RT Journal Article
SR Electronic
T1 Unbiased whole-genome deep sequencing of human and porcine stool samples reveals circulation of multiple groups of rotaviruses and a putative zoonotic infection
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 058875
DO 10.1101/058875
A1 My VT Phan
A1 Pham Hong Anh
A1 Nguyen Van Cuong
A1 Bas B. Oude Munnink
A1 Lia van der Hoek
A1 Phuc Tran My
A1 Tue Ngo Tri
A1 Juliet E. Bryant
A1 Stephen Baker
A1 Guy Thwaites
A1 Mark Woolhouse
A1 Paul Kellam
A1 Maia A. Rabaa
A1 Matthew Cotten
A1 on behalf of the VIZIONS Consortium
YR 2016
UL http://biorxiv.org/content/early/2016/06/14/058875.abstract
AB Coordinated and synchronous virological surveillance for zoonotic viruses in both human clinical cases and animal reservoirs provides an opportunity to identify interspecies virus movement. Rotavirus is an important cause of viral gastroenteritis in humans and animals. We have documented the rotavirus 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 60 human rotaviruses (all group A) and 31 porcine rotaviruses (13 group A, 7 group B, 6 group C and 5 group H). Phylogenetic analyses showed the co-circulation of multiple distinct rotavirus 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