A genomic appraisal of invasive Salmonella Typhimurium and associated antibiotic resistance in sub-Saharan Africa

被引：4

作者：

Van Puyvelde, Sandra ^{[1
,2
,3
]}

de Block, Tessa ^{[4
]}

Sridhar, Sushmita ^{[1
,2
,5
,6
]}

Bawn, Matt ^{[7
,8
,9
]}

Kingsley, Robert A. ^{[7
,10
]}

Ingelbeen, Brecht ^{[4
,11
]}

Beale, Mathew A. ^{[2
]}

Barbe, Barbara ^{[4
]}

Jeon, Hyon Jin ^{[1
,12
,13
]}

Mbuyi-Kalonji, Lisette ^{[14
,15
]}

Phoba, Marie-France ^{[14
,15
]}

Falay, Dadi ^{[16
]}

Martiny, Delphine ^{[17
,18
]}

Vandenberg, Olivier ^{[17
,19
]}

Affolabi, Dissou ^{[20
]}

Rutanga, Jean Pierre ^{[4
,21
]}

Ceyssens, Pieter-Jan ^{[22
]}

Mattheus, Wesley ^{[22
]}

Cuypers, Wim L. ^{[4
,23
]}

van der Sande, Marianne A. B. ^{[4
,11
]}

Park, Se Eun ^{[12
,24
]}

Kariuki, Simon ^{[25
]}

Otieno, Kephas ^{[25
]}

Lusingu, John P. A. ^{[26
,27
]}

Mbwana, Joyce R. ^{[26
]}

Adjei, Samuel ^{[28
]}

Sarfo, Anima ^{[28
]}

Agyei, Seth O. ^{[28
]}

Asante, Kwaku P. ^{[29
]}

Otieno, Walter ^{[30
]}

Otieno, Lucas ^{[30
]}

Tahita, Marc C. ^{[31
]}

Lompo, Palpouguini ^{[31
]}

Hoffman, Irving F. ^{[32
]}

Mvalo, Tisungane ^{[32
,33
]}

Msefula, Chisomo ^{[34
]}

Hassan-Hanga, Fatimah ^{[35
,36
]}

Obaro, Stephen ^{[37
,38
]}

Mackenzie, Grant ^{[39
,40
,41
]}

Deborggraeve, Stijn ^{[4
]}

Feasey, Nicholas ^{[32
,42
]}

Marks, Florian ^{[1
,12
,13
,43
]}

Maclennan, Calman A. ^{[44
,45
]}

Thomson, Nicholas R. ^{[2
,40
]}

Jacobs, Jan ^{[4
,46
]}

Dougan, Gordon ^{[1
]}

Kariuki, Samuel ^{[47
]}

Lunguya, Octavie ^{[14
,15
]}

机构：

[1] Univ Cambridge, Cambridge Inst Therapeut Immunol & Infect Dis, Sch Clin Med, Cambridge Biomed Campus, Cambridge CB2 0AW, England

[2] Wellcome Sanger Inst, Parasites & Microbes Programme, Wellcome Genome Campus, Cambridge, England

[3] Univ Antwerp, Vaccine & Infect Dis Inst, Lab Med Microbiol, Antwerp, Belgium

[4] Inst Trop Med, Antwerp, Belgium

[5] Massachusetts Gen Hosp, Div Infect Dis, Boston, MA USA

[6] Harvard Med Sch, Dept Med, Boston, MA USA

[7] Quadram Inst Biosci, Norwich, England

[8] Earlham Inst, Norwich, England

[9] Univ Leeds, Fac Biol Sci, Leeds, England

[10] Univ East Anglia, Sch Biol Sci, Norwich, England

[11] Univ Utrecht, Univ Med Ctr Utrecht, Julius Ctr Hlth Sci & Primary Care, Utrecht, Netherlands

[12] Int Vaccine Inst, 1 Gwanak Ro, Seoul 08826, South Korea

[13] Univ Antananarivo, Madagascar Inst Vaccine Res, Antananarivo, Madagascar

[14] Univ Teaching Hosp Kinshasa, Dept Med Biol, Kinshasa, DEM REP CONGO

[15] Natl Inst Biomed Res, Kinshasa, DEM REP CONGO

[16] Univ Hosp Kisangani, Dept Pediat, Kisangani, DEM REP CONGO

[17] Univ Libre Bruxelles ULB, Univ Lab Brussel ULB, Lab Hosp Univ Bruxelles LHUB, Dept Microbiol, B-1000 Brussels, Belgium

[18] Univ Mons UMONS, Fac Med & Pharm, B-7000 Mons, Belgium

[19] UCL, Fac Med Sci, Div Infect & Immun, London, England

[20] Ctr Natl Hosp Univ Hubert Koutoukou Maga, Cotonou, Benin

[21] Univ Rwanda, Coll Sci & Technol, Kigali, Rwanda

[22] Natl Reference Ctr Salmonella, Unit Human Bacterial Dis, Sciensano J Wytsmanstraat 14, B-1050 Brussels, Belgium

[23] Univ Antwerp, Dept Comp Sci, Antwerp, Belgium

[24] Yonsei Univ, Grad Sch Publ Hlth, Seoul 03722, South Korea

[25] Kenya Med Res Inst KEMRI, Ctr Global Hlth Res, Kisumu, Kenya

[26] Natl Inst Med Res, Tanga, Tanzania

[27] Univ Copenhagen, Ctr Med Parasitol, Dept Immunol & Microbiol, Copenhagen, Denmark

