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Citation for Study 16780

Citation title: "Comparative genomic analysis of clinical and environmental strains provides insight into the pathogenicity and evolution of Vibrio parahaemolyticus".

Study name: "Comparative genomic analysis of clinical and environmental strains provides insight into the pathogenicity and evolution of Vibrio parahaemolyticus".

This study is part of submission 16780 (Status: Published).

Citation

Li L., Wong H., Nong W., Cheung M., Law P., Kam K., & Kwan H. 2014. Comparative genomic analysis of clinical and environmental strains provides insight into the pathogenicity and evolution of Vibrio parahaemolyticus. BMC Genomics, 15(15): 1135.

Authors

• Li L. (submitter)
• Wong H.
• Nong W.
• Cheung M.
• Law P.
• Kam K.
• Kwan H.

Abstract

Vibrio parahaemolyticus is a Gram-negative halophilic bacterium. Infections with the bacterium could become systemic and can be life-threatening to immunocompromised individuals. Genome sequences of a few clinical isolates of V. parahaemolyticus are currently available, but the genome dynamics across the species and virulence potential of environmental strains on a genome-scale have not been described before. Here we present genome sequences of four V. parahaemolyticus clinical strains from stool samples of patients and five environmental strains in Hong Kong. Phylogenomics analysis based on single nucleotide polymorphisms revealed a clear distinction between the clinical and environmental isolates. A new gene cluster belonging to the biofilm associated proteins of V. parahaemolyticus was found in clincial strains. In addition, a novel small genomic island frequently found among clinical isolates was reported. A few environmental strains were found harboring virulence genes and prophage elements, indicating their virulence potential. A unique biphenyl degradation pathway was also reported. A database for V. parahaemolyticus (http://kwanlab.bio.cuhk.edu.hk/vp) was constructed here as a platform to access and analyze genome sequences and annotations of the bacterium. We have performed a comparative genomics analysis of clinical and environmental strains of V. parahaemolyticus. Our analyses could facilitate understanding of the phylogenetic diversity and niche adaptation of this bacterium.

Keywords

comparative genomics, genome evolution

External links

• DOI: 10.1186/1471-2164-15-1135
• Other URL: http://www.biomedcentral.com/1471-2164/15/1135/abstract

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S16780
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref23971,
  	 author = {Lei  Li and Hin-chung  Wong and Wenyan  Nong and Man Kit  Cheung and Patrick Tik Wan  Law and Kai Man  Kam and Hoi Shan  Kwan},
  	 title = {Comparative genomic analysis of clinical and environmental strains provides insight into the pathogenicity and evolution of Vibrio parahaemolyticus},
  	 year = {2014},
  	 keywords = {comparative genomics, genome evolution},
  	 doi = {10.1186/1471-2164-15-1135},
  	 url = {http://www.biomedcentral.com/1471-2164/15/1135/abstract},
  	 pmid = {},
  	 journal = {BMC Genomics},
  	 volume = {15},
  	 number = {15},
  	 pages = {1135},
  	 abstract = {Vibrio parahaemolyticus is a Gram-negative halophilic bacterium. Infections with the bacterium could become systemic and can be life-threatening to immunocompromised individuals. Genome sequences of a few clinical isolates of V. parahaemolyticus are currently available, but the genome dynamics across the species and virulence potential of environmental strains on a genome-scale have not been described before. Here we present genome sequences of four V. parahaemolyticus clinical strains from stool samples of patients and five environmental strains in Hong Kong. Phylogenomics analysis based on single nucleotide polymorphisms revealed a clear distinction between the clinical and environmental isolates. A new gene cluster belonging to the biofilm associated proteins of V. parahaemolyticus was found in clincial strains. In addition, a novel small genomic island frequently found among clinical isolates was reported. A few environmental strains were found harboring virulence genes and prophage elements, indicating their virulence potential. A unique biphenyl degradation pathway was also reported. A database for V. parahaemolyticus (http://kwanlab.bio.cuhk.edu.hk/vp) was constructed here as a platform to access and analyze genome sequences and annotations of the bacterium. We have performed a comparative genomics analysis of clinical and environmental strains of V. parahaemolyticus. Our analyses could facilitate understanding of the phylogenetic diversity and niche adaptation of this bacterium.}
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 23971
  AU  - Li,Lei 
  AU  - Wong,Hin-chung 
  AU  - Nong,Wenyan 
  AU  - Cheung,Man Kit 
  AU  - Law,Patrick Tik Wan 
  AU  - Kam,Kai Man 
  AU  - Kwan,Hoi Shan 
  T1  - Comparative genomic analysis of clinical and environmental strains provides insight into the pathogenicity and evolution of Vibrio parahaemolyticus
  PY  - 2014
  KW  - comparative genomics
  KW  - genome evolution
  UR  - http://www.biomedcentral.com/1471-2164/15/1135/abstract
  N2  - Vibrio parahaemolyticus is a Gram-negative halophilic bacterium. Infections with the bacterium could become systemic and can be life-threatening to immunocompromised individuals. Genome sequences of a few clinical isolates of V. parahaemolyticus are currently available, but the genome dynamics across the species and virulence potential of environmental strains on a genome-scale have not been described before. Here we present genome sequences of four V. parahaemolyticus clinical strains from stool samples of patients and five environmental strains in Hong Kong. Phylogenomics analysis based on single nucleotide polymorphisms revealed a clear distinction between the clinical and environmental isolates. A new gene cluster belonging to the biofilm associated proteins of V. parahaemolyticus was found in clincial strains. In addition, a novel small genomic island frequently found among clinical isolates was reported. A few environmental strains were found harboring virulence genes and prophage elements, indicating their virulence potential. A unique biphenyl degradation pathway was also reported. A database for V. parahaemolyticus (http://kwanlab.bio.cuhk.edu.hk/vp) was constructed here as a platform to access and analyze genome sequences and annotations of the bacterium. We have performed a comparative genomics analysis of clinical and environmental strains of V. parahaemolyticus. Our analyses could facilitate understanding of the phylogenetic diversity and niche adaptation of this bacterium.
  L3  - 10.1186/1471-2164-15-1135
  JF  - BMC Genomics
  VL  - 15
  IS  - 15
  ER  -