Detection and genetic characterization of porcine pegivirus from pigs in China
- 134 Downloads
Porcine pegiviruses (PPgV) have been first discovered in serum samples from domestic pigs in Germany in 2016 and then in the USA in 2018. To date, there is no documentation with respect to the presence of PPgVs in domestic pigs in China. Herein, we attempted to determine the presence and prevalence of PPgV in China and its genetic characterization. In this study, 469 sera were tested and 34 (7.25%) were positive for PPgV. An ascending trend of the positive rate for PPgV was observed from suckling piglets (1.61%) to nursing piglets (1.85%), finishing pigs (6.56%), and sows (11.34%). The complete genome sequence of a representative strain of PPgV, PPgV_GDCH2017, and the complete E2 gene of 17 PPgV isolates discovered in this study was determined. Sequence analysis indicated that PPgV_GDCH2017 was highly related to other PPgVs with nucleotide and amino acid identities ranging from 87.3 to 97.4% and 94.6–99.3%, respectively, in the complete coding region. Phylogenetic analyses demonstrated that the PPgV_GDCH2017 discovered in this study was closely related to the PPgVs from the USA and clustered in the same genus with pegiviruses from other hosts. The topology of the phylogenetic tree based on the complete E2 gene was consistent with that based on the complete genome of PPgV. Further studies on pathogenicity and pathogenesis of PPgVs are needed.
KeywordsPorcine pegivirus Detection Genetic characterization Phylogenetic analysis
This work was supported by grants from National Key Research and Development Program of China (2017YFD0500600), Foundation of Educational Commission of Jiangxi Province, China (GJJ150388 and GJJ160399).
DL, DPS, YY, and KL performed the experiments, analyzed the data, and wrote the manuscript. FFZ and WFY participated in conducting the experiments; DYH, KL, and QW were responsible for samples collection; ZD and LYW participated in data analyses. DPS and YXT designed and supervised the experiments. All authors read and approved the final manuscript.
Compliance with Ethical Standards
Conflict of interest
The authors declare that there are no conflicts of interests.
Research involving human participants and/or animals
All procedures involving animals were in accordance with ethical standards.
- 5.Epstein H, Quan L, Briese T, Street C, Jabado O, Conlan S, Ali Khan S, Verdugo D, Hossain J, Hutchison K, Egholm M, Luby P, Daszak P, Lipkin I (2010) Identification of GBV-D, a novel GB-like flavivirus from old world frugivorous bats (Pteropus giganteus) in Bangladesh. PLoS Pathog 6:e1000972. https://doi.org/10.1371/journal.ppat.1000972 CrossRefGoogle Scholar
- 6.Chandriani S, Skewes-Cox P, Zhong W, Ganem E, Divers J, Blaricum J, Tennant C, Kistler L (2013) Identification of a previously undescribed divergent virus from the Flaviviridae family in an outbreak of equine serum hepatitis. Proc Natl Acad Sci USA 110:E1407–E1415. https://doi.org/10.1128/JVI.00324-13 CrossRefGoogle Scholar
- 8.Kapoor A, Simmonds P, Scheel K, Hjelle B, Cullen M, Burbelo D, Chauhan V, Duraisamy R, Sanchez M, Jain K, Vandegrift J, Calisher H, Rice M, Lipkin I (2013) Identification of rodent homologs of hepatitis C virus and pegiviruses. mBio 4:e00216–e00213. https://doi.org/10.1128/mBio.00216-13 CrossRefGoogle Scholar
- 12.Finn D, Coggill P, Eberhardt Y, Eddy R, Mistry J, Mitchell L, Potter C, Punta M, Qureshi M, Sangrador-Vegas A, Salazar A, Tate J, Bateman A (2016) The Pfam protein families database: towards a more sustainable future. Nucleic Acids Res 44:279–285. https://doi.org/10.1093/nar/gkv1344 CrossRefGoogle Scholar