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Journal Article

Comparative analysis of genome-scale, base-resolution DNA methylation profiles across 580 animal species

MPS-Authors
/persons/resource/persons200296

Lugo Ramos,  Juan Sebastian
Max Planck Research Group Behavioural Genomics (Liedvogel), Max Planck Institute for Evolutionary Biology, Max Planck Society;

/persons/resource/persons145960

Liedvogel,  Miriam       
Max Planck Research Group Behavioural Genomics (Liedvogel), Max Planck Institute for Evolutionary Biology, Max Planck Society;

External Resource

http://cross-species-methylation.bocklab.org/
(Research data)

https://github.com/epigen/DNAmeth500species
(Research data)

https://doi.org/10.5281/zenodo.7186970
(Research data)

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Supplementary Material (public)

41467_2022_34828_MOESM1_ESM.pdf
(Supplementary material), 19MB

Citation

Klughammer, J., Romanovskaia, D., Nemc, A., Posautz, A., Seid, C. A., Schuster, L. C., et al. (2023). Comparative analysis of genome-scale, base-resolution DNA methylation profiles across 580 animal species. Nature Communications, 14: 232. doi:10.1038/s41467-022-34828-y.


Cite as: https://hdl.handle.net/21.11116/0000-000C-E720-B
Abstract
Methylation of cytosines is a prototypic epigenetic modification of the DNA. It has been implicated in various regulatory mechanisms across the animal kingdom and particularly in vertebrates. We mapped DNA methylation in 580 animal species (535 vertebrates, 45 invertebrates), resulting in 2443 genome-scale DNA methylation profiles of multiple organs. Bioinformatic analysis of this large dataset quantified the association of DNA methylation with the underlying genomic DNA sequence throughout vertebrate evolution. We observed a broadly conserved link with two major transitions—once in the first vertebrates and again with the emergence of reptiles. Cross-species comparisons focusing on individual organs supported a deeply conserved association of DNA methylation with tissue type, and cross-mapping analysis of DNA methylation at gene promoters revealed evolutionary changes for orthologous genes. In summary, this study establishes a large resource of vertebrate and invertebrate DNA methylomes, it showcases the power of reference-free epigenome analysis in species for which no reference genomes are available, and it contributes an epigenetic perspective to the study of vertebrate evolution.