Evolution of DNA Methylation Across Ecdysozoa
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| Title: | Evolution of DNA Methylation Across Ecdysozoa |
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| Authors: | Jan Engelhardt, Oliver Scheer, Peter F. Stadler, Sonja J. Prohaska |
| Source: | J Mol Evol |
| Publisher Information: | Springer Science and Business Media LLC, 2021. |
| Publication Year: | 2021 |
| Subject Terms: | 0301 basic medicine, Nematoda, 106002 Biochemie, DNA methyltransferase, Evolutionary biology, HEMIPTERA, Gene, 106005 Bioinformatik, 106023 Molekularbiologie, DOMAIN, Tardigrada, Phylogeny, DNA methylation, Observed, Ecology, Life Sciences, 106023 Molecular biology, GENOME, Drosophila melanogaster, Physical Sciences, Original Article, 106005 Bioinformatics, 106012 Evolutionsforschung, 106012 Evolutionary research, DNA Methylation/genetics, Phylum, Gaussian mixture modeling, Nematoda/genetics, Epigenetic Modifications and Their Functional Implications, Global Diversity of Microbial Eukaryotes and Their Evolution, Environmental DNA, PHYLOGENOMICS, Methylation, 03 medical and health sciences, Biochemistry, Genetics and Molecular Biology, REVEALS, Genetics, Animals, Caenorhabditis elegans, HISTONE H3, Arthropods, Molecular Biology, Biology, COMPLEX, Tardigrada/genetics, Observed/expected CpG ratio, 106002 Biochemistry, Arthropods/genetics, DNA, Evolutionary epigenetics, DNA Methylation, FOS: Biological sciences, Environmental Science, DNMT3A, expected CpG ratio, METHYLTRANSFERASE, Gene expression, Zoology, Environmental DNA in Biodiversity Monitoring |
| Description: | DNA methylation is a crucial, abundant mechanism of gene regulation in vertebrates. It is less prevalent in many other metazoan organisms and completely absent in some key model species, such as Drosophila melanogaster and Caenorhabditis elegans. We report here a comprehensive study of the presence and absence of DNA methyltransferases (DNMTs) in 138 Ecdysozoa, covering Arthropoda, Nematoda, Priapulida, Onychophora, and Tardigrada. Three of these phyla have not been investigated for the presence of DNA methylation before. We observe that the loss of individual DNMTs independently occurred multiple times across ecdysozoan phyla. We computationally predict the presence of DNA methylation based on CpG rates in coding sequences using an implementation of Gaussian Mixture Modeling, . Integrating both analysis we predict two previously unknown losses of DNA methylation in Ecdysozoa, one within Chelicerata (Mesostigmata) and one in Tardigrada. In the early-branching Ecdysozoa Priapulus caudatus, we predict the presence of a full set of DNMTs and the presence of DNA methylation. We are therefore showing a very diverse and independent evolution of DNA methylation in different ecdysozoan phyla spanning a phylogenetic range of more than 700 million years. |
| Document Type: | Article Other literature type |
| Language: | English |
| ISSN: | 1432-1432 0022-2844 |
| DOI: | 10.1007/s00239-021-10042-0 |
| DOI: | 10.1101/2021.07.15.452454 |
| DOI: | 10.60692/7v8dg-41888 |
| DOI: | 10.60692/kf8s0-g2h77 |
| Access URL: | https://link.springer.com/content/pdf/10.1007/s00239-021-10042-0.pdf https://www.biorxiv.org/content/biorxiv/early/2021/07/15/2021.07.15.452454.full.pdf https://pubmed.ncbi.nlm.nih.gov/35089376 https://ucrisportal.univie.ac.at/de/publications/644a4fbb-4082-43b2-936a-1d94448ce9db https://doi.org/10.1007/s00239-021-10042-0 https://www.biorxiv.org/content/biorxiv/early/2021/07/15/2021.07.15.452454.full.pdf https://europepmc.org/article/PPR/PPR370194 https://www.biorxiv.org/content/10.1101/2021.07.15.452454v1 |
| Rights: | CC BY URL: http://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (http://creativecommons.org/licenses/by/4.0/) . |
| Accession Number: | edsair.doi.dedup.....92dd2b07fc5e9542787455a8e946d8c4 |
| Database: | OpenAIRE |
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Nájsť tento článok vo Web of Science | Abstract: | DNA methylation is a crucial, abundant mechanism of gene regulation in vertebrates. It is less prevalent in many other metazoan organisms and completely absent in some key model species, such as Drosophila melanogaster and Caenorhabditis elegans. We report here a comprehensive study of the presence and absence of DNA methyltransferases (DNMTs) in 138 Ecdysozoa, covering Arthropoda, Nematoda, Priapulida, Onychophora, and Tardigrada. Three of these phyla have not been investigated for the presence of DNA methylation before. We observe that the loss of individual DNMTs independently occurred multiple times across ecdysozoan phyla. We computationally predict the presence of DNA methylation based on CpG rates in coding sequences using an implementation of Gaussian Mixture Modeling, . Integrating both analysis we predict two previously unknown losses of DNA methylation in Ecdysozoa, one within Chelicerata (Mesostigmata) and one in Tardigrada. In the early-branching Ecdysozoa Priapulus caudatus, we predict the presence of a full set of DNMTs and the presence of DNA methylation. We are therefore showing a very diverse and independent evolution of DNA methylation in different ecdysozoan phyla spanning a phylogenetic range of more than 700 million years. |
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| ISSN: | 14321432 00222844 |
| DOI: | 10.1007/s00239-021-10042-0 |