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Newly Emerged Porcine Deltacoronavirus Associated With Diarrhoea in Swine in China: Identification, Prevalence and Full‐Length Genome Sequence Analysis
Author(s) -
Song D.,
Zhou X.,
Peng Q.,
Chen Y.,
Zhang F.,
Huang T.,
Zhang T.,
Li A.,
Huang D.,
Wu Q.,
He H.,
Tang Y.
Publication year - 2015
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.12399
Subject(s) - diarrhoeal disease , virology , biology , whole genome sequencing , genome , polymerase chain reaction , phylogenetic tree , outbreak , gene , genetics , diarrhea , medicine
Summary To identify and characterize aetiologic agent(s) associated with an outbreak of a severe diarrhoea in piglets in Jiangxi, China, in March 2015, a nested reverse transcription–polymerase chain reaction ( RT ‐ PCR ) for the detection of porcine deltacoronavirus ( PDC oV) was developed. A survey based on the nested RT ‐ PCR established indicated that the monoinfection of PDC oV (33.71%) and coinfection of PDC oV (19.66%) with porcine epidemic diarrhoea virus ( PEDV ) were common in diarrhoeal pigs in Jiangxi, China. A high prevalence of PDC oV (58.33%) in diarrhoeal samples which were PEDV negative was observed. The complete genome sequence of a representative PDC oV strain, PDC oV/ CHJXNI 2/2015, was determined. Phylogenetic analysis of complete genome and S protein sequences of PDC oV/ CHJXNI 2/2015 demonstrated that it was most closely related to Hong Kong and US PDC oVs. To our knowledge, this is the first report on the identification, prevalence, complete genome sequencing and molecular characterizations of PDC oV in diarrhoeal samples in pigs in China.