Molecular Characterization and Phylogenetic Analysis of a Variant Recombinant Porcine Epidemic Diarrhea Virus Strain in China
Xiaoliang Hu,
Yuexiao Lian,
Yucan He,
Xiangxiao Liu,
Zhige Tian,
Yi Dai,
Mengyuan Liu,
Huayan Fan,
Yue Shi,
Feng Cong
Affiliations
Xiaoliang Hu
Faculty of Agriculture, Forestry and Food Engineering, Yibin Key Laboratory of Zoological Diversity and Ecological Conservation, Yibin Animal and Plant Inspection and Quarantine Engineering Technology Research Center, Yibin University, Yibin 644000, China
Yuexiao Lian
Guangdong Laboratory Animals Monitoring Institute, Guangdong Provincial Key Laboratory of Laboratory Animals, Guangzhou 510633, China
Yucan He
Faculty of Agriculture, Forestry and Food Engineering, Yibin Key Laboratory of Zoological Diversity and Ecological Conservation, Yibin Animal and Plant Inspection and Quarantine Engineering Technology Research Center, Yibin University, Yibin 644000, China
Xiangxiao Liu
Faculty of Agriculture, Forestry and Food Engineering, Yibin Key Laboratory of Zoological Diversity and Ecological Conservation, Yibin Animal and Plant Inspection and Quarantine Engineering Technology Research Center, Yibin University, Yibin 644000, China
Zhige Tian
Faculty of Agriculture, Forestry and Food Engineering, Yibin Key Laboratory of Zoological Diversity and Ecological Conservation, Yibin Animal and Plant Inspection and Quarantine Engineering Technology Research Center, Yibin University, Yibin 644000, China
Yi Dai
Faculty of Agriculture, Forestry and Food Engineering, Yibin Key Laboratory of Zoological Diversity and Ecological Conservation, Yibin Animal and Plant Inspection and Quarantine Engineering Technology Research Center, Yibin University, Yibin 644000, China
Mengyuan Liu
Faculty of Agriculture, Forestry and Food Engineering, Yibin Key Laboratory of Zoological Diversity and Ecological Conservation, Yibin Animal and Plant Inspection and Quarantine Engineering Technology Research Center, Yibin University, Yibin 644000, China
Huayan Fan
Faculty of Agriculture, Forestry and Food Engineering, Yibin Key Laboratory of Zoological Diversity and Ecological Conservation, Yibin Animal and Plant Inspection and Quarantine Engineering Technology Research Center, Yibin University, Yibin 644000, China
Yue Shi
Beijing Senkang Biotech Development Co., Ltd., Beijing 100000, China
Feng Cong
Guangdong Laboratory Animals Monitoring Institute, Guangdong Provincial Key Laboratory of Laboratory Animals, Guangzhou 510633, China
Since 2010, a variant of porcine epidemic diarrhea virus (PEDV) has re-emerged in several provinces of China, resulting in severe economic losses for the pork industry. Here, we isolated and identified a variant PEDV strain, SC-YB73, in Guangdong Province, China. The pathological observations of jejunum showed atrophy of villi and edema in the lamina propria. The sequence analysis of the viral genome identified a six-nucleotide insertion in the E gene, which has not previously been detected in PEDV strains. Furthermore, 50 nucleotide sites were unique in SC-YB73 compared with 27 other PEDV strains. The phylogenetic analysis based on the complete genome showed that SC-YB73 was clustered in variant subgroup GII-a, which is widely prevalent in the Chinese pig population. The recombination analysis suggested that SC-YB73 originated from the recombination of GDS47, US PEDV prototype-like strains TW/Yunlin550/2018, and COL/Cundinamarca/2014. In the present study, we isolated and genetically characterized a variant PEDV strain, thus providing essential information for the control of PED outbreaks in China.
