Dissemin is shutting down on January 1st, 2025

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Nature Research, Nature Communications, 1(7), 2016

DOI: 10.1038/ncomms12827

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An extended genotyping framework for Salmonella enterica serovar Typhi, the cause of human typhoid

Journal article published in 2016 by Elizabeth de Pinna, Vanessa K. Wong, Dyson Za, Thomas Richard Connor, Wong Vk, Stephen Baker, Andrew J. Page, Julian Parkhill, Robert A. Kingsley, Derek Pickard, Nicholas R. Thomson, Connor Tr, Jacqueline A. Keane, Nga Tran Vu Thieu, James Hadfield and other authors.
This paper is made freely available by the publisher.
This paper is made freely available by the publisher.

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Abstract

AbstractThe population of Salmonella enterica serovar Typhi (S. Typhi), the causative agent of typhoid fever, exhibits limited DNA sequence variation, which complicates efforts to rationally discriminate individual isolates. Here we utilize data from whole-genome sequences (WGS) of nearly 2,000 isolates sourced from over 60 countries to generate a robust genotyping scheme that is phylogenetically informative and compatible with a range of assays. These data show that, with the exception of the rapidly disseminating H58 subclade (now designated genotype 4.3.1), the global S. Typhi population is highly structured and includes dozens of subclades that display geographical restriction. The genotyping approach presented here can be used to interrogate local S. Typhi populations and help identify recent introductions of S. Typhi into new or previously endemic locations, providing information on their likely geographical source. This approach can be used to classify clinical isolates and provides a universal framework for further experimental investigations.