Virome characterization in serum of healthy show pigs raised in Oklahoma demonstrated great diversity of ssDNA viruses

In the United States, show pigs are raised to compete in agricultural events. These animals are usually raised in small herds with extensive human, domestic, and wild animal contact. Therefore, pathogen monitoring in this animal category is critical for improved disease surveillance and preparedness...

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Bibliographic Details
Published in:Virology (New York, N.Y.) N.Y.), 2021-04, Vol.556, p.87-95
Main Authors: Paim, Willian P., Maggioli, Mayara F., Weber, Matheus N., Rezabek, Grant, Narayanan, Sai, Ramachandran, Akhilesh, Canal, Cláudio W., Bauermann, Fernando V.
Format: Article
Language:English
Subjects:
Animals
Animals, Domestic - virology
High throughput sequencing
Metagenomics
Oklahoma
Swine
Swine - virology
Viral community
Virome
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Summary:In the United States, show pigs are raised to compete in agricultural events. These animals are usually raised in small herds with extensive human, domestic, and wild animal contact. Therefore, pathogen monitoring in this animal category is critical for improved disease surveillance and preparedness. This study characterized the virome of healthy show pigs using high-throughput sequencing using pooled serum samples from 2018 or 2019 (200 samples each pool). Results demonstrated the presence of DNA viral families (Parvoviridae, Circoviridae, and Herpesviridae) and RNA families (Arteriviridae, Flaviviridae, and Retroviridae). Twenty-three viral species were identified, including the first detection of porcine bufavirus in the US. Moreover, important swine pathogens identified included porcine reproductive and respiratory syndrome virus, atypical porcine pestivirus, and porcine circovirus (PCV). Additionally, complete coding genomes of 17 viruses from the Parvoviridae, Anelloviridae, and Circoviridae families were retrieved and included the first near full-length genomes of US Ungulate bocaparvovirus 3 species. •First virome characterization in a unique swine population, the “show pigs”.•Identification of 23 viral species including important swine pathogens.•Seventeen full coding genome sequences retrieved.•First identification of porcine bufavirus sequence from US samples.•First full genomes of Ungulate bocaparvovirus 3 from US samples.
ISSN:0042-6822
1096-0341
DOI:10.1016/j.virol.2021.01.006