Improved detection of methylation in ancient DNA

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

doi:10.1186/s13059-024-03405-5

Improved detection of methylation in ancient DNA

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

Research output: Contribution to journal › Article › peer-review

1 Scopus citations

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.

Original language	English
Pages (from-to)	261
Number of pages	1
Journal	Genome Biology
Volume	25
Issue number	1
DOIs	https://doi.org/10.1186/s13059-024-03405-5
State	Published - 10 Oct 2024

Bibliographical note

Publisher Copyright:
© 2024. The Author(s).

Keywords

Ancient DNA
Bisulfite treatment
Enzymatic methylation treatment
Methylation
Paleogenomics

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10.1186/s13059-024-03405-5

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Sawyer, S., Gelabert, P., Yakir, B., Llanos-Lizcano, A., Sperduti, A., Bondioli, L., Cheronet, O., Neugebauer-Maresch, C., Teschler-Nicola, M., Novak, M., Pap, I., Szikossy, I., Hajdu, T., Moiseyev, V., Gromov, A., Zariņa, G., Meshorer, E., Carmel, L., & Pinhasi, R. (2024). Improved detection of methylation in ancient DNA. Genome Biology, 25(1), 261. https://doi.org/10.1186/s13059-024-03405-5

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Sawyer, S, Gelabert, P, Yakir, B, Llanos-Lizcano, A, Sperduti, A, Bondioli, L, Cheronet, O, Neugebauer-Maresch, C, Teschler-Nicola, M, Novak, M, Pap, I, Szikossy, I, Hajdu, T, Moiseyev, V, Gromov, A, Zariņa, G, Meshorer, E , Carmel, L & Pinhasi, R 2024, 'Improved detection of methylation in ancient DNA', Genome Biology, vol. 25, no. 1, pp. 261. https://doi.org/10.1186/s13059-024-03405-5

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AU - Teschler-Nicola, Maria

AU - Novak, Mario

AU - Pap, Ildikó

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Improved detection of methylation in ancient DNA

Abstract

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Keywords

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