三种PCR方法在HBV基因整合位点确定中的应用比较

目的 比较反向PCR（Inverse-PCR,IPCR）、Alu-PCR、接头PCR（Cassette-ligationmediated-PCR,CLM-PCR）三种PCR（Polymerase Chain Reaction,聚合酶链式反应）方法在乙型肝炎病毒基因组（HBV DNA）整合位点筛选中的应用效果.方法 手术获取1例乙肝表面抗原（HBsAg）阳性的肝癌患者的肝癌组织,提取基因组DNA,设计相应引物,分别采用三种PCR方法进行扩增,将PCR产物回收,克隆至PMD18-T载体进行基因测序,利用BLAST工具进行序列比对,分析三种方法在乙型肝炎病毒（HBV）DNA整合位点确定中的效果.结果 采用Inverse PCR方法检测PCR产物后得到7个特异性电泳条带,克隆后得到测序结果22个,经序列比对发现3个整合位点;采用Alu-PCR方法,产物电泳得到13个特异性条带,得到测序结果32个,序列比对未发现整合位点;采用CLM-PCR方法,得到12个特异性电泳条带,得到测序结果4个,未发现整合位点.结论 在查找HBV整合位点的研究中,IPCR方法具有较稳定的扩增能力及较高的位点检测率.

Integration sites in HCC biopsy

Objective To compare the performance of Inverse-PCR, Alu-PCR and Cassetteligation-mediated PCR (CLM-PCR) in HBV DNA integration sites identification. Mehtods One HCC biopsy was obtained from surgically resected sample. The patient was positive for serum hepatitis B surface antigen (HBsAg). The genomic DNA was purified by the standard phenol/chloroform extraction and ethanol precipitation method. Seperated set of primers were designed to amplify the HBV DNA integration region by means of 3 different PCR methods respectively. The PCR products were analyzed by electrophoresis, then cloned to PMD18-T vector for DNA sequencing. The sequence alignment was performed under Blast software. Results 7 bands and 22 sequencing results was obtained from IPCR and 3 integration sites was identified. Alu-PCR provided 12 bands and 32 sequencing results, and CLM-PCR showed 12 bands and 4sequencing results. No integration site was identified from the latter two. Conclution IPCR compared with another two methods showed a reliable capacity in HBV DNA integration site identification.