The genomic epidemiology of multi-drug resistant invasive non-typhoidal Salmonella in selected sub-Saharan African countries

Bibliographic Data

ID21880239
AuthorsSe Eun Park (0000-0002-1632-3045, International Vaccine Institute), Duy Thanh Pham (The Hospital for Tropical Diseases, Wellcome Trust Major Overseas Programme, Oxford University Clinical Research Unit, Ho Chi Minh City, Vietnam), Duy Pham Thanh (0000-0001-7029-9210, University of Oxford), Gi Deok Pak (International Vaccine Institute), Ursula Panzner (International Vaccine Institute), Ligia Maria Cruz Espinoza (0000-0003-0429-4723, International Vaccine Institute), Vera von Kalckreuth (International Vaccine Institute), Justin Im (0000-0002-3762-084X, International Vaccine Institute), Ondari D Mogeni (0000-0001-5133-3735, International Vaccine Institute), Heidi Schütt-Gerowitt (International Vaccine Institute, Seoul, Republic of Korea), Heidi Schütt‐Gerowitt (International Vaccine Institute), John A Crump (0000-0002-4529-102X, Duke University), Robert F Breiman (0000-0002-7099-2936, Emory University), Yaw Adu‐Sarkodie (0000-0003-2093-1534, Kwame Nkrumah University of Science and Technology), Yaw Adu-Sarkodie (Kwame Nkrumah University of Science and Technology, Kumasi, Ghana), Ellis Owusu-Dabo (Kwame Nkrumah University of Science and Technology, Kumasi, Ghana), Ellis Owusu‐Dabo (0000-0003-4232-4292, Kwame Nkrumah University of Science and Technology), Raphaël Rakotozandrindrainy (University of Antananarivo), Abdramane Soura (0000-0002-1539-6357, Université Joseph Ki-Zerbo), Abdramane Bassiahi Soura (Institut Supérieur des Sciences de la Population, University of Ouagadougou, Ouagadougou, Burkina Faso), Abraham Aseffa (0000-0002-8028-1150, Armauer Hansen Research Institute), Nagla Gasmelseed (0000-0002-8170-3853, University of Hafr Al-Batin), Arvinda Sooka (National Institute for Communicable Diseases), Karen H Keddy (0000-0001-8640-2235, University of the Witwatersrand), Jürgen May (0000-0002-3252-6336, German Center for Infection Research), Juergen May (0000-0001-7831-8420, German Center for Infection Research), Peter Aaby (0000-0001-8331-1389, Statens Serum Institut), Holly M Biggs (0000-0002-4949-2232, Duke Medical Center), Julian T Hertz (0000-0002-7396-4789, Duke Medical Center), Joel M Montgomery (0000-0003-0523-4431, Kenya Medical Research Institute), Leonard Cosmas (Kenya Medical Research Institute), Beatrice Olack (Kenya Medical Research Institute), Barry S Fields (0000-0002-5676-7708, Kenya Medical Research Institute), Barry Fields (Centers for Disease Control and Prevention, KEMRI Complex, Nairobi, Kenya), Nimako Sarpong (Kwame Nkrumah University of Science and Technology), Tsiriniaina Jean Luco Razafindrabe (University of Antananarivo), Tiana Mirana Raminosoa (University of Antananarivo), Leon Parfait Kabore (Schiphra Hospital, Ouagadougou, Burkina Faso), Emmanuel Sampo (Schiphra Hospital, Ouagadougou, Burkina Faso), Mekonnen Teferi (0000-0002-7672-9637, Armauer Hansen Research Institute), Biruk Yeshitela (0000-0002-3583-2670, Armauer Hansen Research Institute), Muna Ahmed El Tayeb (University of Gezira), Ralf Krumkamp (0000-0003-3053-476X, German Center for Infection Research), Denise Dekker (0000-0001-5432-3217, German Center for Infection Research), Denise Myriam Dekker (Bernhard Nocht Institute for Tropical Medicine, Hamburg, Germany), Anna Jaeger (0000-0001-8833-0618, German Center for Infection Research), Adama Tall (Institut Pasteur de Dakar), Amy Gassama (Institut Pasteur de Dakar), Aissatou Niang (Institute Pasteur de Dakar, Dakar, Senegal), Morten Bjerregaard-Andersen (0000-0002-4128-5714, Statens Serum Institut), Sandra Valborg Løfberg (Statens Serum Institut), Jessica Fung Deerin (0000-0002-3599-8208, International Vaccine Institute), Jin Kyung Park (0000-0001-8538-0476, International Vaccine Institute), Frank Konings (0000-0003-0070-4457, International Vaccine Institute), Megan E Carey (0000-0002-7797-9080, University of Cambridge), Sandra Van Puyvelde (0000-0001-8434-5732, University of Antwerp), Mohammad Ali (0000-0003-1410-388X, International Vaccine Institute), John D Clemens (0000-0002-6379-1052, International Vaccine Institute), John Clemens (International Vaccine Institute, Seoul, Republic of Korea), Gordon Dougan (0000-0003-0022-965X, University of Cambridge), Stephen Baker (0000-0003-1308-5755, University of Cambridge, corresponding author), Florian Marks (0000-0002-6043-7170, International Vaccine Institute)
Year2021
Volume6
Issue8
Pagese005659
Publication date2021-08-01
Peer ReviewedYes
Open AccessYes
TypeARTICLE
VenueBMJ Global Health (JOURNAL)
Journal identifiersISSN: 2059-7908 • E-ISSN: 2059-7908
PublisherBMJ (PUBLISHER • GB)
DOI10.1136/bmjgh-2021-005659
PMID34341020
OpenAlexW3188242408
LanguageEN
References cited58

