title: Molecular characterization of the spike and ORF3 genes of porcine epidemic diarrhea virus in the Philippines.
abstract: Porcine epidemic diarrhea virus (PEDV) is a highly contagious enteric pathogen of swine. In the present study, we analyzed the spike genes and ORF3 genes of seven PEDV strains detected in Philippine pigs in June 2014. There are four major epitope regions in the spike glycoprotein: a CO-26K equivalent (COE) domain, SS2 and SS6 epitopes, and an epitope region recognized by the 2C10 monoclonal antibody. Analysis of Philippine strains revealed amino acid substitutions in the SS6 epitope region (LQDGQVKI to SQSGQVKI) of the S1 domain. Substitutions were also detected in the 2C10 epitope region (GPRLQPY to GPRFQPY) in the cytoplasmic domain. Phylogenetic analysis of the complete spike gene sequences from the seven strains revealed that they clustered within the G2 group but were distantly related to the North American and INDELs clusters. Interestingly, these strains were close to Vietnamese PEDVs on the ORF3 genetic tree and showed high (97.0-97.6 %) sequence identity to ORF3 genes at the nucleotide level.
authors.affiliation: Virus Disease Division, Animal and Plant Quarantine Agency, Anyang, Gyeonggi-do, 430-824, Republic of Korea.
authors.forename: Yong Kwan
authors.initials: YK
authors.lastname: Kim
authors.affiliation: Virus Disease Division, Animal and Plant Quarantine Agency, Anyang, Gyeonggi-do, 430-824, Republic of Korea.
authors.forename: Yoon-Young
authors.initials: YY
authors.lastname: Cho
authors.affiliation: Applied Chemistry and Biological Engineering, Ajou University, Suwon, 443-749, Republic of Korea.
authors.forename: Byung-Hyun
authors.initials: BH
authors.lastname: An
authors.affiliation: Virus Disease Division, Animal and Plant Quarantine Agency, Anyang, Gyeonggi-do, 430-824, Republic of Korea.
authors.forename: Seong-In
authors.initials: SI
authors.lastname: Lim
authors.affiliation: Virus Disease Division, Animal and Plant Quarantine Agency, Anyang, Gyeonggi-do, 430-824, Republic of Korea.
authors.forename: Ji-Ae
authors.initials: JA
authors.lastname: Lim
authors.affiliation: Virus Disease Division, Animal and Plant Quarantine Agency, Anyang, Gyeonggi-do, 430-824, Republic of Korea.
authors.forename: In-Soo
authors.initials: IS
authors.lastname: Cho
authors.affiliation: College of Veterinary Medicine, Vietnam National University of Agriculture (VNUA), Hanoi, Vietnam.
authors.forename: Van Phan
authors.initials: VP
authors.lastname: Le
authors.affiliation: Virus Disease Division, Animal and Plant Quarantine Agency, Anyang, Gyeonggi-do, 430-824, Republic of Korea. andj67@korea.kr.
authors.forename: Dong-Jun
authors.initials: DJ
authors.lastname: An
mesh_terms: D000818:Animals; D001483:Base Sequence; D018352:Coronavirus Infections / Q000453:epidemiology / Q000235:genetics / Q000662:veterinary* / Q000821:virology; D000939:Epitopes / Q000235:genetics; D005814:Genes, Viral / Q000235:genetics*; D008969:Molecular Sequence Data; D016366:Open Reading Frames / Q000235:genetics*; D010679:Philippines / Q000453:epidemiology; D010802:Phylogeny; D053485:Porcine epidemic diarrhea virus / Q000235:genetics*; D064370:Spike Glycoprotein, Coronavirus / Q000235:genetics*; D013552:Swine / Q000821:virology; D013553:Swine Diseases / Q000453:epidemiology / Q000821:virology*
chemical_list: D000939:Epitopes; D064370:Spike Glycoprotein, Coronavirus
keywords: PEDV; Philippines; Phylogeny