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CoproID predicts the source of coprolites and paleofeces using microbiome composition and host DNA content

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Borry,  Maxime       
Archaeogenetics, Max Planck Institute for the Science of Human History, Max Planck Society;

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Cordova,  Bryan
Archaeogenetics, Max Planck Institute for the Science of Human History, Max Planck Society;

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Hagan,  Richard
Archaeogenetics, Max Planck Institute for the Science of Human History, Max Planck Society;

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Jeong,  Choongwon
Eurasia3angle, Max Planck Institute for the Science of Human History, Max Planck Society;

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Herbig,  Alexander       
Archaeogenetics, Max Planck Institute for the Science of Human History, Max Planck Society;

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Hübner,  Alexander       
Archaeogenetics, Max Planck Institute for the Science of Human History, Max Planck Society;

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Warinner,  Christina       
Archaeogenetics, Max Planck Institute for the Science of Human History, Max Planck Society;

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Borry_CoproID_PeerJ_2020.pdf
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Citation

Borry, M., Cordova, B., Perri, A., Wibowo, M., Honap, T. P., Ko, J., et al. (2020). CoproID predicts the source of coprolites and paleofeces using microbiome composition and host DNA content. PeerJ, 8:e9001. doi:10.7717/peerj.9001.


Cite as: https://hdl.handle.net/21.11116/0000-0007-30E0-5
Abstract
Shotgun metagenomics applied to archaeological feces (paleofeces) can bring new insights into the composition and functions of human and animal gut microbiota from the past. However, paleofeces often undergo physical distortions in archaeological sediments, making their source species difficult to identify on the basis of fecal morphology or microscopic features alone. Here we present a reproducible and scalable pipeline using both host and microbial DNA to infer the host source of fecal material. We apply this pipeline to newly sequenced archaeological specimens and show that we are able to distinguish morphologically similar human and canine paleofeces, as well as non-fecal sediments, from a range of archaeological contexts.