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- SPIN enables high throughput species identification of archaeological bone by proteomicsPublication . Rüther, Patrick Leopold; Husic, Immanuel Mirnes; Bangsgaard, Pernille; Gregersen, Kristian Murphy; Pantmann, Pernille; Carvalho, Milena; Godinho, Ricardo Miguel; Friedl, Lukas; Cascalheira, João; Taurozzi, Alberto John; Jørkov, Marie Louise Schjellerup; Benedetti, Michael; Haws, Jonathan; Bicho, Nuno; Welker, Frido; Cappellini, Enrico; Olsen, Jesper VelgaardSpecies 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 fingerprinting (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 demonstrate 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 European 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.
- Human adaptive responses to climate and environmental change during the Gravettian of Lapa do Picareiro (Portugal)Publication . Haws, Jonathan; Benedetti, Michael; Carvalho, Milena; Ellis, Grace; Pereira, Telmo; Cascalheira, João; Bicho, Nuno; Friedl, LukasOn the Iberian Peninsula, abrupt climate shifts during the Late Pleistocene impacted human and natural systems. Our knowledge of human adaptive responses to these climatic perturbations has improved in recent years with the development of new radiocarbon techniques that have increased the temporal resolution of cultural chronologies. At the same time, new high-resolution paleoclimatic records from Greenland ice cores, deep-sea sediment cores, speleothems, and microfaunal assemblages have permitted detailed paleoenvironmental reconstructions. Combined with the archaeological record of culture change, these data sets allow for a better understanding of the nature of human socio-ecological systems during the Late Pleistocene. Here we present new data on the Gravettian occupations at Lapa do Picareiro, a cave site in Portugal with a long continuous stratigraphic sequence spanning MIS 3 and 2. The ongoing excavation of Lapa do Picareiro has revealed at least three Gravettian levels with very different patterns of raw material use and technological reduction. The Early Gravettian levels contain a quartzite flake assemblage with several refitting clusters and a small chert assemblage with nosed endscrapers and bladelet technology. The Late or Terminal Gravettian level contains carinated endscraper/core-bladelet technology, mainly quartz, with chert blade production, and a few bone tools. The faunal assemblages also have a different character. Both contain a similar range of medium and large ungulates but the earlier Gravettian has a much richer and more diverse assemblage of small animals. These combined archaeological data sets provide a new perspective on Gravettian human adaptations in response to climate shifts, especially Heinrich Event 3 and Greenland Interstadials 4 and 3.