Genomics of the Argentinian cholera epidemic elucidate the contrasting dynamics of epidemic and endemic Vibrio cholerae

Matthew J. Dorman, Daryl Domman, Tomás Poklepovich, Charlotte Tolley, Gisella Zolezzi, Leanne Kane, María Rosa Viñas, Marcela Panagópulo, Miriam Moroni, Norma Binsztein, María Inés Caffer, Simon Clare, Gordon Dougan, George P. C. Salmond, Julian Parkhill, Josefina Campos () and Nicholas R. Thomson ()
Additional contact information
Matthew J. Dorman: Wellcome Sanger Institute
Daryl Domman: Wellcome Sanger Institute
Tomás Poklepovich: Instituto Nacional de Enfermedades Infecciosas, INEI-ANLIS “Dr. Carlos G. Malbrán”
Charlotte Tolley: Wellcome Sanger Institute
Gisella Zolezzi: Instituto Nacional de Enfermedades Infecciosas, INEI-ANLIS “Dr. Carlos G. Malbrán”
Leanne Kane: Wellcome Sanger Institute
María Rosa Viñas: Instituto Nacional de Enfermedades Infecciosas, INEI-ANLIS “Dr. Carlos G. Malbrán”
Marcela Panagópulo: Instituto Nacional de Enfermedades Infecciosas, INEI-ANLIS “Dr. Carlos G. Malbrán”
Miriam Moroni: Instituto Nacional de Enfermedades Infecciosas, INEI-ANLIS “Dr. Carlos G. Malbrán”
Norma Binsztein: Instituto Nacional de Enfermedades Infecciosas, INEI-ANLIS “Dr. Carlos G. Malbrán”
María Inés Caffer: Instituto Nacional de Enfermedades Infecciosas, INEI-ANLIS “Dr. Carlos G. Malbrán”
Simon Clare: Wellcome Sanger Institute
Gordon Dougan: Wellcome Sanger Institute
George P. C. Salmond: University of Cambridge
Julian Parkhill: Wellcome Sanger Institute
Josefina Campos: Instituto Nacional de Enfermedades Infecciosas, INEI-ANLIS “Dr. Carlos G. Malbrán”
Nicholas R. Thomson: Wellcome Sanger Institute

Nature Communications, 2020, vol. 11, issue 1, 1-12

Abstract: Abstract In order to control and eradicate epidemic cholera, we need to understand how epidemics begin, how they spread, and how they decline and eventually end. This requires extensive sampling of epidemic disease over time, alongside the background of endemic disease that may exist concurrently with the epidemic. The unique circumstances surrounding the Argentinian cholera epidemic of 1992–1998 presented an opportunity to do this. Here, we use 490 Argentinian V. cholerae genome sequences to characterise the variation within, and between, epidemic and endemic V. cholerae. We show that, during the 1992–1998 cholera epidemic, the invariant epidemic clone co-existed alongside highly diverse members of the Vibrio cholerae species in Argentina, and we contrast the clonality of epidemic V. cholerae with the background diversity of local endemic bacteria. Our findings refine and add nuance to our genomic definitions of epidemic and endemic cholera, and are of direct relevance to controlling current and future cholera epidemics.

Date: 2020
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DOI: 10.1038/s41467-020-18647-7

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