009407 http://dx.doi.org/10.1038/s41597-020-00671-3 Text en © The Author(s) 2020 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/. The Creative Commons Public Domain Dedication waiver http://creativecommons.org/publicdomain/zero/1.0/ applies to the metadata files associated with this article.
spellingShingle Data Descriptor
Pang, Rui
Li, Yanping
Chen, Moutong
Zeng, Haiyan
Lei, Tao
Zhang, Junhui
Ding, Yu
Wang, Juan
Wu, Shi
Ye, Qinghua
Zhang, Jumei
Wu, Qingping
A database for risk assessment and comparative genomic analysis of foodborne Vibrio parahaemolyticus in China
title A database for risk assessment and comparative genomic analysis of foodborne Vibrio parahaemolyticus in China
title_full A database for risk assessment and comparative genomic analysis of foodborne Vibrio parahaemolyticus in China
title_fullStr A database for risk assessment and comparative genomic analysis of foodborne Vibrio parahaemolyticus in China
title_full_unstemmed A database for risk assessment and comparative genomic analysis of foodborne Vibrio parahaemolyticus in China
title_short A database for risk assessment and comparative genomic analysis of foodborne Vibrio parahaemolyticus in China
title_sort database for risk assessment and comparative genomic analysis of foodborne vibrio parahaemolyticus in china
topic Data Descriptor
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7532206/
https://www.ncbi.nlm.nih.gov/pubmed/33009407
http://dx.doi.org/10.1038/s41597-020-00671-3
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