ArticleScientific reports2015
Pros and cons of methylation-based enrichment methods for ancient DNA.
Article in Scientific reports, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 63 citations in OpenAlex.
- A Million Years of Mammoth Mitogenome Evolution.Molecular biology and evolution · 2025Article
- Inferring DNA methylation in non-skeletal tissues of ancient specimens.Nature ecology & evolution · 2025Article
- Investigating food production-associated DNA methylation changes in paleogenomes: Lack of consistent signals beyond technical noise.Evolutionary applications · 2024Article
- High Sensitivity of Shotgun Metagenomic Sequencing in Colon Tissue Biopsy by Host DNA Depletion.Genomics, proteomics & bioinformatics · 2023Article
- Predicting Archaic Hominin Phenotypes from Genomic Data.Annual review of genomics and human genetics · 2022Review
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- Performance and automation of ancient DNA capture with RNA hyRAD probes.Molecular ecology resources · 2022Article
- Review
- Article
- Reconstructing double-stranded DNA fragments on a single-molecule level reveals patterns of degradation in ancient samples.Genome research · 2020Article
- Article
- Inferring Past Environments from Ancient Epigenomes.Molecular biology and evolution · 2017Article
- Comparative performance of the BGISEQ-500 vs Illumina HiSeq2500 sequencing platforms for palaeogenomic sequencing.GigaScience · 2017Article
- Evolutionary adaptation revealed by comparative genome analysis of woolly mammoths and elephants.DNA research : an international journal for rapid publication of reports on genes and genomes · 2017Article
- Human evolution: a tale from ancient genomes.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2017Review
- Evolutionary Patterns and Processes: Lessons from Ancient DNA.Systematic biology · 2017Review
- Fast, Accurate and Automatic Ancient Nucleosome and Methylation Maps with epiPALEOMIX.Molecular biology and evolution · 2016Article
- A whole mitochondria analysis of the Tyrolean Iceman's leather provides insights into the animal sources of Copper Age clothing.Scientific reports · 2016Article
Corrections and comments
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Authors and funding
21 authors at 11 institutions in 6 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The recent discovery that DNA methylation survives in fossil material provides an opportunity for novel molecular approaches in palaeogenomics. Here, we apply to ancient DNA extracts the probe-independent Methylated Binding Domains (MBD)-based enrichment method, which targets DNA molecules containing methylated CpGs. Using remains of a Palaeo-Eskimo Saqqaq individual, woolly mammoths, polar bears and two equine species, we confirm that DNA methylation survives in a variety of tissues, environmental contexts and over a large temporal range (4,000 to over 45,000 years before present). MBD enrichment, however, appears principally biased towards the recovery of CpG-rich and long DNA templates and is limited by the fast post-mortem cytosine deamination rates of methylated epialleles. This method, thus, appears only appropriate for the analysis of ancient methylomes from very well preserved samples, where both DNA fragmentation and deamination have been limited. This work represents an essential step toward the characterization of ancient methylation signatures, which will help understanding the role of epigenetic changes in past environmental and cultural transitions.
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