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The detection and phylogenetic analysis of porcine deltacoronavirus from Guangdong Province in Southern China
Author(s) -
Mai K.,
Feng J.,
Chen G.,
Li D.,
Zhou L.,
Bai Y.,
Wu Q.,
Ma J.
Publication year - 2018
Publication title -
transboundary and emerging diseases
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.392
H-Index - 63
eISSN - 1865-1682
pISSN - 1865-1674
DOI - 10.1111/tbed.12644
Subject(s) - phylogenetic tree , virology , biology , strain (injury) , virus , rotavirus , lineage (genetic) , diarrhea , coronavirus , feces , veterinary medicine , gene , microbiology and biotechnology , covid-19 , genetics , medicine , disease , pathology , infectious disease (medical specialty) , anatomy
Summary Porcine deltacoronavirus ( PDC oV) is a newly discovered coronavirus that causes diarrhoea, vomiting and dehydration in sucking and nursing piglets. It was first reported in Hong Kong in 2012 and has since been discovered in the United States, Canada, South Korea, mainland China, Thailand and Laos. PDC oV has been experimentally proved to lead to diarrhoea in swine and it was detected positive in pigs in Guangdong, southern China. In our study, 252 faecal and intestinal samples from sucking piglets and sows with diarrhoea were surveyed for common enteric viruses. We found a prevalence of PDC oV (21.8%), porcine epidemic diarrhoea virus (65.5%), transmissible gastroenteritis virus (0%), rotavirus group A (25.0%) and porcine kobuvirus (68.7%). We isolated 13 PDC oV strains and discovered that PDC oV infections were often co‐infections with kobuvirus rather than the commonly linked porcine epidemic diarrhoea virus. Phylogenetic analysis of S gene and N gene revealed that 11 of 13 PDC oV strains belonged to Chinese lineage. As for the left two strains, one single strain ( CHN ‐ GD 16‐05) belonged to American and Korean lineages while another strain ( CHN ‐ GD 16‐03) was similar to a Thai strain, but only in the S gene. This suggested a possible recombination event between the Thai and the newly described Chinese strain.