Genetic diversity of human sapovirus across the Americas

Vinjé, Jan; Castro, Christina J.; Saito, Mayuko; Marine, Rachel L.; Mayta, Holger; Lopez, Maria Renee; Ng, Terry Fei Fan; Pan, Chao-Yang; Diez-Valcarce, Marta; Bucardo, Filemon; Magaña, Laura Cristal; Tsaknaridis, Laura; Halasa, Natasha; Becker-Dreps, Sylvia

dc.contributor.author	Diez-Valcarce, Marta
dc.contributor.author	Castro, Christina J.
dc.contributor.author	Marine, Rachel L.
dc.contributor.author	Halasa, Natasha
dc.contributor.author	Mayta, Holger
dc.contributor.author	Saito, Mayuko
dc.contributor.author	Tsaknaridis, Laura
dc.contributor.author	Pan, Chao-Yang
dc.contributor.author	Bucardo, Filemon
dc.contributor.author	Becker-Dreps, Sylvia
dc.contributor.author	Lopez, Maria Renee
dc.contributor.author	Magaña, Laura Cristal
dc.contributor.author	Ng, Terry Fei Fan
dc.contributor.author	Vinjé, Jan
dc.date.accessioned	2018-11-30T03:10:47Z
dc.date.available	2018-11-30T03:10:47Z
dc.date.issued	2018
dc.identifier.uri	https://hdl.handle.net/20.500.12866/4078
dc.description.abstract	BACKGROUND: Sapoviruses are responsible for sporadic and epidemic acute gastroenteritis worldwide. Sapovirus typing protocols have a success rate as low as 43% and relatively few complete sapovirus genome sequences are available to improve current typing protocols. OBJECTIVE/STUDY DESIGN: To increase the number of complete sapovirus genomes to better understand the molecular epidemiology of human sapovirus and to improve the success rate of current sapovirus typing methods, we used deep metagenomics shotgun sequencing to obtain the complete genomes of 68 sapovirus samples from four different countries across the Americas (Guatemala, Nicaragua, Peru and the US). RESULTS: VP1 genotyping showed that all sapovirus sequences could be grouped in the four established genogroups (GI (n = 13), GII (n = 30), GIV (n = 23), GV (n = 2)) that infect humans. They include the near-complete genome of a GI.6 virus and a recently reported novel GII.8 virus. Sequences of the complete RNA-dependent RNA polymerase gene could be grouped into three major genetic clusters or polymerase (P) types (GI.P, GII.P and GV.P) with all GIV viruses harboring a GII polymerase. One (GII.P-GII.4) of the new 68 sequences was a recombinant virus with the hotspot between the NS7 and VP1 regions. CONCLUSIONS: Analyses of this expanded database of near-complete sapovirus sequences showed several mismatches in the genotyping primers, suggesting opportunities to revisit and update current sapovirus typing methods.	en_US
dc.language.iso	eng
dc.publisher	Elsevier
dc.relation.ispartofseries	Journal of Clinical Virology
dc.rights	info:eu-repo/semantics/restrictedAccess
dc.rights.uri	https://creativecommons.org/licenses/by-nc-nd/4.0/deed.es
dc.subject	Genotypes	en_US
dc.subject	Next generation sequencing	en_US
dc.subject	Sapovirus	en_US
dc.subject	Viral gastroenteritis	en_US
dc.title	Genetic diversity of human sapovirus across the Americas	en_US
dc.type	info:eu-repo/semantics/article
dc.identifier.doi	https://doi.org/10.1016/j.jcv.2018.05.003
dc.subject.ocde	https://purl.org/pe-repo/ocde/ford#1.06.02
dc.relation.issn	1873-5967