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Complete mitochondrial genome sequence of a Middle Pleistocene cave bear reconstructed from ultrashort DNA fragments
Open accessAbstract
Significance: Outside of permafrost, no contiguous DNA sequences have been generated from material older than ∼120,000 y. By improving our ability to sequence very short DNA fragments, we have recovered the mitochondrial genome sequence of a >300,000-y-old cave bear from Sima de los Huesos, a Spanish cave site that is famous for its rich collection of Middle Pleistocene human fossils. This finding demonstrates that DNA can survive for hundreds of thousands of years outside of permafrost and opens the prospect of making more samples from this time period accessible to genetic studies.
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“We extracted DNA28 and built next-generation sequencing libraries to which we attached unique barcodes to minimize the possibility of contamination.”
From Ancient DNA from Chalcolithic Israel reveals the role of population mixture in cultural transformation (2018) · cites this paper as [28]
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“This interdependence of the ancestry of Europe and the Near East may have been mediated by unsampled geographically intermediate populations36 that contribute ancestry to both regions.”
From Genomic insights into the origin of farming in the ancient Near East (2016) · cites this paper as [36]
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“Because it is highly fragmented, aDNA behaves differently than high molecular weight genomic DNA from fresh specimens, and it requires custom protocols for efficient recovery 39 .”
From Ancient DNA analysis (2021) · cites this paper as [39]
In the citing paper
“Optimizing DNA extraction and library construction to recover fragments as short as 35 bp has been decisive in characterizing DNA from samples showing extensive molecular degradation 39,119 .”
From Ancient DNA analysis (2021) · cites this paper as [39]
In the citing paper
“This DNA sample was preserved in bone, thereby demonstrating that the required power consumption for the archival storage of DNA is very low—another benefit compared with traditional data storage media.”
From Emerging Approaches to DNA Data Storage: Challenges and Prospects (2022) · cites this paper as [5]
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Metadata
- Authors
- Dabney, J., Knapp, M., Glocke, I., Gansauge, M.-T., Weihmann, A., Nickel, B., Valdiosera, C., García, N., Pääbo, S., Arsuaga, J.-L., & Meyer, M.
- Affiliations
- Max Planck Institute for Evolutionary Anthropology (DE)
- Bangor University (GB)
- Universidad Complutense de Madrid (ES)
- Centro de Investigación Sobre la Evolución y Comportamiento Humanos, Universidad Complutense de Madrid–Instituto de Salud Carlos III, 28029 Madrid, Spain;
- ORCID
- Venue
- Proceedings of the National Academy of Sciences
- Publisher
- National Academy of Sciences
- Published
- 2013-09-09
- Volume
- 110
- Issue
- 39
- Pages
- 15758-15763
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- PMC
- PMC3785785
- OpenAlex
- W2050254973
- Cited by
- 1,443
- References
- 48
- Citations by year
- 2026: 128 · 2025: 163 · 2024: 113 · 2023: 117 · 2022: 137 · 2021: 153 · 2020: 161 · 2019: 129 · 2018: 95 · 2017: 96 · 2016: 60 · 2015: 50 · 2014: 34 · 2013: 5
- FWCI
- 32.92
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- Proceedings of the National Academy of Sciences (publishedVersion)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Library Open Repository (Universidad Complutense Madrid) (submittedVersion, other-oa)
- Digital Commons - University of South Florida (University of South Florida) (submittedVersion)
- MPG.PuRe (Max Planck Society) (submittedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Forensic and Genetic Research
- Social Sciences › Anthropology › Pleistocene-Era Hominins and Archaeology
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Keywords
- cave bear, Ursus deningeri, mitochondrial genome, ancient DNA, single-stranded DNA library preparation, Sima de los Huesos, Middle Pleistocene, phylogenetic relationships
- MeSH terms
- Animals, Base Sequence, Ursidae, DNA, Molecular Sequence Data, Phylogeny, Time Factors, Genome, Mitochondrial, Caves
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