A universal genome sequencing method for rotavirus A from human fecal samples which identifies segment reassortment and multi-genotype mixed infection.


Dung, TTN; Duy, PT; Sessions, OM; Sangumathi, UK; Phat, VV; Tam, PTT; To, NTN; Phuc, TM; Hong Chau, TT; Chau, NNM; Minh, NN; Thwaites, GE; Rabaa, MA; Baker, S; (2017) A universal genome sequencing method for rotavirus A from human fecal samples which identifies segment reassortment and multi-genotype mixed infection. BMC Genomics, 18 (1). p. 324. ISSN 1471-2164 DOI: https://doi.org/10.1186/s12864-017-3714-6

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Abstract

Genomic characterization of rotavirus (RoV) has not been adopted at large-scale due to the complexity of obtaining sequences for all 11 segments, particularly when feces are used as starting material. To overcome these limitations, we developed a novel RoV capture and genome sequencing method combining commercial enzyme immunoassay plates and a set of routinely used reagents. Our approach had a 100% success rate, producing >90% genome coverage for diverse RoV present in fecal samples (Ct < 30). This method provides a novel, reproducible and comparatively simple approach for genomic RoV characterization and could be scaled-up for use in global RoV surveillance systems. Current Controlled Trials ISRCTN88101063 . Date of registration: 14/06/2012.

Item Type: Article
Faculty and Department: Faculty of Infectious and Tropical Diseases > Dept of Pathogen Molecular Biology
PubMed ID: 28438140
Web of Science ID: 400624700005
URI: http://researchonline.lshtm.ac.uk/id/eprint/3818288

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