Phylogenetic and Spatiotemporal Analyses of Porcine Epidemic Diarrhea Virus in Guangxi, China during 2017–2022
Author:
Bai Jiaguo1, Du Chen1, Lu Ying1, Wang Ruomu1, Su Xueli1, Yu Kechen1, Qin Qiuying1, Chen Ying1234, Wei Zuzhang1234ORCID, Huang Weijian1234, Ouyang Kang1234ORCID
Affiliation:
1. Laboratory of Animal Infectious Diseases and Molecular Immunology, College of Animal Science and Technology, Guangxi University, Nanning 530005, China 2. Guangxi Zhuang Autonomous Region Engineering Research Center of Veterinary Biologics, Nanning 530005, China 3. Guangxi Key Laboratory of Animal Breeding, Disease Control and Prevention, Nanning 530005, China 4. Key Laboratory of Prevention and Control for Animal Disease, Guangxi University, Nanning 530005, China
Abstract
Since 2010, porcine epidemic diarrhea virus (PEDV) has swept across China and spread throughout the country, causing huge economic losses. In this study, 673 diarrhea samples from 143 pig farms in Guangxi during 2017–2022 were collected and detected for PEDV. Ninety-eight strains were selected for S1 gene analyses and these strains were classified into four subgroups (G1b, G2a, G2b and G2c), accounting for 1.02 (1/98), 75.51 (74/98), 16.33 (16/98) and 7.14% (7/98) of the total, respectively. Importantly, an increased number of strains in the G2c subgroup was found from 2019 onwards. Bayesian analysis revealed that Guigang may have been the epicenter of PEDVs in Guangxi. In addition, Guigang was identified as the primary hub from which PEDVs spread via two routes, namely Guigang–Wuzhou and Guigang–Laibin. Moreover, several coinfections of novel PEDV variants bearing large deletions in the partial S1 protein and PEDVs possessing an intact partial S1 protein were found in pigs. Further recombination analyses indicated that two of the strains, 18-GXNN-6 and 19-GXBH-2, originated from intra-genogroup recombination. Together, our data revealed a new profile of PEDV in Guangxi, China, which enhances our understanding of the distribution, genetic characteristics and evolutionary profile of the circulating PEDV strains in China.
Funder
the Natural Science Foundation of Guangxi Province the Scientific Research Foundation of Guangxi University
Subject
General Veterinary,Animal Science and Zoology
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