title: Genome comparison of a novel foot-and-mouth disease virus with other FMDV strains.
abstract: The genome of a novel foot-and-mouth disease virus, HKN/2002, was 8104 nucleotides (nt) in length (excluding the poly(C) tract and poly(A) tail) and was composed of a 1042-nt 5'-untranslated region (UTR), a 6966-nt open reading frame, and a 93-nt 3'-UTR. Genome sequences of HKN/2002 and other known FMDV strains were compared. The VP1, VP2, and VP3-based neighbor-joining (NJ) trees were divided into distinct clusters according to different serotypes, while other region-based NJ trees exhibited some degree of intercross among serotypes. Mutations in HKN/2002 were revealed, including frequent deletions and insertions in the G-H loop of VP1, and deletion involving 10 amino acid residues in the 3A protein. An evolutionary relationship of HKN/2002 with an Asian FMDV lineage isolated from a Hong Kong swine host in 1970 was postulated. A 43-nt deletion identified in the 5'-UTR of HKN/2002 possibly contributed to the loss of one pseudo-knot domain.
authors.affiliation: Department of Cell Biology and Genetics, College of Life Sciences, Peking University, Beijing 100871, China.
authors.forename: Qian
authors.initials: Q
authors.lastname: Feng
authors.forename: Huan
authors.initials: H
authors.lastname: Yu
authors.forename: Yingying
authors.initials: Y
authors.lastname: Liu
authors.forename: Chengqiang
authors.initials: C
authors.lastname: He
authors.forename: Jingsong
authors.initials: J
authors.lastname: Hu
authors.forename: Huachun
authors.initials: H
authors.lastname: Sang
authors.forename: Neizheng
authors.initials: N
authors.lastname: Ding
authors.forename: Mingxiao
authors.initials: M
authors.lastname: Ding
authors.forename: Yin-Wan Wendy
authors.initials: YW
authors.lastname: Fung
authors.forename: Lok-Ting
authors.initials: LT
authors.lastname: Lau
authors.forename: Albert Cheung-Hoi
authors.initials: AC
authors.lastname: Yu
authors.forename: Jianguo
authors.initials: J
authors.lastname: Chen
mesh_terms: D020413:3' Untranslated Regions; D020121:5' Untranslated Regions; D000595:Amino Acid Sequence; D001483:Base Sequence; D036022:Capsid Proteins; D003001:Cloning, Molecular; D029544:Foot-and-Mouth Disease Virus / Q000235:genetics*; D017353:Gene Deletion; D016679:Genome, Viral; D008969:Molecular Sequence Data; D009154:Mutation; D009711:Nucleotides / Q000737:chemistry; D009842:Oligopeptides / Q000235:genetics; D016366:Open Reading Frames; D010802:Phylogeny; D017434:Protein Structure, Tertiary; D017422:Sequence Analysis, DNA; D017386:Sequence Homology, Amino Acid; D013045:Species Specificity; D014764:Viral Proteins / Q000235:genetics
chemical_list: D020413:3' Untranslated Regions; D020121:5' Untranslated Regions; D036022:Capsid Proteins; D009711:Nucleotides; D009842:Oligopeptides; C442501:VP1 protein, Foot-and-mouth disease virus; D014764:Viral Proteins; C047981:arginyl-glycyl-aspartic acid