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

doi:10.1111/tbed.13154

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

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12 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 language	English (US)
Pages (from-to)	1420-1425
Number of pages	6
Journal	Transboundary and Emerging Diseases
Volume	66
Issue number	3
DOIs	https://doi.org/10.1111/tbed.13154
State	Published - May 2019

Bibliographical note

Funding Information:
Funding information The study was supported by the University of Minnesota Veterinary Diagnostic Laboratory (MNVDL). Fangzhou Chen's contributions were supported by the China Agriculture Research System (No. CARS-36) and China Scholarship Council (No. 201606760012). Dr. Marthaler was supported by the USDA National Institute of Food and Agriculture Hatch project 1013569. The authors thank the Marthaler laboratory at Kansas State University for their critical review of the manuscript.

Funding Information:
The study was supported by the University of Minnesota Veterinary Diagnostic Laboratory (MNVDL). Fangzhou Chen's contributions were supported by the China Agriculture Research System (No. CARS-36) and China Scholarship Council (No. 201606760012). Dr. Marthaler was supported by the USDA National Institute of Food and Agriculture Hatch project 1013569.

Publisher Copyright:
© 2019 The Authors. Transboundary and Emerging Diseases published by Blackwell Verlag GmbH

Keywords

Pegivirus
atypical porcine pestivirus
phylogenetics

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

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.",

keywords = "Pegivirus, atypical porcine pestivirus, phylogenetics",

author = "Fangzhou Chen and Knutson, {Todd P} and Eli Braun and Yin Jiang and Rossow, {Stephanie A} and Douglas Marthaler",

note = "Funding Information: Funding information The study was supported by the University of Minnesota Veterinary Diagnostic Laboratory (MNVDL). Fangzhou Chen's contributions were supported by the China Agriculture Research System (No. CARS-36) and China Scholarship Council (No. 201606760012). Dr. Marthaler was supported by the USDA National Institute of Food and Agriculture Hatch project 1013569. The authors thank the Marthaler laboratory at Kansas State University for their critical review of the manuscript. Funding Information: The study was supported by the University of Minnesota Veterinary Diagnostic Laboratory (MNVDL). Fangzhou Chen's contributions were supported by the China Agriculture Research System (No. CARS-36) and China Scholarship Council (No. 201606760012). Dr. Marthaler was supported by the USDA National Institute of Food and Agriculture Hatch project 1013569. Publisher Copyright: {\textcopyright} 2019 The Authors. Transboundary and Emerging Diseases published by Blackwell Verlag GmbH",

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

Abstract

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Keywords

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