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The Journal of Microbiology

, Volume 46, Issue 1, pp 81–87 | Cite as

Hepatitis C virus (HCV) genotyping by annealing reverse transcription-PCR products with genotype-specific capture probes

  • Jungmin Rho
  • Jong Soon Ryu
  • Wonhee Hur
  • Chang Wook Kim
  • Jeong Won Jang
  • Si Hyun Bae
  • Jong Young Choi
  • Sung Key Jang
  • Seung Kew YoonEmail author
Article

Abstract

The genotype of the hepatitis C virus (HCV) strain infecting a given patient is an important predictive factor for the clinical outcome of chronic liver disease and its response to anti-viral therapeutic agents. We herein sought to develop a new easy, sensitive and accurate HCV genotyping method using annealing genotype-specific capture probes (AGSCP) in an automation-friendly 96-well plate format. The validation of our new AGSCP was performed using the Standard HCV Genotype Panel. We then used both our AGSCP and the commercially available INNO-LiPA assay to analyze the HCV genotypes from 111 Korean patients. Discordant results were analyzed by direct sequencing. AGSCP successfully genotyped the standard panel. The genotypes of 111 patient samples were also obtained successfully by AGSCP and INNO-LiPA. We observed a high concordance rate (93 matched samples, 83.8%) between the two assays. Sequencing analysis of the 18 discordant results revealed that the AGSCP had correctly identified 12 samples, whereas the INNO-LiPA had correctly identified only 6. These results collectively indicate that AGSCP assay is a convenient and sensitive method for large-scale genotyping, and it may be a promising tool for the determination of HCV and other genotypes in clinical settings.

Keywords

hepatitis C virus genotype reverse-hybridization 

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Copyright information

© The Microbiological Society of Korea 2008

Authors and Affiliations

  • Jungmin Rho
    • 1
  • Jong Soon Ryu
    • 4
  • Wonhee Hur
    • 3
  • Chang Wook Kim
    • 3
    • 4
  • Jeong Won Jang
    • 3
    • 4
  • Si Hyun Bae
    • 3
    • 4
  • Jong Young Choi
    • 3
    • 4
  • Sung Key Jang
    • 1
    • 2
  • Seung Kew Yoon
    • 3
    • 4
    Email author
  1. 1.Panbionet, Corp.POSTECH Biotech CenterPohangRepublic of Korea
  2. 2.Division of Molecular and Life SciencesPohang University of Science and TechnologyPohangRepublic of Korea
  3. 3.Division of Hepatology, Department of Internal MedicineCollege of Medicine, The Catholic University of KoreaSeoulRepublic of Korea
  4. 4.WHO Collaborating Center on Viral HepatitisCollege of Medicine, The Catholic University of KoreaSeoulRepublic of Korea

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