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  Ratio of mitochondrial to nuclear DNA affects contamination estimates in ancient DNA analysis

Furtwängler, A., Reiter, E., Neumann, G. U., Siebke, I., Steuri, N., Hafner, A., et al. (2018). Ratio of mitochondrial to nuclear DNA affects contamination estimates in ancient DNA analysis. Scientific Reports, 8: 14075. doi:10.1038/s41598-018-32083-0.

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Item Permalink: http://hdl.handle.net/21.11116/0000-0002-5006-D Version Permalink: http://hdl.handle.net/21.11116/0000-0002-50B3-9
Genre: Journal Article

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Furtwängler, Anja, Author
Reiter, Ella, Author
Neumann, Gunnar U., Author
Siebke, Inga, Author
Steuri, Noah, Author
Hafner, Albert, Author
Lösch, Sandra, Author
Anthes, Nils, Author
Schuenemann, Verena J., Author
Krause, Johannes1, 2, Author              
Affiliations:
1Archaeogenetics, Max Planck Institute for the Science of Human History, Max Planck Society, ou_2074310              
2MHAAM, Max Planck Institute for the Science of Human History, Max Planck Society, ou_2541699              

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 Abstract: In the last decade, ancient DNA research has grown rapidly and started to overcome several of its earlier limitations through Next-Generation-Sequencing (NGS). Among other advances, NGS allows direct estimation of sample contamination from modern DNA sources. First NGS-based approaches of estimating contamination measured heterozygosity. These measurements, however, could only be performed on haploid genomic regions, i.e. the mitochondrial genome or male X chromosomes, but provided no measures of contamination in the nuclear genome of females with their two X chromosomes. Instead, female nuclear contamination is routinely extrapolated from mitochondrial contamination estimates, but it remains unclear if this extrapolation is reliable and to what degree variation in mitochondrial to nuclear DNA ratios affects this extrapolation. We therefore analyzed ancient DNA from 317 samples of different skeletal elements from multiple sites, spanning a temporal range from 7,000 BP to 386 AD. We found that the mitochondrial to nuclear DNA (mt/nc) ratio negatively correlates with an increase in endogenous DNA content and strongly influenced mitochondrial and nuclear contamination estimates in males. The ratio of mt to nc contamination estimates remained stable for overall mt/nc ratios below 200, as found particularly often in petrous bones but less in other skeletal elements and became more variable above that ratio.

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Language(s): eng - English
 Dates: 2018-09-19
 Publication Status: Published online
 Pages: 8
 Publishing info: -
 Table of Contents: -
 Rev. Method: Peer
 Identifiers: DOI: 10.1038/s41598-018-32083-0
Other: shh1083
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Title: Scientific Reports
  Abbreviation : Sci. Rep.
Source Genre: Journal
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Publ. Info: London, UK : Nature Publishing Group
Pages: - Volume / Issue: 8 Sequence Number: 14075 Start / End Page: - Identifier: ISSN: 2045-2322
CoNE: https://pure.mpg.de/cone/journals/resource/2045-2322