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Complete genome analysis of clinical Shigella strains reveals plasmid pSS1653 with resistance determinants: a triumph of hybrid approach

Shigella is ranked as the second leading cause of diarrheal disease worldwide. Though infection occurs in people of all ages, most of the disease burden constitutes among the children less than 5 years in low and middle income countries. Recent increasing incidence of drug resistant strains make thi...

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Autores principales: Muthuirulandi Sethuvel, Dhiviya Prabaa, Veeraraghavan, Balaji, Vasudevan, Karthick, Devanga Ragupathi, Naveen Kumar, Murugan, Dhivya, Walia, Kamini, Anandan, Shalini
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6836418/
https://www.ncbi.nlm.nih.gov/pubmed/31709015
http://dx.doi.org/10.1186/s13099-019-0334-5
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author Muthuirulandi Sethuvel, Dhiviya Prabaa
Veeraraghavan, Balaji
Vasudevan, Karthick
Devanga Ragupathi, Naveen Kumar
Murugan, Dhivya
Walia, Kamini
Anandan, Shalini
author_facet Muthuirulandi Sethuvel, Dhiviya Prabaa
Veeraraghavan, Balaji
Vasudevan, Karthick
Devanga Ragupathi, Naveen Kumar
Murugan, Dhivya
Walia, Kamini
Anandan, Shalini
author_sort Muthuirulandi Sethuvel, Dhiviya Prabaa
collection PubMed
description Shigella is ranked as the second leading cause of diarrheal disease worldwide. Though infection occurs in people of all ages, most of the disease burden constitutes among the children less than 5 years in low and middle income countries. Recent increasing incidence of drug resistant strains make this as a priority pathogen under the antimicrobial resistance surveillance by WHO. Despite this, only limited genomic studies on drug resistant Shigella exists. Here we report the first complete genome of clinical S. flexneri serotype 2a and S. sonnei strains using a hybrid approach of both long-read MinION (Oxford Nanopore Technologies) and short-read Ion Torrent 400 bp sequencing platforms. The utilization of this novel approach in the present study helped to identify the complete plasmid sequence of pSS1653 with structural genetic information of AMR genes such as sulII, tetA, tetR, aph(6)-Id and aph(3′’)-Ib. Identification of AMR genes in mobile elements in this human-restricted enteric pathogen is a potential threat for dissemination to other gut pathogens. The information on Shigella at genome level could help us to understand the genome dynamics of existing and emerging resistant clones.
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spelling pubmed-68364182019-11-08 Complete genome analysis of clinical Shigella strains reveals plasmid pSS1653 with resistance determinants: a triumph of hybrid approach Muthuirulandi Sethuvel, Dhiviya Prabaa Veeraraghavan, Balaji Vasudevan, Karthick Devanga Ragupathi, Naveen Kumar Murugan, Dhivya Walia, Kamini Anandan, Shalini Gut Pathog Genome Report Shigella is ranked as the second leading cause of diarrheal disease worldwide. Though infection occurs in people of all ages, most of the disease burden constitutes among the children less than 5 years in low and middle income countries. Recent increasing incidence of drug resistant strains make this as a priority pathogen under the antimicrobial resistance surveillance by WHO. Despite this, only limited genomic studies on drug resistant Shigella exists. Here we report the first complete genome of clinical S. flexneri serotype 2a and S. sonnei strains using a hybrid approach of both long-read MinION (Oxford Nanopore Technologies) and short-read Ion Torrent 400 bp sequencing platforms. The utilization of this novel approach in the present study helped to identify the complete plasmid sequence of pSS1653 with structural genetic information of AMR genes such as sulII, tetA, tetR, aph(6)-Id and aph(3′’)-Ib. Identification of AMR genes in mobile elements in this human-restricted enteric pathogen is a potential threat for dissemination to other gut pathogens. The information on Shigella at genome level could help us to understand the genome dynamics of existing and emerging resistant clones. BioMed Central 2019-11-06 /pmc/articles/PMC6836418/ /pubmed/31709015 http://dx.doi.org/10.1186/s13099-019-0334-5 Text en © The Author(s) 2019 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
Muthuirulandi Sethuvel, Dhiviya Prabaa
Veeraraghavan, Balaji
Vasudevan, Karthick
Devanga Ragupathi, Naveen Kumar
Murugan, Dhivya
Walia, Kamini
Anandan, Shalini
Complete genome analysis of clinical Shigella strains reveals plasmid pSS1653 with resistance determinants: a triumph of hybrid approach
title Complete genome analysis of clinical Shigella strains reveals plasmid pSS1653 with resistance determinants: a triumph of hybrid approach
title_full Complete genome analysis of clinical Shigella strains reveals plasmid pSS1653 with resistance determinants: a triumph of hybrid approach
title_fullStr Complete genome analysis of clinical Shigella strains reveals plasmid pSS1653 with resistance determinants: a triumph of hybrid approach
title_full_unstemmed Complete genome analysis of clinical Shigella strains reveals plasmid pSS1653 with resistance determinants: a triumph of hybrid approach
title_short Complete genome analysis of clinical Shigella strains reveals plasmid pSS1653 with resistance determinants: a triumph of hybrid approach
title_sort complete genome analysis of clinical shigella strains reveals plasmid pss1653 with resistance determinants: a triumph of hybrid approach
topic Genome Report
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6836418/
https://www.ncbi.nlm.nih.gov/pubmed/31709015
http://dx.doi.org/10.1186/s13099-019-0334-5
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