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Title: An extended genotyping framework for Salmonella enterica serovar Typhi, the cause of human typhoid
Authors: Vanessa K. Wong
Stephen Baker
Thomas R. Connor
Derek Pickard
Andrew J. Page
Jayshree Dave
Niamh Murphy
Richard Holliman
Armine Sefton
Michael Millar
Zoe A. Dyson
Gordon Dougan
Kathryn E. Holt
Julian Parkhill
Robert A. Kingsley
Nicholas R. Thomson
Jacqueline A. Keane
James Hadfield
Elizabeth J. Klemm
Simon R. Harris
Amy K. Cain
Samuel Kariuki
Chinyere Okoro
Calman A. MacLennan
Nga Tran Vu Thieu
Duy Pham Thanh
Corinne Thompson
Christiane Dolecek
James I. Campbell
Guy Thwaites
Jeremy Farrar
Paul N. Newton
David Dance
Paul Turner
E. Kim Mulholland
Jane Hawkey
David J. Edwards
Nicholas A. Feasey
François Xavier Weill
Simon Le Hello
Peter J. Hart
Robert F. Breiman
Robert S. Onsare
Conall H. Watson
W. John Edmunds
Melita A. Gordon
Robert S. Heyderman
Chisomo Msefula
Jan Jacobs
Octavie Lunguya
Jose A. Chabalgoity
Mike Kama
Kylie Jenkins
Shanta Dutta
Florian Marks
Josefina Campos
Stephen Obaro
Karen H. Keddy
Anthony M. Smith
Christopher M. Parry
Abhilasha Karkey
Sabina Dongol
Buddha Basnyat
Amit Arjyal
Muriel Dufour
Don Bandaranayake
Wellcome Trust Sanger Institute
Addenbrooke's Hospital
Nuffield Department of Clinical Medicine
London School of Hygiene & Tropical Medicine
Cardiff University
Public Health England
Barts and The London NHS Trust
University of Melbourne
Bio21 Molecular Science and Biotechnology Institute
Liverpool School of Tropical Medicine
Quadram Institute Bioscience
Institut Pasteur, Paris
University of Birmingham
Kenya Medical Research Institute
Centers for Disease Control and Prevention
Emory Global Health Institute
University of Liverpool
University of Malawi College of Medicine
Prins Leopold Instituut voor Tropische Geneeskunde
KU Leuven
National Institute for Biomedical Research
University Hospital of Kinshasa
Universidad de la Republica Instituto de Higiene
Ministry of Health
National Institute of Cholera and Enteric Diseases India
International Vaccine Institute, Seoul
ANLIS-Carlos G Malbran Institute
University of Nebraska Medical Center
University of Abuja
Bingham University
University of Witwatersrand
Nagasaki University
Oxford University Clinical Research Unit
Murdoch Children's Research Institute
Institute of Environmental Science and Research Limited (ESR)
ESR - Kenepuru Science Centre
Samoa Ministry of Health
Organisation Mondiale de la Sante
Hasanuddin University
Mahosot Hospital
Tupua Tamasese Meaole Hospital
Mahidol University
Chelsea and Westminster Hospital
University of Otago
Angkor Hospital for Children
University of Cambridge
St Augustine's Hospital
Keywords: Biochemistry, Genetics and Molecular Biology;Chemistry
Issue Date: 1-Jan-2016
Citation: Nature Communications. Vol.7, (2016)
Abstract: © The Author(s) 2016. The 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.
ISSN: 20411723
Appears in Collections:Scopus 2016-2017

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