Oligonucleotide chip, real-time PCR and sequencing for genotyping of hepatitis B virus.
OBJECTIVE
To compare the oligonucleotide chip, real-time PCR and sequencing for genotyping of hepatitis B virus in Chinese patients with chronic hepatitis B.


METHODS
Mixture of samples with different genotypes and clinical serum samples from 126 chronic hepatitis B patients was tested for hepatitis B virus genotypes by oligonucleotide chip, real-time PCR and sequencing of PCR products, respectively. Clinical performances, time required and costs of the three assays were evaluated.


RESULTS
Oligonucleotide chips and real-time PCR detected 1% and 0.1% genotypes, respectively, in mixed samples. Of the 126 clinical samples from patients with chronic hepatitis B, genotype B was detected in 41 (33%), 41 (33%) and 45 (36%) samples, and genotype C in 76 (60%), 76 (60%) and 81 (64%) samples, by oligonucleotide chip, real-time PCR and sequencing, respectively. Oligonucleotide chip and real-time PCR detected mixed genotypes B and C in 9 samples. Real-time PCR was the rapidest and cheapest among the three assays.


CONCLUSIONS
Oligonucleotide chip and real-time PCR are able to detect mixed genotypes, while sequencing only detects the dominant genotype in clinical samples.
Wang
Yong-Zhong
YZ
Research Center for Liver diseases, The Third Hospital of Changzhou, Changzhou 213001, Jiangsu Province, China. wyz0003@163.com
Wu
Guo-Xiang
GX
Luo
Li-Bo
LB
Chen
Min
M
Ruan
Li-Hua
LH
D003362:Cost-Benefit Analysis; D004279:DNA, Viral / Q000235:genetics*; D005838:Genotype; D006515:Hepatitis B virus / Q000235:genetics*; D019694:Hepatitis B, Chronic / Q000097:blood / Q000175:diagnosis / Q000235:genetics; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis / Q000191:economics / Q000379:methods*; D020133:Reverse Transcriptase Polymerase Chain Reaction / Q000191:economics / Q000379:methods*; D012680:Sensitivity and Specificity; D017422:Sequence Analysis, DNA / Q000191:economics / Q000379:methods*
D004279:DNA, Viral
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