Altmetric

Unbiased whole-genome deep sequencing of human and porcine stool samples reveals circulation of multiple groups of rotaviruses and a putative zoonotic infection

Title: Unbiased whole-genome deep sequencing of human and porcine stool samples reveals circulation of multiple groups of rotaviruses and a putative zoonotic infection
Authors: Phan, MVT
Pham, HA
Nguyen, VC
Munnink, BBO
Van der Hoek, L
Phuc, TM
Tue, NT
Bryant, JE
Baker, S
Thwaites, G
Woolhouse, M
Kellam, P
Rabaa, MA
Cotten, M
Item Type: Journal Article
Abstract: Coordinated and synchronous surveillance for zoonotic viruses in both human clinical cases and animal reservoirs provides an opportunity to identify interspecies virus movement. Rotavirus (RV) is an important cause of viral gastroenteritis in humans and animals. In this study, we document the RV diversity within co-located humans and animals sampled from the Mekong delta region of Vietnam using a primer-independent, agnostic, deep sequencing approach. A total of 296 stool samples (146 from diarrhoeal human patients and 150 from pigs living in the same geographical region) were directly sequenced, generating the genomic sequences of sixty human rotaviruses (all group A) and thirty-one porcine rotaviruses (thirteen group A, seven group B, six group C, and five group H). Phylogenetic analyses showed the co-circulation of multiple distinct RV group A (RVA) genotypes/strains, many of which were divergent from the strain components of licensed RVA vaccines, as well as considerable virus diversity in pigs including full genomes of rotaviruses in groups B, C, and H, none of which have been previously reported in Vietnam. Furthermore, the detection of an atypical RVA genotype constellation (G4-P[6]-I1-R1-C1-M1-A8-N1-T7-E1-H1) in a human patient and a pig from the same region provides some evidence for a zoonotic event.
Issue Date: 3-Oct-2016
Date of Acceptance: 1-Oct-2016
URI: http://hdl.handle.net/10044/1/61787
DOI: https://dx.doi.org/10.1093/ve/vew027
ISSN: 2057-1577
Publisher: Oxford University Press
Journal / Book Title: VIRUS EVOLUTION
Volume: 2
Issue: 2
Copyright Statement: © 2016 The Author. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
Sponsor/Funder: Wellcome Trust
Funder's Grant Number: 093724/C/10/Z
Keywords: Science & Technology
Life Sciences & Biomedicine
Virology
rotavirus
deep sequencing
whole genomes
virus surveillance
zoonotic infection
GROUP-A ROTAVIRUSES
UNITED-STATES
ACUTE GASTROENTERITIS
BOVINE ROTAVIRUS
DIARRHEA
CHILDREN
VACCINE
VIETNAM
STRAINS
IDENTIFICATION
VIZIONS Consortium
Publication Status: Published
Article Number: vew027
Online Publication Date: 2016-10-03
Appears in Collections:Department of Medicine
Faculty of Medicine



Items in DSpace are protected by copyright, with all rights reserved, unless otherwise indicated.

Creative Commonsx