Shigella sonnei genome sequencing and phylogenetic analysis indicate recent global dissemination from Europe

Kathryn E Holt, Stephen Baker, François Xavier Weill, Edward C. Holmes, Andrew Kitchen, Jun Yu, Vartul Sangal, Derek J. Brown, John E. Coia, Dong Wook Kim, Seon Young Choi, Su Hee Kim, Wanderley D. Da Silveira, Derek J. Pickard, Jeremy Farrar, Julian Parkhill, Gordon Dougan, Nicholas R Thomson

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172 Citations (Scopus)


Shigella are human-adapted Escherichia coli that have gained the ability to invade the human gut mucosa and cause dysentery, spreading efficiently via low-dose fecal-oral transmission. Historically, S. sonnei has been predominantly responsible for dysentery in developed countries but is now emerging as a problem in the developing world, seeming to replace the more diverse Shigella flexneri in areas undergoing economic development and improvements in water quality. Classical approaches have shown that S. sonnei is genetically conserved and clonal. We report here whole-genome sequencing of 132 globally distributed isolates. Our phylogenetic analysis shows that the current S. sonnei population descends from a common ancestor that existed less than 500 years ago and that diversified into several distinct lineages with unique characteristics. Our analysis suggests that the majority of this diversification occurred in Europe and was followed by more recent establishment of local pathogen populations on other continents, predominantly due to the pandemic spread of a single, rapidly evolving, multidrug-resistant lineage.

Original languageEnglish
Pages (from-to)1056-1059
Number of pages4
JournalNature Genetics
Issue number9
Publication statusPublished - Sep 2012

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