Case Report: First Report and Phylogenetic Analysis of Porcine Astroviruses in Chile

Porcine Astrovirus (PoAstV) causes mild diarrhea in young pigs and is considered an emerging virus in the swine industry worldwide. PoAstV has high genetic diversity and has been classified into five genetic lineages, PoAstV1–5. In Chile, only human astroviruses have been reported. This study aimed...

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Autores principales:	Carlos Flores, Naomi Ariyama, Benjamín Bennett, Juan Mena, Claudio Verdugo, Sunil Mor, Barbara Brito, Galia Ramírez-Toloza, Victor Neira
Formato:	article
Lenguaje:	EN
Publicado:	Frontiers Media S.A. 2021
Materias:	porcine astrovirus poAstV swine intensive farm next-generating sequencing phylogenetic analysis Veterinary medicine SF600-1100
Acceso en línea:	https://doaj.org/article/8decaaf9a47348bb869919b210cdd75e
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spelling	oai:doaj.org-article:8decaaf9a47348bb869919b210cdd75e2021-12-01T02:24:52ZCase Report: First Report and Phylogenetic Analysis of Porcine Astroviruses in Chile2297-176910.3389/fvets.2021.764837https://doaj.org/article/8decaaf9a47348bb869919b210cdd75e2021-11-01T00:00:00Zhttps://www.frontiersin.org/articles/10.3389/fvets.2021.764837/fullhttps://doaj.org/toc/2297-1769Porcine Astrovirus (PoAstV) causes mild diarrhea in young pigs and is considered an emerging virus in the swine industry worldwide. PoAstV has high genetic diversity and has been classified into five genetic lineages, PoAstV1–5. In Chile, only human astroviruses have been reported. This study aimed to determine the presence and genetic diversity of PoAstV circulating in intensive pig farms in Chile. Seventeen Chilean intensive swine farms from Valparaíso, Metropolitana, O'Higgins, Ñuble and Araucanía regions were sampled. A selection of oral fluid and fecal material samples from 1–80 days-old pigs were collected and analyzed using next-generation sequencing. The circulation of PoAstV was confirmed in all studied farms. We obtained complete or partial sequences of PoAstV-2 (n = 3), PoAstV-4 (n = 2), and PoAstV-5 (n = 7). In 15 out of 17 farms, we detected more than one lineage co-circulating. Phylogenetic analyses grouped the seven PoAstV-5 strains in a monophyletic cluster, closely related to the United States PoAstV-5 strains. The three PoAstV-2 were located into two separate sub-clusters. PoAstV-4 sequences are also grouped in two different clusters, all related to Japanese strains. Thus, our results indicate that PoAstV circulates in Chile with high frequency and diversity. However, the lack of reference sequences impairs local evolution patterns establishment and regional comparisons. This is the first contribution of PoAstV genomes in Latin America; more studies are needed to understand the diversity and impact of PoAstV on swine health.Carlos FloresNaomi AriyamaBenjamín BennettJuan MenaClaudio VerdugoSunil MorBarbara BritoGalia Ramírez-TolozaVictor NeiraFrontiers Media S.A.articleporcine astroviruspoAstVswine intensive farmnext-generating sequencingphylogenetic analysisVeterinary medicineSF600-1100ENFrontiers in Veterinary Science, Vol 8 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	porcine astrovirus poAstV swine intensive farm next-generating sequencing phylogenetic analysis Veterinary medicine SF600-1100
spellingShingle	porcine astrovirus poAstV swine intensive farm next-generating sequencing phylogenetic analysis Veterinary medicine SF600-1100 Carlos Flores Naomi Ariyama Benjamín Bennett Juan Mena Claudio Verdugo Sunil Mor Barbara Brito Galia Ramírez-Toloza Victor Neira Case Report: First Report and Phylogenetic Analysis of Porcine Astroviruses in Chile
description	Porcine Astrovirus (PoAstV) causes mild diarrhea in young pigs and is considered an emerging virus in the swine industry worldwide. PoAstV has high genetic diversity and has been classified into five genetic lineages, PoAstV1–5. In Chile, only human astroviruses have been reported. This study aimed to determine the presence and genetic diversity of PoAstV circulating in intensive pig farms in Chile. Seventeen Chilean intensive swine farms from Valparaíso, Metropolitana, O'Higgins, Ñuble and Araucanía regions were sampled. A selection of oral fluid and fecal material samples from 1–80 days-old pigs were collected and analyzed using next-generation sequencing. The circulation of PoAstV was confirmed in all studied farms. We obtained complete or partial sequences of PoAstV-2 (n = 3), PoAstV-4 (n = 2), and PoAstV-5 (n = 7). In 15 out of 17 farms, we detected more than one lineage co-circulating. Phylogenetic analyses grouped the seven PoAstV-5 strains in a monophyletic cluster, closely related to the United States PoAstV-5 strains. The three PoAstV-2 were located into two separate sub-clusters. PoAstV-4 sequences are also grouped in two different clusters, all related to Japanese strains. Thus, our results indicate that PoAstV circulates in Chile with high frequency and diversity. However, the lack of reference sequences impairs local evolution patterns establishment and regional comparisons. This is the first contribution of PoAstV genomes in Latin America; more studies are needed to understand the diversity and impact of PoAstV on swine health.
format	article
author	Carlos Flores Naomi Ariyama Benjamín Bennett Juan Mena Claudio Verdugo Sunil Mor Barbara Brito Galia Ramírez-Toloza Victor Neira
author_facet	Carlos Flores Naomi Ariyama Benjamín Bennett Juan Mena Claudio Verdugo Sunil Mor Barbara Brito Galia Ramírez-Toloza Victor Neira
author_sort	Carlos Flores
title	Case Report: First Report and Phylogenetic Analysis of Porcine Astroviruses in Chile
title_short	Case Report: First Report and Phylogenetic Analysis of Porcine Astroviruses in Chile
title_full	Case Report: First Report and Phylogenetic Analysis of Porcine Astroviruses in Chile
title_fullStr	Case Report: First Report and Phylogenetic Analysis of Porcine Astroviruses in Chile
title_full_unstemmed	Case Report: First Report and Phylogenetic Analysis of Porcine Astroviruses in Chile
title_sort	case report: first report and phylogenetic analysis of porcine astroviruses in chile
publisher	Frontiers Media S.A.
publishDate	2021
url	https://doaj.org/article/8decaaf9a47348bb869919b210cdd75e
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Case Report: First Report and Phylogenetic Analysis of Porcine Astroviruses in Chile

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