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Complete genome analysis of Vibrio mimicus strain SCCF01, a highly virulent isolate from the freshwater catfish

Vibrio mimicus is a foodborne pathogen, which is widely distributed in the aquatic environment. Moreover, it is often involved in aquatic animal diseases. In recent years, V. mimicus is an emerging pathogen in some species of Siluriformes. The strain SCCF01 was isolated from yellow catfish (Pelteoba...

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Autores principales: Yu, Zehui, Wang, Erlong, Geng, Yi, Wang, Kaiyu, Chen, Defang, Huang, Xiaoli, Ouyang, Ping, Zuo, Zhicai, Huang, Chao, Fang, Jing, Yin, Lizi, Guo, Hongrui, Zhong, Zhijun
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Taylor & Francis 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6961728/
https://www.ncbi.nlm.nih.gov/pubmed/31826705
http://dx.doi.org/10.1080/21505594.2019.1702797
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author Yu, Zehui
Wang, Erlong
Geng, Yi
Wang, Kaiyu
Chen, Defang
Huang, Xiaoli
Ouyang, Ping
Zuo, Zhicai
Huang, Chao
Fang, Jing
Yin, Lizi
Guo, Hongrui
Zhong, Zhijun
author_facet Yu, Zehui
Wang, Erlong
Geng, Yi
Wang, Kaiyu
Chen, Defang
Huang, Xiaoli
Ouyang, Ping
Zuo, Zhicai
Huang, Chao
Fang, Jing
Yin, Lizi
Guo, Hongrui
Zhong, Zhijun
author_sort Yu, Zehui
collection PubMed
description Vibrio mimicus is a foodborne pathogen, which is widely distributed in the aquatic environment. Moreover, it is often involved in aquatic animal diseases. In recent years, V. mimicus is an emerging pathogen in some species of Siluriformes. The strain SCCF01 was isolated from yellow catfish (Pelteobagrus fulvidraco). In this study, we aimed to perform genomic analysis of V. mimicus strain SCCF01 to identify genetic features and evolutionary relationships. Information on gene function and classification was obtained by functional annotation, and circular graph of strain SCCF01 genome, which was created by Circos v0.64. Information on virulence genes (adhesion, flagellum system, exotoxin, and secretory system, etc.) was obtained by virulence genes annotation. Genome element prediction showed that most of the mobile elements were distributed in chromosome I. Therefore, chromosome I of SCCF01 genome has more plasticity than chromosome II and might be larger in size. Genomic linear relationship between the strain of V. mimicus and strain SCCF01 was analyzed by linear pairwise comparison but was unable to determine the relationship. Gene family analysis predicted that the evolutionary direction of strain SCCF01 was: clinical strain → environmental strain → SCCF01 strain. Phylogenetic analysis showed that the strain SCCF01 was more closely related to environmental strains. According to gene family analysis and phylogenetic analysis, we speculated that strain SCCF01 has probably diverged from environmental strains.
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spelling pubmed-69617282020-01-28 Complete genome analysis of Vibrio mimicus strain SCCF01, a highly virulent isolate from the freshwater catfish Yu, Zehui Wang, Erlong Geng, Yi Wang, Kaiyu Chen, Defang Huang, Xiaoli Ouyang, Ping Zuo, Zhicai Huang, Chao Fang, Jing Yin, Lizi Guo, Hongrui Zhong, Zhijun Virulence Research Paper Vibrio mimicus is a foodborne pathogen, which is widely distributed in the aquatic environment. Moreover, it is often involved in aquatic animal diseases. In recent years, V. mimicus is an emerging pathogen in some species of Siluriformes. The strain SCCF01 was isolated from yellow catfish (Pelteobagrus fulvidraco). In this study, we aimed to perform genomic analysis of V. mimicus strain SCCF01 to identify genetic features and evolutionary relationships. Information on gene function and classification was obtained by functional annotation, and circular graph of strain SCCF01 genome, which was created by Circos v0.64. Information on virulence genes (adhesion, flagellum system, exotoxin, and secretory system, etc.) was obtained by virulence genes annotation. Genome element prediction showed that most of the mobile elements were distributed in chromosome I. Therefore, chromosome I of SCCF01 genome has more plasticity than chromosome II and might be larger in size. Genomic linear relationship between the strain of V. mimicus and strain SCCF01 was analyzed by linear pairwise comparison but was unable to determine the relationship. Gene family analysis predicted that the evolutionary direction of strain SCCF01 was: clinical strain → environmental strain → SCCF01 strain. Phylogenetic analysis showed that the strain SCCF01 was more closely related to environmental strains. According to gene family analysis and phylogenetic analysis, we speculated that strain SCCF01 has probably diverged from environmental strains. Taylor & Francis 2019-12-28 /pmc/articles/PMC6961728/ /pubmed/31826705 http://dx.doi.org/10.1080/21505594.2019.1702797 Text en © 2019 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group. https://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/ (https://creativecommons.org/licenses/by/4.0/) ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Paper
Yu, Zehui
Wang, Erlong
Geng, Yi
Wang, Kaiyu
Chen, Defang
Huang, Xiaoli
Ouyang, Ping
Zuo, Zhicai
Huang, Chao
Fang, Jing
Yin, Lizi
Guo, Hongrui
Zhong, Zhijun
Complete genome analysis of Vibrio mimicus strain SCCF01, a highly virulent isolate from the freshwater catfish
title Complete genome analysis of Vibrio mimicus strain SCCF01, a highly virulent isolate from the freshwater catfish
title_full Complete genome analysis of Vibrio mimicus strain SCCF01, a highly virulent isolate from the freshwater catfish
title_fullStr Complete genome analysis of Vibrio mimicus strain SCCF01, a highly virulent isolate from the freshwater catfish
title_full_unstemmed Complete genome analysis of Vibrio mimicus strain SCCF01, a highly virulent isolate from the freshwater catfish
title_short Complete genome analysis of Vibrio mimicus strain SCCF01, a highly virulent isolate from the freshwater catfish
title_sort complete genome analysis of vibrio mimicus strain sccf01, a highly virulent isolate from the freshwater catfish
topic Research Paper
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6961728/
https://www.ncbi.nlm.nih.gov/pubmed/31826705
http://dx.doi.org/10.1080/21505594.2019.1702797
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