Improved detection of methylation in ancient DNA

IF 10.1 1区生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genome Biology Pub Date : 2024-10-10 DOI:10.1186/s13059-024-03405-5

Susanna Sawyer, Pere Gelabert, Benjamin Yakir, Alejandro Llanos-Lizcano, Alessandra Sperduti, Luca Bondioli, Olivia Cheronet, Christine Neugebauer-Maresch, Maria Teschler-Nicola, Mario Novak, Ildikó Pap, Ildikó Szikossy, Tamás Hajdu, Vyacheslav Moiseyev, Andrey Gromov, Gunita Zariņa, Eran Meshorer, Liran Carmel, Ron Pinhasi

引用次数: 0

Abstract

Reconstructing premortem DNA methylation levels in ancient DNA has led to breakthrough studies such as the prediction of anatomical features of the Denisovan. These studies rely on computationally inferring methylation levels from damage signals in naturally deaminated cytosines, which requires expensive high-coverage genomes. Here, we test two methods for direct methylation measurement developed for modern DNA based on either bisulfite or enzymatic methylation treatments. Bisulfite treatment shows the least reduction in DNA yields as well as the least biases during methylation conversion, demonstrating that this method can be successfully applied to ancient DNA.

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改进古 DNA 甲基化检测

在古 DNA 中重建死前 DNA 甲基化水平已经促成了一些突破性研究，如预测丹尼索瓦人的解剖特征。这些研究依赖于从自然脱氨基胞嘧啶的损伤信号中计算推断甲基化水平，这需要昂贵的高覆盖基因组。在这里，我们测试了两种基于亚硫酸氢盐或酶甲基化处理的现代 DNA 直接甲基化测量方法。亚硫酸氢盐处理的 DNA 产量减少最少，甲基化转换过程中的偏差也最小，这表明这种方法可以成功应用于古代 DNA。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Genome Biology Biochemistry, Genetics and Molecular Biology-Genetics

CiteScore

21.00

自引率

3.30%

发文量

241

审稿时长

2 months

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