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

Borry, M., Cordova, B., Perri, A. R., 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.

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Genre: Zeitschriftenartikel

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Borry_CoproID_PeerJ_2020.pdf (Verlagsversion), 9MB
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Borry_CoproID_PeerJ_2020.pdf
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Copyright Datum:
2020
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This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ) and either DOI or URL of the article must be cited.

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 Urheber:
Borry, Maxime, Autor
Cordova, Bryan, Autor
Perri, Angela R.1, Autor                 
Wibowo, Marsha, Autor
Honap, Tanvi Prasad, Autor
Ko, Jada, Autor
Yu, Jie, Autor
Britton, Kate1, Autor                 
Girdland-Flink, Linus, Autor
Power, Robert C., Autor
Stuijts, Ingelise, Autor
Salazar-García, Domingo C., Autor
Hofman, Courtney, Autor
Hagan, Richard, Autor
Kagoné, Thérèse Samdapawindé, Autor
Meda, Nicolas, Autor
Carabin, Helene, Autor
Jacobson, David, Autor
Reinhard, Karl, Autor
Lewis, Cecil, Autor
Kostic, Aleksandar, AutorJeong, Choongwon, AutorHerbig, Alexander, AutorHübner, Alexander, AutorWarinner, Christina, Autor mehr..
Affiliations:
1Department of Human Evolution, Max Planck Institute for Evolutionary Anthropology, Max Planck Society, ou_1497673              

Inhalt

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Schlagwörter: Coprolite, Paleofeces, Microbiome, Endogenous DNA, Archeology, Machine learning, Nextflow, Gut, Human, Dog
 Zusammenfassung: 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.

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Sprache(n): eng - English
 Datum: 2020-04-17
 Publikationsstatus: Online veröffentlicht
 Seiten: 23
 Ort, Verlag, Ausgabe: -
 Inhaltsverzeichnis: -
 Art der Begutachtung: Expertenbegutachtung
 Identifikatoren: DOI: 10.7717/peerj.9001
 Art des Abschluß: -

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Titel: PeerJ
  Andere : PeerJ
Genre der Quelle: Zeitschrift
 Urheber:
Affiliations:
Ort, Verlag, Ausgabe: London [u.a.] : PeerJ Inc.
Seiten: - Band / Heft: 8 Artikelnummer: e9001 Start- / Endseite: - Identifikator: ISSN: 2167-8359