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...
| Main Authors: | , , , , , , , , , , , , , |
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| Format: | Journal article |
| Language: | English |
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Oxford University Press
2016
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| _version_ | 1797069384070463488 |
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| author | Phan, M Anh, P Cuong, N Munnink, B van der Hoek, L My, P Tri, T Bryant, J Baker, S Thwaites, G Woolhouse, M Kellam, P Rabaa, M Cotten, M |
| author_facet | Phan, M Anh, P Cuong, N Munnink, B van der Hoek, L My, P Tri, T Bryant, J Baker, S Thwaites, G Woolhouse, M Kellam, P Rabaa, M Cotten, M |
| author_sort | Phan, M |
| collection | OXFORD |
| 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. |
| first_indexed | 2024-03-06T22:23:38Z |
| format | Journal article |
| id | oxford-uuid:55e7d4b6-258b-41d5-b6ff-928ac8bebdf0 |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-06T22:23:38Z |
| publishDate | 2016 |
| publisher | Oxford University Press |
| record_format | dspace |
| spelling | oxford-uuid:55e7d4b6-258b-41d5-b6ff-928ac8bebdf02022-03-26T16:47:08ZUnbiased whole-genome deep sequencing of human and porcine stool samples reveals circulation of multiple groups of rotaviruses and a putative zoonotic infectionJournal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:55e7d4b6-258b-41d5-b6ff-928ac8bebdf0EnglishSymplectic Elements at OxfordOxford University Press2016Phan, MAnh, PCuong, NMunnink, Bvan der Hoek, LMy, PTri, TBryant, JBaker, SThwaites, GWoolhouse, MKellam, PRabaa, MCotten, MCoordinated 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. |
| spellingShingle | Phan, M Anh, P Cuong, N Munnink, B van der Hoek, L My, P Tri, T Bryant, J Baker, S Thwaites, G Woolhouse, M Kellam, P Rabaa, M Cotten, M 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 |
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