TY - JOUR 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 DO - 10.1101/058875 SP - 058875 AU - My VT Phan AU - Pham Hong Anh AU - Nguyen Van Cuong AU - Bas B. Oude Munnink AU - Lia van der Hoek AU - Phuc Tran My AU - Tue Ngo Tri AU - Juliet E. Bryant AU - Stephen Baker AU - Guy Thwaites AU - Mark Woolhouse AU - Paul Kellam AU - Maia A. Rabaa AU - Matthew Cotten AU - on behalf of the VIZIONS Consortium Y1 - 2016/01/01 UR - http://biorxiv.org/content/early/2016/06/14/058875.abstract N2 - 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 ER -