title: RNA-dependent RNA polymerase gene sequence from foot-and-mouth disease virus in Hong Kong.
abstract: A foot-and-mouth disease virus (FMDV, HKN/2002) was isolated in Hong Kong in 2002. The nucleotide sequence of the 3D(pol) gene encoding the viral RNA-dependent RNA polymerase was determined and compared with that of the same gene from other FMDVs. The 3D(pol) gene was 1410 nucleotides in length encoding a protein of 470 amino acid residues. Sequence comparisons indicated that HKN/2002 belonged to serotype O. An evolutionary tree based on the 3D(pol) sequences of 20 FMDV isolates revealed that the nucleotide sequence of the HKN/2002 3D(pol) gene was most similar to those of isolates found in Taiwan in 1997, suggesting that they share a common ancestor. The amino acid sequence of the HKN/2002 3D(pol) gene was determined and aligned with those of representative isolates from seven other Picornaviridae genera. Eight highly conserved regions were detected, indicating a conserved functional relevance for these motifs. Alignment of 20 FMDV 3D(pol) amino acid sequences revealed a hypermutation region near the N-terminus that may help the virus evade host immune systems.
authors.affiliation: Department of Cell Biology and Genetics, College of Life Sciences, Peking University, Beijing 100871, PR China.
authors.forename: Xi
authors.initials: X
authors.lastname: Chen
authors.forename: Qian
authors.initials: Q
authors.lastname: Feng
authors.forename: Zhiyin
authors.initials: Z
authors.lastname: Wu
authors.forename: Yingying
authors.initials: Y
authors.lastname: Liu
authors.forename: Kun
authors.initials: K
authors.lastname: Huang
authors.forename: Rui
authors.initials: R
authors.lastname: Shi
authors.forename: Sidi
authors.initials: S
authors.lastname: Chen
authors.forename: Wen
authors.initials: W
authors.lastname: Lu
authors.forename: Mingxiao
authors.initials: M
authors.lastname: Ding
authors.forename: Richard A
authors.initials: RA
authors.lastname: Collins
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: D020816:Amino Acid Motifs; D000595:Amino Acid Sequence; D001483:Base Sequence; D003001:Cloning, Molecular; D017124:Conserved Sequence; D012321:DNA-Directed RNA Polymerases / Q000737:chemistry; D029544:Foot-and-Mouth Disease Virus / Q000201:enzymology* / Q000235:genetics*; D014644:Genetic Variation; D006723:Hong Kong; D008957:Models, Genetic; D008969:Molecular Sequence Data; D009154:Mutation; D010802:Phylogeny; D017434:Protein Structure, Tertiary; D012367:RNA, Viral; D012324:RNA-Dependent RNA Polymerase / Q000235:genetics*; D020133:Reverse Transcriptase Polymerase Chain Reaction; D017422:Sequence Analysis, DNA; D017386:Sequence Homology, Amino Acid
chemical_list: D012367:RNA, Viral; D012324:RNA-Dependent RNA Polymerase; D012321:DNA-Directed RNA Polymerases