title: Genome sequencing and analysis of a novel recombinant porcine epidemic diarrhea virus strain from Henan, China.
abstract: Porcine epidemic diarrhea virus (PEDV) has caused devastating impact on pig-rearing industry in China and current vaccine is not effective against the circulating PEDV variants. In the present study, the full-length genome sequence from a PEDV isolate (CH/HNQX-3/14) was determined. The complete genome sequence analysis showed that the CH/HNQX-3/14 possessed unique deletion regions in the S and ORF3 genes. It was identified as a recombinant strain using phylogenetic analysis and recombination detection program. Further analyses of the full-length sequence suggest that CH/HNQX-3/14 is a natural recombinant between the attenuated vaccine strains (CV777 and DR13) and circulating wild-type strain (CH/ZMDZY/11). The recombination occurred not only in structural protein-coding region (S1 and N genes) but also in non-structural protein-coding region (replicases 1a and ORF3 genes). These results provided new evidence that PEDV strains circulating in China underwent recombination between vaccine and field strains, suggesting that recombination contributes to the genetic diversity of PEDV. Our findings provide valuable information on PEDV evolution and underscore the need for ongoing surveillance of this economically important swine disease.
authors.affiliation: College of Veterinary Medicine, Northwest A & F University, Yangling, 712100, Shaanxi, China.|Key Laboratory of Animal Immunology of the Ministry of Agriculture, Henan Provincial Key Laboratory of Animal Immunology, Henan Academy of Agricultural Sciences, Zhengzhou, 450002, Henan, China.|College of Veterinary Medicine, Henan Institute of Science and Technology, Xinxiang, 453003, Henan, China.
authors.forename: Renfeng
authors.initials: R
authors.lastname: Li
authors.affiliation: Key Laboratory of Animal Immunology of the Ministry of Agriculture, Henan Provincial Key Laboratory of Animal Immunology, Henan Academy of Agricultural Sciences, Zhengzhou, 450002, Henan, China. cdj565@gmail.com.
authors.forename: Songlin
authors.initials: S
authors.lastname: Qiao
authors.affiliation: Key Laboratory of Animal Immunology of the Ministry of Agriculture, Henan Provincial Key Laboratory of Animal Immunology, Henan Academy of Agricultural Sciences, Zhengzhou, 450002, Henan, China.
authors.forename: Yanyan
authors.initials: Y
authors.lastname: Yang
authors.affiliation: Key Laboratory of Animal Immunology of the Ministry of Agriculture, Henan Provincial Key Laboratory of Animal Immunology, Henan Academy of Agricultural Sciences, Zhengzhou, 450002, Henan, China.
authors.forename: Junqing
authors.initials: J
authors.lastname: Guo
authors.affiliation: College of Veterinary Medicine, Northwest A & F University, Yangling, 712100, Shaanxi, China.
authors.forename: Sha
authors.initials: S
authors.lastname: Xie
authors.affiliation: College of Veterinary Medicine, Northwest A & F University, Yangling, 712100, Shaanxi, China.
authors.forename: Enmin
authors.initials: E
authors.lastname: Zhou
authors.affiliation: College of Animal Science and Veterinary Medicine, Henan Agricultural University, Zhengzhou, 450002, Henan, China. zhanggaiping2003@163.com.
authors.forename: Gaiping
authors.initials: G
authors.lastname: Zhang
mesh_terms: D000818:Animals; D001483:Base Sequence; D002681:China; D018352:Coronavirus Infections / Q000662:veterinary / Q000821:virology; D014644:Genetic Variation; D016679:Genome, Viral; D010802:Phylogeny; D053485:Porcine epidemic diarrhea virus / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification; D012367:RNA, Viral; D016865:Reassortant Viruses / Q000235:genetics*; D011995:Recombination, Genetic; D017423:Sequence Analysis, RNA; D013552:Swine; D014765:Viral Vaccines / Q000235:genetics
chemical_list: D012367:RNA, Viral; D014765:Viral Vaccines
keywords: Genome sequencing and analysis; Porcine epidemic diarrhea virus; Recombination