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:	Zehui Yu, Erlong Wang, Yi Geng, Kaiyu Wang, Defang Chen, Xiaoli Huang, Ping Ouyang, Zhicai Zuo, Chao Huang, Jing Fang, Lizi Yin, Hongrui Guo, Zhijun Zhong
Formato:	article
Lenguaje:	EN
Publicado:	Taylor & Francis Group 2020
Materias:	vibrio mimicus virulence factors genome element genomic comparison Infectious and parasitic diseases RC109-216
Acceso en línea:	https://doaj.org/article/e1cb7c9529c24e71b6cbbad6709f36b0
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spelling	oai:doaj.org-article:e1cb7c9529c24e71b6cbbad6709f36b02021-11-17T14:21:57ZComplete genome analysis of Vibrio mimicus strain SCCF01, a highly virulent isolate from the freshwater catfish2150-55942150-560810.1080/21505594.2019.1702797https://doaj.org/article/e1cb7c9529c24e71b6cbbad6709f36b02020-12-01T00:00:00Zhttp://dx.doi.org/10.1080/21505594.2019.1702797https://doaj.org/toc/2150-5594https://doaj.org/toc/2150-5608Vibrio 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.Zehui YuErlong WangYi GengKaiyu WangDefang ChenXiaoli HuangPing OuyangZhicai ZuoChao HuangJing FangLizi YinHongrui GuoZhijun ZhongTaylor & Francis Grouparticlevibrio mimicusvirulence factorsgenome elementgenomic comparisonInfectious and parasitic diseasesRC109-216ENVirulence, Vol 11, Iss 1, Pp 23-31 (2020)
institution	DOAJ
collection	DOAJ
language	EN
topic	vibrio mimicus virulence factors genome element genomic comparison Infectious and parasitic diseases RC109-216
spellingShingle	vibrio mimicus virulence factors genome element genomic comparison Infectious and parasitic diseases RC109-216 Zehui Yu Erlong Wang Yi Geng Kaiyu Wang Defang Chen Xiaoli Huang Ping Ouyang Zhicai Zuo Chao Huang Jing Fang Lizi Yin Hongrui Guo Zhijun Zhong Complete genome analysis of Vibrio mimicus strain SCCF01, a highly virulent isolate from the freshwater catfish
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.
format	article
author	Zehui Yu Erlong Wang Yi Geng Kaiyu Wang Defang Chen Xiaoli Huang Ping Ouyang Zhicai Zuo Chao Huang Jing Fang Lizi Yin Hongrui Guo Zhijun Zhong
author_facet	Zehui Yu Erlong Wang Yi Geng Kaiyu Wang Defang Chen Xiaoli Huang Ping Ouyang Zhicai Zuo Chao Huang Jing Fang Lizi Yin Hongrui Guo Zhijun Zhong
author_sort	Zehui Yu
title	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_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_sort	complete genome analysis of vibrio mimicus strain sccf01, a highly virulent isolate from the freshwater catfish
publisher	Taylor & Francis Group
publishDate	2020
url	https://doaj.org/article/e1cb7c9529c24e71b6cbbad6709f36b0
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Complete genome analysis of Vibrio mimicus strain SCCF01, a highly virulent isolate from the freshwater catfish

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