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The phylogeography and incidence of multi-drug resistant typhoid fever in sub-Saharan Africa

Article scientifique 2018 Anglais

Résumé

There is paucity of data regarding the geographical distribution, incidence, and phylogenetics of multi-drug resistant (MDR) Salmonella Typhi in sub-Saharan Africa. Here we present a phylogenetic reconstruction of whole genome sequenced 249 contemporaneous S. Typhi isolated between 2008-2015 in 11 sub-Saharan African countries, in context of the 2,057 global S. Typhi genomic framework. Despite the broad genetic diversity, the majority of organisms (225/249; 90%) belong to only three genotypes, 4.3.1 (H58) (99/249; 40%), 3.1.1 (97/249; 39%), and 2.3.2 (29/249; 12%). Genotypes 4.3.1 and 3.1.1 are confined within East and West Africa, respectively. MDR phenotype is found in over 50% of organisms restricted within these dominant genotypes. High incidences of MDR S. Typhi are calculated in locations with a high burden of typhoid, specifically in children aged <15 years. Antimicrobial stewardship, MDR surveillance, and the introduction of typhoid conjugate vaccines will be critical for the control of MDR typhoid in Africa.

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Park, S., Thanh, D., Boinett, C., Wong, V., Pak, G., Panzner, U., Espinoza, L., Kalckreuth, V., Im, J., Schütt‐Gerowitt, H., Crump, J., Breiman, R., Adu‐Sarkodie, Y., Owusu‐Dabo, E., Rakotozandrindrainy, R., Soura, A., Aseffa, A., Gasmelseed, N., Keddy, K., May, J., Sow, A., Aaby, P., Biggs, H., Hertz, J., Montgomery, J., Cosmas, L., Olack, B., Fields, B., Sarpong, N., Razafindrabe, T., Raminosoa, T., Kabore, L., Sampo, E., Teferi, M., Yeshitela, B., Tayeb, M., Sooka, A., Meyer, C., Krumkamp, R., Dekker, D., Jaeger, A., Poppert, S., Tall, A., Niang, A., Bjerregaard-Andersen, M., Løfberg, S., Seo, H., Jeon, H., Deerin, J., Park, J., Konings, F., Ali, M., Clemens, J., Hughes, P., Sendagala, J., Vudriko, T., Downing, R., Ikumapayi, U., Mackenzie, G., Obaro, S., Argimón, S., Aanensen, D., Page, A., Keane, J., Duchêne, S., Dyson, Z., Holt, K., Dougan, G., Marks, F., Baker, S. (2018). The phylogeography and incidence of multi-drug resistant typhoid fever in sub-Saharan Africa. https://doi.org/10.1038/s41467-018-07370-z

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Auteur(s)

Se Eun Park Duy Pham Thanh Christine J. Boinett Vanessa Wong Gi Deok Pak Ursula Panzner Ligia María Cruz Espinoza Vera von Kalckreuth Justin Im Heidi Schütt‐Gerowitt John A. Crump Robert F. Breiman Yaw Adu‐Sarkodie Ellis Owusu‐Dabo Raphaël Rakotozandrindrainy Abdramane Soura Abraham Aseffa Nagla Gasmelseed Karen H. Keddy Jürgen May Amy Gassama Sow Peter Aaby Holly M. Biggs Julian T. Hertz Joel M. Montgomery Leonard Cosmas Beatrice Olack Barry S. Fields Nimako Sarpong Tsiriniaina Jean Luco Razafindrabe Tiana Mirana Raminosoa Leon Parfait Kabore Emmanuel Sampo Mekonnen Teferi Biruk Yeshitela Muna Ahmed El Tayeb Arvinda Sooka Christian G. Meyer Ralf Krumkamp Denise Dekker Anna Jaeger Sven Poppert Adama Tall A Niang Morten Bjerregaard-Andersen Sandra Valborg Løfberg Hye Jin Seo Hyon Jin Jeon Jessica Fung Deerin Jinkyung Park Frank Konings Mohammad Ali John D. Clemens Peter J. Hughes Juliet Nsimire Sendagala Tobias Vudriko R. G. Downing Usman N. Ikumapayi Grant Mackenzie Stephen Obaro Silvia Argimón David M. Aanensen Andrew J. Page Jacqueline A. Keane Sebastián Duchêne Zoe A. Dyson Kathryn E. Holt Gordon Dougan Florian Marks Stephen Baker

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