Archives of Virology

, Volume 156, Issue 9, pp 1591–1601

Identification and characterization of a natural inter-genotypic (2b/1b) recombinant hepatitis C virus in Japan

  • Koji Yokoyama
  • Masaharu Takahashi
  • Tsutomu Nishizawa
  • Shigeo Nagashima
  • Suljid Jirintai
  • Shigeru Yotsumoto
  • Hiroaki Okamoto
  • Mariko Y. Momoi
Original Article

DOI: 10.1007/s00705-011-1038-4

Cite this article as:
Yokoyama, K., Takahashi, M., Nishizawa, T. et al. Arch Virol (2011) 156: 1591. doi:10.1007/s00705-011-1038-4
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Abstract

A hepatitis C virus (HCV) strain (HC10-0804) recovered from a 12-year-old Japanese female with chronic hepatitis C segregated into discordant genotypes, 2b and 1b, in the 5’UTR/core and NS5B regions, respectively, thus suggesting an inter-genotypic recombination. The HC10-0804 isolate had a genomic length of 9,423 nucleotides (nt), excluding the poly(U) tract at the 3’ terminus, and encoded a single open reading frame (ORF) for a polyprotein of 3,014 amino acids (aa). Based on Simplot and Bootscan analyses, the crossover point from 2b to 1b was estimated at nt 3443/3444 (aa 1034/1035), just after the beginning of the NS3 region. Comparison of the entire genomic sequence showed that the HC10-0804 strain was only 90.2% identical to the previously reported 2b/1b recombinant strain (SE-03-07-1689) from the Philippines, whose putative crossover point was 24 nt downstream of that of HC10-0804. These results indicate the circulation of a novel inter-genotypic (2b/1b) recombinant HCV in Japan.

Copyright information

© Springer-Verlag 2011

Authors and Affiliations

  • Koji Yokoyama
    • 1
    • 2
  • Masaharu Takahashi
    • 2
  • Tsutomu Nishizawa
    • 2
  • Shigeo Nagashima
    • 2
  • Suljid Jirintai
    • 2
  • Shigeru Yotsumoto
    • 1
    • 2
    • 3
  • Hiroaki Okamoto
    • 2
  • Mariko Y. Momoi
    • 1
  1. 1.Department of PediatricsJichi Medical University School of MedicineShimotsukeJapan
  2. 2.Division of Virology, Department of Infection and ImmunityJichi Medical University School of MedicineShimotsukeJapan
  3. 3.Sato Pediatric ClinicMiyazakiJapan