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

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 div...

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Autores principales: Phan, My V. T., Anh, Pham Hong, Cuong, Nguyen Van, Munnink, Bas B. Oude, van der Hoek, Lia, My, Phuc Tran, Tri, Tue Ngo, Bryant, Juliet E., Baker, Stephen, Thwaites, Guy, Woolhouse, Mark, Kellam, Paul, Rabaa, Maia A., Cotten, Matthew
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2016
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5522372/
https://www.ncbi.nlm.nih.gov/pubmed/28748110
http://dx.doi.org/10.1093/ve/vew027
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author Phan, My V. T.
Anh, Pham Hong
Cuong, Nguyen Van
Munnink, Bas B. Oude
van der Hoek, Lia
My, Phuc Tran
Tri, Tue Ngo
Bryant, Juliet E.
Baker, Stephen
Thwaites, Guy
Woolhouse, Mark
Kellam, Paul
Rabaa, Maia A.
Cotten, Matthew
author_facet Phan, My V. T.
Anh, Pham Hong
Cuong, Nguyen Van
Munnink, Bas B. Oude
van der Hoek, Lia
My, Phuc Tran
Tri, Tue Ngo
Bryant, Juliet E.
Baker, Stephen
Thwaites, Guy
Woolhouse, Mark
Kellam, Paul
Rabaa, Maia A.
Cotten, Matthew
author_sort Phan, My V. T.
collection PubMed
description 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.
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spelling pubmed-55223722017-07-26 Unbiased whole-genome deep sequencing of human and porcine stool samples reveals circulation of multiple groups of rotaviruses and a putative zoonotic infection Phan, My V. T. Anh, Pham Hong Cuong, Nguyen Van Munnink, Bas B. Oude van der Hoek, Lia My, Phuc Tran Tri, Tue Ngo Bryant, Juliet E. Baker, Stephen Thwaites, Guy Woolhouse, Mark Kellam, Paul Rabaa, Maia A. Cotten, Matthew Virus Evol Research Article 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. Oxford University Press 2016-10-03 /pmc/articles/PMC5522372/ /pubmed/28748110 http://dx.doi.org/10.1093/ve/vew027 Text en © The Author 2016. Published by Oxford University Press. http://creativecommons.org/licenses/by/4.0/ 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.
spellingShingle Research Article
Phan, My V. T.
Anh, Pham Hong
Cuong, Nguyen Van
Munnink, Bas B. Oude
van der Hoek, Lia
My, Phuc Tran
Tri, Tue Ngo
Bryant, Juliet E.
Baker, Stephen
Thwaites, Guy
Woolhouse, Mark
Kellam, Paul
Rabaa, Maia A.
Cotten, Matthew
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
title_full Unbiased whole-genome deep sequencing of human and porcine stool samples reveals circulation of multiple groups of rotaviruses and a putative zoonotic infection
title_fullStr Unbiased whole-genome deep sequencing of human and porcine stool samples reveals circulation of multiple groups of rotaviruses and a putative zoonotic infection
title_full_unstemmed Unbiased whole-genome deep sequencing of human and porcine stool samples reveals circulation of multiple groups of rotaviruses and a putative zoonotic infection
title_short Unbiased whole-genome deep sequencing of human and porcine stool samples reveals circulation of multiple groups of rotaviruses and a putative zoonotic infection
title_sort unbiased whole-genome deep sequencing of human and porcine stool samples reveals circulation of multiple groups of rotaviruses and a putative zoonotic infection
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5522372/
https://www.ncbi.nlm.nih.gov/pubmed/28748110
http://dx.doi.org/10.1093/ve/vew027
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