Deep sequencing of norovirus genomes defines evolutionary patterns in an urban tropical setting.


Cotten, M; Petrova, V; Phan, MV; Rabaa, MA; Watson, SJ; Ong, SH; Kellam, P; Baker, S; (2014) Deep sequencing of norovirus genomes defines evolutionary patterns in an urban tropical setting. Journal of virology. ISSN 0022-538X DOI: https://doi.org/10.1128/JVI.01333-14

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Abstract

IMPORTANCE The high transmissibility and rapid evolution rate of norovirus, combined with short-lived host immune responses, are thought to be responsible for the virus causing a majority of pediatric viral diarrhea cases. The evolutionary patterns of this RNA virus have only been described in detail for a portion of the virus genome and never from a detailed urban tropical setting. We have developed robust deep sequencing methods for generating complete genome sequences directly from small amounts of patient fecal material. We use this method to provide a detailed sequence description of the noroviruses circulating in three Ho Chi Minh City hospitals over a 2.5-year period. The study identified patterns of virus change in known sites of host immune response and identified three additional regions of the virus genome under selection that were not previously recognized. In addition, the methods described here provide a robust full-genome sequencing platform for community-based virus surveillance.

Item Type: Article
Faculty and Department: Faculty of Infectious and Tropical Diseases > Dept of Pathogen Molecular Biology
Related URLs:
PubMed ID: 25056894
Web of Science ID: 341872700006
URI: http://researchonline.lshtm.ac.uk/id/eprint/1848520

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