Genomic epidemiology of the haitian cholera outbreak: a single introduction followed by rapid, extensive, and continued spread characterized the onset of the epidemic.

Mark Eppinger, Talima Pearson, Sara S. K. Koenig, Ofori Pearson, Nathan Hicks, Sonia Agrawal, Fatemeh Sanjar, Kevin Galens, Sean Daugherty, Jonathan Crabtree, Rene S. Hendriksen, Lance B. Price, Bishnu P. Upadhyay, Geeta Shakya, Claire M. Fraser, Jacques Ravel, Paul S. Keim

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Abstract

In this genomic epidemiology study, we have applied high-resolution whole-genome-based sequence typing methodologies on a comprehensive set of genome sequences that have become available in the aftermath of the Haitian cholera epidemic. These sequence resources enabled us to reassess the degree of genomic heterogeneity within the Vibrio cholerae O1 serotype and to refine boundaries and evolutionary relationships. The established phylogenomic framework showed how outbreak isolates fit into the global phylogeographic patterns compared to a comprehensive globally and temporally diverse strain collection and provides strong molecular evidence that points to a nonindigenous source of the 2010 Haitian cholera outbreak and refines epidemiological standards used in outbreak investigations for outbreak inclusion/exclusion following the concept of genomic epidemiology. The generated phylogenomic data have major public health relevance in translating sequence-based information to assist in future diagnostic, epidemiological, surveillance, and forensic studies of cholera.
Original languageEnglish
JournalmBio (Online)
Volume5
Issue number6
Number of pages8
ISSN2150-7511
DOIs
Publication statusPublished - 2014

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