[28] Univ Hlth & Allied Sci, Ho, Volta, Ghana

[29] Kintampo Hlth Res Ctr, Ghana Hlth Serv, Res & Dev Div, Ho, Volta, Ghana

[30] Walter Reed Project, KEMRI, Kombewa, Kenya

[31] Inst Rech & Sci Sante, Direct Regionale du Ctr Ouest, Clin Res Unit Nanoro, Nanoro, Burkina Faso

[32] Univ North Carolina Project, Lilongwe, Malawi

[33] Univ North Carolina Chapel Hill, Sch Med, Dept Pediat, Chapel Hill, NC USA

[34] Kamuzu Univ Hlth Sci, Malawi Liverpool Wellcome Res Programme, Blantyre, Malawi

[35] Bayero Univ, Dept Paediat, Kano, Nigeria

[36] Aminu Kano Teaching Hosp, Kano, Nigeria

[37] Univ Nebraska Med Ctr, Omaha, NE USA

[38] Int Fdn Infect Dis Nigeria IFAIN, Abuja, Nigeria

[39] London Sch Hyg & Trop Med, Med Res Council Unit Gambia, Fajara, Gambia

[40] London Sch Hyg & Trop Med, Keppel St,Bloomsbury, London WC1E 7HT, England

[41] Murdoch Childrens Res Inst, Melbourne, Vic, Australia

[42] Univ Liverpool Liverpool Sch Trop Med, Dept Clin Sci, Liverpool, England

[43] Heidelberg Univ, Heidelberg Inst Global Hlth, Heidelberg, Germany

[44] Univ Oxford, Jenner Inst, Nuffield Dept Med, Oxford, Oxfordshire, England

[45] Bill & Melinda Gates Fdn, Enter & Diarrheal Dis, Global Hlth, Seattle, WA USA

[46] Katholieke Univ Leuven, Dept Microbiol Immunol & Transplantat, Leuven, Belgium

[47] Kenya Govt Med Res Ctr, Ctr Microbiol Res, Nairobi, Kenya

来源：

NATURE COMMUNICATIONS | 2023年 / 14卷 / 01期

基金：

英国医学研究理事会; 英国生物技术与生命科学研究理事会; 英国惠康基金;

关键词：

BLOOD-STREAM INFECTION; CLINICAL-FEATURES; ESCHERICHIA-COLI; SEQUENCE; DISEASE; GENE; CONGO; TOOL;

D O I：

10.1038/s41467-023-41152-6

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Invasive non-typhoidal Salmonella (iNTS) disease manifesting as bloodstream infection with high mortality is responsible for a huge public health burden in sub-Saharan Africa. Salmonella enterica serovar Typhimurium (S. Typhimurium) is the main cause of iNTS disease in Africa. By analysing whole genome sequence data from 1303 S. Typhimurium isolates originating from 19 African countries and isolated between 1979 and 2017, here we show a thorough scaled appraisal of the population structure of iNTS disease caused by S. Typhimurium across many of Africa's most impacted countries. At least six invasive S. Typhimurium clades have already emerged, with ST313 lineage 2 or ST313-L2 driving the current pandemic. ST313-L2 likely emerged in the Democratic Republic of Congo around 1980 and further spread in the mid 1990s. We observed plasmid-borne as well as chromosomally encoded fluoroquinolone resistance underlying emergences of extensive-drug and pan-drug resistance. Our work provides an overview of the evolution of invasive S. Typhimurium disease, and can be exploited to target control measures.

引用

页数：17

共 50 条

[1] A genomic appraisal of invasive Salmonella Typhimurium and associated antibiotic resistance in sub-Saharan Africa
Sandra Van Puyvelde
Tessa de Block
Sushmita Sridhar
Matt Bawn
Robert A. Kingsley
Brecht Ingelbeen
Mathew A. Beale
Barbara Barbé
Hyon Jin Jeon
Lisette Mbuyi-Kalonji
Marie-France Phoba
Dadi Falay
Delphine Martiny
Olivier Vandenberg
Dissou Affolabi
Jean Pierre Rutanga
Pieter-Jan Ceyssens
Wesley Mattheus
Wim L. Cuypers
Marianne A. B. van der Sande
Se Eun Park
Simon Kariuki
Kephas Otieno
John P. A. Lusingu
Joyce R. Mbwana
Samuel Adjei
Anima Sarfo
Seth O. Agyei
Kwaku P. Asante
Walter Otieno
Lucas Otieno
Marc C. Tahita
Palpouguini Lompo
Irving F. Hoffman
Tisungane Mvalo
Chisomo Msefula
Fatimah Hassan-Hanga
Stephen Obaro
Grant Mackenzie
Stijn Deborggraeve
Nicholas Feasey
Florian Marks
Calman A. MacLennan
Nicholas R. Thomson
Jan Jacobs
Gordon Dougan
Samuel Kariuki
Octavie Lunguya
[J]. Nature Communications, 14 (1)
[2] Intracontinental spread of human invasive Salmonella Typhimurium pathovariants in sub-Saharan Africa
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