Semi-quantitative duplex RT-PCR reveals the low occurrence of Porcine Pegivirus and Atypical Porcine Pestivirus in diagnostic samples from the United States

Fangzhou Chen, Todd P Knutson, Eli Braun, Yin Jiang, Stephanie A Rossow, Douglas Marthaler

Research output: Contribution to journalArticlepeer-review

6 Scopus citations

Abstract

Porcine Pegivirus (PPgV) and Atypical Porcine Pestivirus (APPV) are two recently identified porcine viruses. In this study, the identification of two viruses by metagenomic sequencing, and a duplex semi-quantitative RT-PCR was developed to detect these pathogens simultaneously. The PPgV strain Minnesota-1/2016 had a 95.5%–96.3% nucleotide identity and clustered with the recently identified US PPgV strains, which is a distant clade from the German PPgV strains. The APPV strain Minnesota-1/2016 shared an 87.3%–92.0% nucleotide identity with the other global APPV strains identity but only shared an 82.8%–83.0% nucleotide identity with clade II consisting of strain identified in China. Detection of both PPgV and APPV was 9.0% of the diagnostic cases. Co-infection of PPgV and APPV was identified in 7.5% of the diagnostic cases. The occurrence and genetic characterization of PPgV and APPV further enhance our knowledge regarding these new pathogens in the United States.

Original languageEnglish (US)
Pages (from-to)1420-1425
Number of pages6
JournalTransboundary and Emerging Diseases
Volume66
Issue number3
DOIs
StatePublished - May 2019

Keywords

  • Pegivirus
  • atypical porcine pestivirus
  • phylogenetics

PubMed: MeSH publication types

  • Journal Article

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