TY - JOUR UR - https://doi.org/10.7717/peerj.9001 DO - 10.7717/peerj.9001 TI - CoproID predicts the source of coprolites and paleofeces using microbiome composition and host DNA content AU - Borry,Maxime AU - Cordova,Bryan AU - Perri,Angela AU - Wibowo,Marsha AU - Honap,Tanvi Prasad AU - Ko,Jada AU - Yu,Jie AU - Britton,Kate AU - Girdland-Flink,Linus AU - Power,Robert C. AU - Stuijts,Ingelise AU - Salazar-García,Domingo C. AU - Hofman,Courtney AU - Hagan,Richard AU - Samdapawindé Kagoné,Thérèse AU - Meda,Nicolas AU - Carabin,Helene AU - Jacobson,David AU - Reinhard,Karl AU - Lewis,Cecil AU - Kostic,Aleksandar AU - Jeong,Choongwon AU - Herbig,Alexander AU - Hübner,Alexander AU - Warinner,Christina A2 - Amorim,Antonio DA - 2020/04/17 PY - 2020 KW - Coprolite KW - Paleofeces KW - Microbiome KW - Endogenous DNA KW - Archeology KW - Machine learning KW - Nextflow KW - Gut KW - Human KW - Dog AB - 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. VL - 8 SP - e9001 T2 - PeerJ JO - PeerJ J2 - PeerJ SN - 2167-8359 ER -