Phylogeographical analysis of the dominant multidrug-resistant H58 clade of Salmonella Typhi identifies inter- and intracontinental transmission events - Institut Pasteur Access content directly
Journal Articles Nature Genetics Year : 2015

Phylogeographical analysis of the dominant multidrug-resistant H58 clade of Salmonella Typhi identifies inter- and intracontinental transmission events

Vanessa Wong (1, 2) , Stephen Baker (3, 4, 5) , Derek Pickard (1) , Julian Parkhill (1) , Andrew Page (1) , Nicholas Feasey (6) , Robert Kingsley (1, 7) , Nicholas Thomson (1, 5) , Jacqueline Keane (1) , François-Xavier Weill (8) , David Edwards (9) , Jane Hawkey (9) , Simon Harris (1) , Alison Mather (1) , Amy Cain (1) , James Hadfield (1) , Peter Hart (10) , Nga Tran Vu Thieu (3) , Elizabeth E Klemm (1) , Dafni Glinos (1) , Robert Breiman (11, 12, 13) , Conall Watson (5) , Samuel Kariuki (1, 11) , Melita A. Gordon (14) , Robert S Heyderman (15) , Chinyere Okoro (1) , Jan Jacobs (16, 17) , Octavie Lunguya (18, 19) , W John Edmunds (5) , Chisomo Msefula (15) , José A. Chabalgoity (20) , Mike Kama (21) , Kylie Jenkins (21) , Shanta Dutta (22) , Florian Marks (23) , Josefina Campos (24) , Corinne Thompson (3, 4) , Stephen Obaro (25, 26, 27) , Calman Maclennan (1, 10, 28) , Christiane Dolecek (4) , Karen H Keddy (29) , Anthony Smith (29) , Christopher Parry (5, 30) , Abhilasha Karkey (3) , E Kim Mulholland (5, 31) , James Campbell (3, 4) , Sabina Dongol (32) , Buddha Basnyat (32) , Muriel Dufour (33) , Don Bandaranayake (33) , Take Toleafoa Naseri (34) , Shalini Pravin Singh (35) , Mochammad Hatta (36) , Paul Newton (37, 4) , Robert Onsare (11) , Lupeoletalalei Isaia (38) , David Dance (37, 4) , Viengmon Davong (37) , Guy E Thwaites (3, 4) , Lalith Wijedoru (39, 40) , John Crump (41) , Elizabeth de Pinna (42) , Satheesh Nair (42) , Eric Nilles (35) , Duy Pham Thanh (3) , Paul Turner (39, 4, 43) , Sona Soeng (43) , Mary Valcanis (44) , Joan Powling (44) , Karolina Dimovski (44) , Geoff Hogg (44) , Jeremy Farrar (3, 4) , Kathryn Holt (9) , Gordon Dougan (1)
1 The Wellcome Trust Sanger Institute [Cambridge]
2 Addenbrooke's Hospital
3 OUCRU - Oxford University Clinical Research Unit [Ho Chi Minh City]
4 University of Oxford
5 LSHTM - London School of Hygiene and Tropical Medicine
6 LSTM - Liverpool School of Tropical Medicine
7 Institute of Food Research [Norwich]
8 BPE - Bactéries pathogènes entériques
9 University of Melbourne
10 University of Birmingham [Birmingham]
11 KEMRI - Kenya Medical Research Institute
12 CDC - Centers for Disease Control and Prevention [Atlanta]
13 EGHI - Emory Global Health Institute [Atlanta]
14 University of Liverpool
15 University of Malawi
16 ITM - Institute of Tropical Medicine [Antwerp]
17 KU Leuven - Catholic University of Leuven = Katholieke Universiteit Leuven
18 INRB - Institut National de Recherche Biomédicale [Kinshasa]
19 UNIKIN - University of Kinshasa
20 Universidad de Montevideo
21 Ministry of Health [Fiji]
22 National Institute of Cholera and Enteric Diseases
23 IVI - International Vaccine Institute
24 ANLIS - Administración Nacional de Laboratorios e Institutos de Salud ‘Carlos Malbran'
25 University of Nebraska Medical Center
26 University of Abuja
27 Bingham University
28 NVGH - Novartis Vaccines Institute for Global Health
29 WITS - University of the Witwatersrand [Johannesburg]
30 Nagasaki University
31 MCRI - Murdoch Children's Research Institute
32 Oxford University Clinical Research Unit [Kathmandu]
33 ESR - Institute of Environmental Science and Research
34 Ministry of Health [Samoa]
35 OMS / WHO - Organisation Mondiale de la Santé / World Health Organization Office [Genève, Suisse]
36 Unhas - Hasanuddin University
37 LOMWRU - Lao-Oxford-Mahosot Hospital-Wellcome Trust Research Unit
38 TTM - Tupua Tamasese Meaole Hospital
39 Mahidol University [Bangkok]
40 Chelsea and Westminster Hospital
41 University of Otago [Dunedin, Nouvelle-Zélande]
42 Public Health England [London]
43 AHC - Angkor Hospital for Children
44 The Peter Doherty Institute for Infection and Immunity [Melbourne]
David Edwards
  • Function : Author
  • PersonId : 929108

Abstract

The emergence of multidrug-resistant (MDR) typhoid is a major global health threat affecting many countries where the disease is endemic. Here whole-genome sequence analysis of 1,832 Salmonella enterica serovar Typhi (S. Typhi) identifies a single dominant MDR lineage, H58, that has emerged and spread throughout Asia and Africa over the last 30 years. Our analysis identifies numerous transmissions of H58, including multiple transfers from Asia to Africa and an ongoing, unrecognized MDR epidemic within Africa itself. Notably, our analysis indicates that H58 lineages are displacing antibiotic-sensitive isolates, transforming the global population structure of this pathogen. H58 isolates can harbor a complex MDR element residing either on transmissible IncHI1 plasmids or within multiple chromosomal integration sites. We also identify new mutations that define the H58 lineage. This phylogeographical analysis provides a framework to facilitate global management of MDR typhoid and is applicable to similar MDR lineages emerging in other bacterial species.

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Bacteriology

Dates and versions

pasteur-02043698 , version 1 (21-02-2019)

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Vanessa Wong, Stephen Baker, Derek Pickard, Julian Parkhill, Andrew Page, et al.. Phylogeographical analysis of the dominant multidrug-resistant H58 clade of Salmonella Typhi identifies inter- and intracontinental transmission events. Nature Genetics, 2015, 47 (6), pp.632-639. ⟨10.1038/ng.3281⟩. ⟨pasteur-02043698⟩

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