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World J Gastroenterol. Apr 7, 2007; 13(13): 1975-1979
Published online Apr 7, 2007. doi: 10.3748/wjg.v13.i13.1975
Detection of hepatitis B virus genotypes using oligonucleotide chip among hepatitis B virus carriers in Eastern China
Xiang-Rong Tang, Ji-Shen Zhang, Hui Zhao, Yu-Hua Gong, Yong-Zhong Wang, Jian-Long Zhao
Xiang-Rong Tang, Ji-Shen Zhang, Jian-Long Zhao, Hui-Zhao, Shanghai Institute of Microsystem and Information Technology, CAS, Shanghai 200050, China
Yu-Hua Gong, The Third People’s Hospital of Zhenjiang, Zhenjiang 212003, Jiangsu Province, China
Yong-Zhong Wang, The Third People’s Hospital of Changzhou, Changzhou 213001, Jiangsu Province, China
Author contributions: All authors contributed equally to the work.
Supported by Chinese Academy of Sciences Intellective Innovation Great Project, No. KSCX-06
Correspondence to: Jian-Long Zhao, PhD, Shanghai Institute of Microsystem and Information Technology, CAS, No. 865, Changning Road, Shanghai 200050, China. jlzhao@mail.sim.ac.cn
Telephone: +86-21-62511070-8707 Fax: +86-21-62128934
Received: December 21, 2006
Revised: January 17, 2007
Accepted: March 19, 2007
Published online: April 7, 2007
Abstract

AIM: To determine the genotype distribution of hepatitis B virus (HBV) with a newly oligonucleotide chip assay among the HBV carriers in Eastern China.

METHODS: An assay using oligonucleotide chip was developed for detection of HBV genotypes in serum samples from HBV DNA-positive patients in Eastern China. This method is based on the principle of reverse hybridization with Cy5-labeled amplicons hybridizing to type-specific oligonucleotide probes that are immobilized on slides. The results of 80 randomly chosen sera were confirmed by direct sequencing.

RESULTS: HBV genotype B, C and mixed genotype were detected in 400 serum samples, accounting for 8.3% (n = 33), 83.2% (n = 333), and 8.5% (n = 34), respectively. The evaluation of the oligonucleotide assay showed 100% concordance with the amplicon phylogenetic analysis except 9 mixed genotype infections undetected by sequencing.

CONCLUSION: The study indicates that HBV genotype C and B prevail in the Eastern China. It is suggested that the oligonucleotide chip is a reliable and convenient tool for the detection of HBV genotyping.

Keywords: Oligonucleotide chip, Hepatitis B virus, Genotype