组织中全基因组DNA甲基化的液相色谱-串联质谱分析

Analysis of Global DNA Methylation in Tissue by Liquid Chromatography-Tandem Mass Spectrometry

  • 摘要: 建立液相色谱-串联质谱测定组织中全基因组DNA甲基化水平的方法。采用苯酚氯仿提取组织DNA,提取的DNA用88%甲酸在140 ℃下裂解,DNA裂解液加入同位素胞嘧啶作内标,经N2吹干后,用甲醇溶解,以液相色谱-串联质谱检测胞嘧啶和5-甲基胞嘧啶的含量,并计算全基因组中DNA甲基化的水平。结果表明,胞嘧啶的线性范围为1~100 μg•L-1,相关系数为0.997 4,相对标准偏差为0.70%~4.09%;5-甲基胞嘧啶的线性范围为1~50 μg•L-1,相关系数为0.994 8,相对标准偏差为0.60%~4.81%。胞嘧啶和5甲基胞嘧啶的检出限为1 pg,日内相对标准偏差为1.86%~4.67%,日间相对标准偏差为3.72%~4.68%,胞嘧啶和5-甲基胞嘧啶的加样回收率为86.52%~105.14%。本研究所建立的方法检测组织中DNA甲基化程度,具有专一性强、操作简便的优点,能较好的满足全基因组DNA甲基化检测的要求。

     

    Abstract: Global DNA methylation in tissue was determined by liquid chromatography-tandem mass spectrometry (LCMS/MS). DNA was extracted by phenol-chloroform, hydrolyzed using 88% formic acid at 140 ℃, spiked with cytosine-2, 4-13C2,15N2 as internal standard, reconstituted in methanol and analyzed by LC-MS/MS with multiple reaction monitoring mode, to reflect the global DNA methylation level of the tissue. Results show that the limit of quantification is 1 μg•L-1 for both Cytosine (Cyt) and 5-methylcytosine (5mCyt), and the linear ranges of calibration curve are 1—50 μg•L-1 and 1—100 μg•L-1 for 5mCyt and Cyt, respectively, with correlation coefficient higher than 0.99. The relative standard deviations (RSDs) are 0.70%—4.09% and 0.60%—4.81% for Cyt and 5mCyt, respectively. The intra-day precision expressed as RSD ranges from 1.86% to 4.67%, while the inter-day values from 3.72% to 4.68% .The recovery ratio of method varies from 86.52% to 105.14%. The method is simple, and can be used for detection of Cyt and 5mCyt, thus enabling the evaluation of global DNA methylation.

     

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