Background Invasive non-typhoidal Salmonella (iNTS) is one of the leading causes of bacteraemia in sub-Saharan Africa. We aimed to provide a better understanding of the genetic characteristics and transmission patterns associated with multi-drug resistant (MDR) iNTS serovars across the continent. Methods A total of 166 iNTS isolates collected from a multi-centre surveillance in 10 African countries (2010–2014) and a fever study in Ghana (2007–2009) were genome sequenced to investigate the geographical distribution, antimicrobial genetic determinants and population structure of iNTS serotypes–genotypes. Phylogenetic analyses were conducted in the context of the existing genomic frameworks for various iNTS serovars. Population-based incidence of MDR-iNTS disease was estimated in each study site. Results Salmonella Typhimurium sequence-type (ST) 313 and Salmonella Enteritidis ST11 were predominant, and both exhibited high frequencies of MDR; Salmonella Dublin ST10 was identified in West Africa only. Mutations in the gyrA gene (fluoroquinolone resistance) were identified in S . Enteritidis and S . Typhimurium in Ghana; an ST313 isolate carrying bla CTX-M-15 was found in Kenya. International transmission of MDR ST313 (lineage II) and MDR ST11 (West African clade) was observed between Ghana and neighbouring West African countries. The incidence of MDR-iNTS disease exceeded 100/100 000 person-years-of-observation in children aged <5 years in several West African countries. Conclusions We identified the circulation of multiple MDR iNTS serovar STs in the sampled sub-Saharan African countries. Investment in the development and deployment of iNTS vaccines coupled with intensified antimicrobial resistance surveillance are essential to limit the impact of these pathogens in Africa

Antibiotic resistance · Antibiotics · Bacteria · Biology · Drug resistance · Environmental health · Multiple drug resistance · Population · Public health · Salmonella · Serotype · Antibiotic Resistance in Bacteria · Burkholderia infections and melioidosis · Medicine · Salmonella and Campylobacter epidemiology · Genetics · Microbiology · Virology

Tools

Open DOIOpen Access