title: Complete coding sequence of hepatitis C virus genotype 6a.
abstract: Hepatitis C virus (HCV) genotype 6a is found in a restricted part of South East Asia, including Hong Kong, Macau and Vietnam. We determined the full length coding sequence of a type 6a isolate (EUHK2) obtained from a Hong Kong blood donor. The sequence of EUHK2 contained a single open reading frame coding for a polyprotein of 3018 amino acids, within the range of 3008 to 3037 for other HCV genotypes. The full length sequence of EUHK2 showed 30.3%-32.9% nucleotide (24.3%-29.4% amino acid) sequence divergence from genotypes 1-4, but only 27.7% (20.7% amino acid) divergence from JK046 ("type 11a"). These similarity values were intermediate between those of other HCV genotypes (minimum 28.4%) and between subtypes (maximum 25%). The close evolutionary relationship of EUHK2 with JK046 was further indicated by their grouping together by phylogenetic analysis.
authors.affiliation: Department of Medical Microbiology, University of Edinburgh, United Kingdom.
authors.forename: N J
authors.initials: NJ
authors.lastname: Adams
authors.forename: R W
authors.initials: RW
authors.lastname: Chamberlain
authors.forename: L A
authors.initials: LA
authors.lastname: Taylor
authors.forename: F
authors.initials: F
authors.lastname: Davidson
authors.forename: C K
authors.initials: CK
authors.lastname: Lin
authors.forename: R M
authors.initials: RM
authors.lastname: Elliott
authors.forename: P
authors.initials: P
authors.lastname: Simmonds
mesh_terms: D003001:Cloning, Molecular; D004279:DNA, Viral / Q000235:genetics; D019143:Evolution, Molecular; D005838:Genotype; D016174:Hepacivirus / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification; D006723:Hong Kong; D006801:Humans; D008969:Molecular Sequence Data; D016366:Open Reading Frames; D010802:Phylogeny; D016133:Polymerase Chain Reaction; D017386:Sequence Homology, Amino Acid; D014764:Viral Proteins / Q000235:genetics
chemical_list: D004279:DNA, Viral; D014764:Viral Proteins