Preparation and application of oligo microarrays for hepatitis virus detection and genotyping.
- Author:
Zhao-Hui SUN
1
;
Hui-Lan YANG
;
Min WEI
;
Shu-Yan WANG
;
Cong-Rong WANG
;
Yu-Ling SHI
;
Wen-Li MA
Author Information
- Publication Type:Journal Article
- MeSH: Base Sequence; DNA Fingerprinting; DNA, Viral; genetics; Genotype; Hepatitis B virus; classification; genetics; Molecular Sequence Data; Oligonucleotide Array Sequence Analysis; Oligonucleotide Probes; Sensitivity and Specificity
- From: Chinese Journal of Hepatology 2007;15(11):816-820
- CountryChina
- Language:Chinese
-
Abstract:
OBJECTIVETo prepare oligo microarrays for hepatitis virus detection and genotyping.
METHODSBy analyzing the DNA or cDNA of HBV, HDV and 4 different genotypes of HCV with the BLAST program, a group of specific sequences for the candidate probes was specified. Array Designer 3.0 software was applied to analyze the candidates to select probes with high specificity, identical length and similar melting temperature (Tm). Altogether 16, 8 and 68 oligonucleotide probes were designed for diagnosis of HBV, HDV, and genotyping HCV. Following the synthesizing and purification, oligo probes were deposited on oligonucleotide chips as microarrays for hepatitis virus detection and genotyping. The samples were labeled by RD-PCR method. Hybridization results were analyzed to cross out those probes with low specificity and sensitivity, and those with signal to noise ratios (SNR) less than 4.0.
RESULTSTwo types of gene chips were successfully developed: microarrays for HBV and HDV simultaneous detection and for HCV genotyping.
CONCLUSIONUsing oligo probes to construct gene chips for clinical diagnosis of hepatitis virus is a simple and effective method. It may be widely used in detecting hepatitis viruses and their genotyping in clinical settings.
