Tracking the establishment of local endemic populations of an emergent enteric pathogen

Kathryn E. Holt1, Tran Vu Thieu Nga2, Duy Pham Thanh2, Ha Vinh3,2, Dong Wook Kim4,5, My V. T. Phan2, James I. Campbell6,7, Nguyễn Văn Minh Hoàng2, Nguyen Thanh Vinh2, Pham Van Minh2, Cao Thu Thuy2, Tran Thi Thu Nga2, Corinne N. Thompson2, Trần Thị Ngọc Dung2, Nguyen Thi Khanh Nhu2, Phat Voong Vinh2, Pham Thi Ngoc Tuyet8, Hoang Le Phuc9, Nguyen Thi Nam Lien10, Bùi Đức Phú10, Nguyen Thi Thuy Ai11, Nguyen Manh Tien11, Nguyễn Văn Đông11, Christopher M. Parry6,7, Tran Tinh Hien6,7, Jeremy Farrar6,7, Julian Parkhill12, Gordon Dougan12, Nicholas R. Thomson12, Stephen Baker6,7,13
1Department of Biochemistry and Molecular Biology, Bio21 Molecular Science and Biotechnology Institute, University of Melbourne, Parkville, VIC 3010, Australia
2bHospital for Tropical Diseases, Oxford University Clinical Research Unit, Wellcome Trust Major Overseas Programme, Ho Chi Minh City, Quan 5, Vietnam;
3Hospital for Tropical Diseases, Ho Chi Minh City, Quan 5, Vietnam;
4dInternational Vaccine Institute, Seoul 151-919, Korea;
5eDepartment of Pharmacy, College of Pharmacy, Hanyang University, Kyeonggi-do 426-791, Korea;
6Centre for Tropical Medicine, Nuffield Department of Clinical Medicine, Oxford University, Oxford OX3 7BN, United Kingdom;
7Hospital for Tropical Diseases, Oxford University Clinical Research Unit, Wellcome Trust Major Overseas Programme, Ho Chi Minh City, Quan 5, Vietnam;
8Children's Hospital 2, Ho Chi Minh City, Vietnam
9Children's Hospital 1, Ho Chi Minh City, Vietnam
10iHue Central Hospital, Hue, Thua Thien-Hue Province, Vietnam;
11jKhanh Hoa General Hospital, Nha Trang, Vietnam;
12kThe Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, United Kingdom; and
13London School of Hygiene and Tropical Medicine, London WC1E 7HT, United Kingdom

Tóm tắt

Significance Shigella sonnei is a globally emerging agent of bacterial dysentery. Here, we use genomics to examine the microevolution of S. sonnei in Vietnam. We show that S. sonnei was introduced into Vietnam in the early 1980s, where it continued to evolve, spreading geographically to establish localized founder populations. The population in Ho Chi Minh City has undergone several localized clonal replacement events, during which a small number of microevolutionary changes have risen to dominance. These changes, induced by horizontal gene transfer and substitution mutations, confer high-level antimicrobial resistance and the ability to kill other gut bacteria. This work provides a unique, high-resolution insight into the microevolution of a pioneering human pathogen during its establishment in a new host population.

Từ khóa


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