Optical mapping discerns genome wide DNA methylation profiles
Optical mapping discerns genome wide DNA methylation profiles
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DOI：
10.1186/1471-2199-9-68
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发表时间：
2008-07-30
影响因子：
--
通讯作者：
Schwartz, David C.
中科院分区：
文献类型：
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作者：
Ananiev, Gene E.;Goldstein, Steve;Schwartz, David C.
背景：CpG二核苷酸的甲基化是真核基因组表观遗传调节的基本机制。开发快速基因组广泛甲基化分析的方法将极大地促进假设和发现驱动表观遗传学领域的研究。在这方面，一种单个分子的甲基化分析方法提供了几种独特的优势，包括消除化学DNA修饰步骤和PCR扩增。分子：基于光学映射的单个分子方法，用于识别甲基化谱。我们报告了一系列试验研究的结果，这些研究表明光学映射是整个基因组甲基化分析平台的能力。光学映射用于辨别从工程和野生型大肠杆菌的甲基化剖面。此外，使用光学映射对人类胚胎干细胞基因组中选定基因座的甲基化状态进行。判定：光学映射平台有效检测DNA甲基化模式。由于单分子检测，光学映射比其他技术具有显着优势。该优势源于消除DNA修饰步骤，例如亚硫酸盐处理，以及平台在哺乳动物基因组中测定重复致密区域的能力，使用阵列杂交技术无法访问技术。
Background: Methylation of CpG dinucleotides is a fundamental mechanism of epigenetic regulation in eukaryotic genomes. Development of methods for rapid genome wide methylation profiling will greatly facilitate both hypothesis and discovery driven research in the field of epigenetics. In this regard, a single molecule approach to methylation profiling offers several unique advantages that include elimination of chemical DNA modification steps and PCR amplification.Results: A single molecule approach is presented for the discernment of methylation profiles, based on optical mapping. We report results from a series of pilot studies demonstrating the capabilities of optical mapping as a platform for methylation profiling of whole genomes. Optical mapping was used to discern the methylation profile from both an engineered and wild type Escherichia coli. Furthermore, the methylation status of selected loci within the genome of human embryonic stem cells was profiled using optical mapping.Conclusion: The optical mapping platform effectively detects DNA methylation patterns. Due to single molecule detection, optical mapping offers significant advantages over other technologies. This advantage stems from obviation of DNA modification steps, such as bisulfite treatment, and the ability of the platform to assay repeat dense regions within mammalian genomes inaccessible to techniques using array-hybridization technologies.