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Complete genome of Vibrio parahaemolyticus FORC014 isolated from the toothfish

BACKGROUND: Foodborne illness can occur due to various pathogenic bacteria such as Staphylococcus aureus, Escherichia coli and Vibrio parahaemolyticus, and can cause severe gastroenteritis symptoms. In this study, we completed the genome sequence of a foodborne pathogen V. parahaemolyticus FORC_014,...

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Autores principales: Ahn, Sojin, Chung, Han Young, Lim, Sooyeon, Kim, Kwondo, Kim, Suyeon, Na, Eun Jung, Caetano-Anolles, Kelsey, Lee, Ju-Hoon, Ryu, Sangryeol, Choi, Sang Ho, Kim, Heebal
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2016
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5114773/
https://www.ncbi.nlm.nih.gov/pubmed/27891183
http://dx.doi.org/10.1186/s13099-016-0134-0
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author Ahn, Sojin
Chung, Han Young
Lim, Sooyeon
Kim, Kwondo
Kim, Suyeon
Na, Eun Jung
Caetano-Anolles, Kelsey
Lee, Ju-Hoon
Ryu, Sangryeol
Choi, Sang Ho
Kim, Heebal
author_facet Ahn, Sojin
Chung, Han Young
Lim, Sooyeon
Kim, Kwondo
Kim, Suyeon
Na, Eun Jung
Caetano-Anolles, Kelsey
Lee, Ju-Hoon
Ryu, Sangryeol
Choi, Sang Ho
Kim, Heebal
author_sort Ahn, Sojin
collection PubMed
description BACKGROUND: Foodborne illness can occur due to various pathogenic bacteria such as Staphylococcus aureus, Escherichia coli and Vibrio parahaemolyticus, and can cause severe gastroenteritis symptoms. In this study, we completed the genome sequence of a foodborne pathogen V. parahaemolyticus FORC_014, which was isolated from suspected contaminated toothfish from South Korea. Additionally, we extended our knowledge of genomic characteristics of the FORC_014 strain through comparative analysis using the complete sequences of other V. parahaemolyticus strains whose complete genomes have previously been reported. RESULTS: The complete genome sequence of V. parahaemolyticus FORC_014 was generated using the PacBio RS platform with single molecule, real-time (SMRT) sequencing. The FORC_014 strain consists of two circular chromosomes (3,241,330 bp for chromosome 1 and 1,997,247 bp for chromosome 2), one plasmid (51,383 bp), and one putative phage sequence (96,896 bp). The genome contains a total of 4274 putative protein coding sequences, 126 tRNA genes and 34 rRNA genes. Furthermore, we found 33 type III secretion system 1 (T3SS1) related proteins and 15 type III secretion system 2 (T3SS2) related proteins on chromosome 1. This is the first reported result of Type III secretion system 2 located on chromosome 1 of V. parahaemolyticus without thermostable direct hemolysin (tdh) and thermostable direct hemolysin-related hemolysin (trh). CONCLUSIONS: Through investigation of the complete genome sequence of V. parahaemolyticus FORC_014, which differs from previously reported strains, we revealed two type III secretion systems (T3SS1, T3SS2) located on chromosome 1 which do not include tdh and trh genes. We also identified several virulence factors carried by our strain, including iron uptake system, hemolysin and secretion system. This result suggests that the FORC_014 strain may be one pathogen responsible for foodborne illness outbreak. Our results provide significant genomic clues which will assist in future understanding of virulence at the genomic level and help distinguish between clinical and non-clinical isolates. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s13099-016-0134-0) contains supplementary material, which is available to authorized users.
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spelling pubmed-51147732016-11-25 Complete genome of Vibrio parahaemolyticus FORC014 isolated from the toothfish Ahn, Sojin Chung, Han Young Lim, Sooyeon Kim, Kwondo Kim, Suyeon Na, Eun Jung Caetano-Anolles, Kelsey Lee, Ju-Hoon Ryu, Sangryeol Choi, Sang Ho Kim, Heebal Gut Pathog Genome Report BACKGROUND: Foodborne illness can occur due to various pathogenic bacteria such as Staphylococcus aureus, Escherichia coli and Vibrio parahaemolyticus, and can cause severe gastroenteritis symptoms. In this study, we completed the genome sequence of a foodborne pathogen V. parahaemolyticus FORC_014, which was isolated from suspected contaminated toothfish from South Korea. Additionally, we extended our knowledge of genomic characteristics of the FORC_014 strain through comparative analysis using the complete sequences of other V. parahaemolyticus strains whose complete genomes have previously been reported. RESULTS: The complete genome sequence of V. parahaemolyticus FORC_014 was generated using the PacBio RS platform with single molecule, real-time (SMRT) sequencing. The FORC_014 strain consists of two circular chromosomes (3,241,330 bp for chromosome 1 and 1,997,247 bp for chromosome 2), one plasmid (51,383 bp), and one putative phage sequence (96,896 bp). The genome contains a total of 4274 putative protein coding sequences, 126 tRNA genes and 34 rRNA genes. Furthermore, we found 33 type III secretion system 1 (T3SS1) related proteins and 15 type III secretion system 2 (T3SS2) related proteins on chromosome 1. This is the first reported result of Type III secretion system 2 located on chromosome 1 of V. parahaemolyticus without thermostable direct hemolysin (tdh) and thermostable direct hemolysin-related hemolysin (trh). CONCLUSIONS: Through investigation of the complete genome sequence of V. parahaemolyticus FORC_014, which differs from previously reported strains, we revealed two type III secretion systems (T3SS1, T3SS2) located on chromosome 1 which do not include tdh and trh genes. We also identified several virulence factors carried by our strain, including iron uptake system, hemolysin and secretion system. This result suggests that the FORC_014 strain may be one pathogen responsible for foodborne illness outbreak. Our results provide significant genomic clues which will assist in future understanding of virulence at the genomic level and help distinguish between clinical and non-clinical isolates. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s13099-016-0134-0) contains supplementary material, which is available to authorized users. BioMed Central 2016-11-17 /pmc/articles/PMC5114773/ /pubmed/27891183 http://dx.doi.org/10.1186/s13099-016-0134-0 Text en © The Author(s) 2016 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided 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 Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Genome Report
Ahn, Sojin
Chung, Han Young
Lim, Sooyeon
Kim, Kwondo
Kim, Suyeon
Na, Eun Jung
Caetano-Anolles, Kelsey
Lee, Ju-Hoon
Ryu, Sangryeol
Choi, Sang Ho
Kim, Heebal
Complete genome of Vibrio parahaemolyticus FORC014 isolated from the toothfish
title Complete genome of Vibrio parahaemolyticus FORC014 isolated from the toothfish
title_full Complete genome of Vibrio parahaemolyticus FORC014 isolated from the toothfish
title_fullStr Complete genome of Vibrio parahaemolyticus FORC014 isolated from the toothfish
title_full_unstemmed Complete genome of Vibrio parahaemolyticus FORC014 isolated from the toothfish
title_short Complete genome of Vibrio parahaemolyticus FORC014 isolated from the toothfish
title_sort complete genome of vibrio parahaemolyticus forc014 isolated from the toothfish
topic Genome Report
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5114773/
https://www.ncbi.nlm.nih.gov/pubmed/27891183
http://dx.doi.org/10.1186/s13099-016-0134-0
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