SPIN enables high throughput species identification of archaeological bone by proteomics

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dc.contributor.authorRüther, Patrick Leopold
dc.contributor.authorHusic, Immanuel Mirnes
dc.contributor.authorBangsgaard, Pernille
dc.contributor.authorGregersen, Kristian Murphy
dc.contributor.authorPantmann, Pernille
dc.contributor.authorCarvalho, Milena
dc.contributor.authorGodinho, Ricardo Miguel
dc.contributor.authorFriedl, Lukáš
dc.contributor.authorCascalheira, João
dc.contributor.authorTaurozzi, Alberto John
dc.contributor.authorSchjellerup Jørkov, Marie Louise
dc.contributor.authorBenedetti, Michael M.
dc.contributor.authorHaws, Jonathan
dc.contributor.authorBicho, Nuno
dc.contributor.authorWelker, Frido
dc.contributor.authorCappellini, Enrico
dc.contributor.authorOlsen, Jesper Velgaard
dc.date.accessioned2022-11-07T11:00:12Z
dc.date.available2022-11-07T11:00:12Z
dc.date.issued2022
dc.description.abstract-translatedSpecies determination based on genetic evidence is an indispensable tool in archaeology, forensics, ecology, and food authentication. Most available analytical approaches involve compromises with regard to the number of detectable species, high cost due to low throughput, or a labor-intensive manual process. Here, we introduce “Species by Proteome INvestigation” (SPIN), a shotgun proteomics workflow for analyzing archaeological bone capable of querying over 150 mammalian species by liquid chromatography-tandem mass spectrometry (LC-MS/MS). Rapid peptide chromatography and data-independent acquisition (DIA) with throughput of 200 samples per day reduce expensive MS time, whereas streamlined sample preparation and automated data interpretation save labor costs. We confirm the successful classification of known reference bones, including domestic species and great apes, beyond the taxonomic resolution of the conventional peptide mass finger- printing (PMF)-based Zooarchaeology by Mass Spectrometry (ZooMS) method. In a blinded study of degraded Iron-Age material from Scandinavia, SPIN produces reproducible results between replicates, which are consistent with morphological analysis. Finally, we demon- strate the high throughput capabilities of the method in a high-degradation context by analyzing more than two hundred Middle and Upper Palaeolithic bones from Southern Eur- opean sites with late Neanderthal occupation. While this initial study is focused on modern and archaeological mammalian bone, SPIN will be open and expandable to other biological tissues and taxa.en
dc.format14 s.cs
dc.format.mimetypeapplication/pdf
dc.identifier.citationRÜTHER, PL. HUSIC, IM. BANGSGAARD, P. GREGERSEN, KM. PANTMANN, P. CARVALHO, M. GODINHO, RM. FRIEDL, L. CASCALHEIRA, J. TAUROZZI, AJ. SCHJELLERUP JØRKOV, ML. BENEDETTI, MM. HAWS, J. BICHO, N. WELKER, F. CAPPELLINI, E. OLSEN, JV. SPIN enables high throughput species identification of archaeological bone by proteomics. Nature Communications, 2022, roč. 13, č. 1, s. 1-14. ISSN: 2041-1723cs
dc.identifier.document-number791508600033
dc.identifier.doi10.1038/s41467-022-30097-x
dc.identifier.issn2041-1723
dc.identifier.obd43936627
dc.identifier.uri2-s2.0-85129351300
dc.identifier.urihttp://hdl.handle.net/11025/49887
dc.language.isoenen
dc.project.IDSGS-2022-002/Lapa do Picareiro: terénní a laboratorní aktivity na mezioborovém výzkumu středního a mladého paleolitu na Pyrenejském poloostrovecs
dc.publisherNature Researchen
dc.relation.ispartofseriesNature Communicationsen
dc.rights© authorsen
dc.rights.accessopenAccessen
dc.subject.translatedSPINen
dc.subject.translatedproteomicsen
dc.subject.translatedspecies identificationen
dc.subject.translatedarcheological boneen
dc.titleSPIN enables high throughput species identification of archaeological bone by proteomicsen
dc.typečlánekcs
dc.typearticleen
dc.type.statusPeer-revieweden
dc.type.versionpublishedVersionen

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