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Pezo-Lanfranco L, Mut P, Chávez J, Fossile T, Colonese AC, Fernandes R. South American Archaeological Isotopic Database, a regional-scale multi-isotope data compendium for research. Sci Data 2024; 11:336. [PMID: 38575659 PMCID: PMC10995213 DOI: 10.1038/s41597-024-03148-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2023] [Accepted: 03/18/2024] [Indexed: 04/06/2024] Open
Abstract
The South American Archaeological Isotopic Database (SAAID) is a comprehensive open-access resource that aggregates all available bioarchaeological stable and radiogenic isotope measurements, encompassing data from human individuals, animals, and plants across South America. Resulting from a collaborative effort of scholars who work with stable isotopes in this region, SAAID contains 53,781 isotopic measurements across 24,507 entries from individuals/specimens spanning over 12,000 years. SAAID includes valuable contextual information on archaeological samples and respective sites, such as chronology, geographical region, biome, and spatial coordinates, biological details like estimated sex and age for human individuals, and taxonomic description for fauna and flora. SAAID is hosted at the PACHAMAMA community within the Pandora data platform and the CORA repository to facilitate easy access. Because of its rich data structure, SAAID is particularly well-suited for conducting spatiotemporal meta-analyses. It serves as a valuable tool for addressing a variety of research topics, including the spread, adoption, and consumption intensification of food items, paleo-environmental reconstruction, as well as the exploration of mobility patterns across extensive geographic regions.
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Affiliation(s)
- Luis Pezo-Lanfranco
- Institute of Environmental Science and Technology (ICTA), Universitat Autònoma de Barcelona, Cerdanyola del Vallès, Spain.
- Department of Prehistory, Universitat Autònoma de Barcelona, Cerdanyola del Vallès, Spain.
| | - Patricia Mut
- Departamento de Antropología Biológica, Universidad de la República, Montevideo, Uruguay
| | - Juan Chávez
- Department of Anthropology, University of California, Riverside, USA
- Observatorio de Patrimonio Cultural y Arqueológico - Instituto de Investigaciones Antropológicas y Arqueológicas, Universidad Mayor de San Andrés, La Paz, Bolivia
| | - Thiago Fossile
- Institute of Environmental Science and Technology (ICTA), Universitat Autònoma de Barcelona, Cerdanyola del Vallès, Spain
- Department of Prehistory, Universitat Autònoma de Barcelona, Cerdanyola del Vallès, Spain
| | - André Carlo Colonese
- Institute of Environmental Science and Technology (ICTA), Universitat Autònoma de Barcelona, Cerdanyola del Vallès, Spain
- Department of Prehistory, Universitat Autònoma de Barcelona, Cerdanyola del Vallès, Spain
| | - Ricardo Fernandes
- Department of Archaeology, Max Planck Institute of Geoanthropology, Jena, Germany.
- Faculty of Archaeology, University of Warsaw, Warsaw, Poland.
- Arne Faculty of Arts, Masaryk University, Brno, Czech Republic.
- Climate Change and History Research Initiative, Princeton University, Princeton, USA.
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Salazar L, Burger R, Forst J, Barquera R, Nesbitt J, Calero J, Washburn E, Verano J, Zhu K, Sop K, Kassadjikova K, Ibarra Asencios B, Davidson R, Bradley B, Krause J, Fehren-Schmitz L. Insights into the genetic histories and lifeways of Machu Picchu's occupants. SCIENCE ADVANCES 2023; 9:eadg3377. [PMID: 37494435 PMCID: PMC11318671 DOI: 10.1126/sciadv.adg3377] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/16/2022] [Accepted: 06/23/2023] [Indexed: 07/28/2023]
Abstract
Machu Picchu originally functioned as a palace within the estate of the Inca emperor Pachacuti between ~1420 and 1532 CE. Before this study, little was known about the people who lived and died there, where they came from or how they were related to the inhabitants of the Inca capital of Cusco. We generated genome-wide data for 34 individuals buried at Machu Picchu who are believed to have been retainers or attendants assigned to serve the Inca royal family, as well as 34 individuals from Cusco for comparative purposes. When the ancient DNA results are contextualized using historical and archaeological data, we conclude that the retainer population at Machu Picchu was highly heterogeneous with individuals exhibiting genetic ancestries associated with groups from throughout the Inca Empire and Amazonia. The results suggest a diverse retainer community at Machu Picchu in which people of different genetic backgrounds lived, reproduced, and were interred together.
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Affiliation(s)
- Lucy Salazar
- Department of Anthropology, Yale University, New Haven, CT 06511-3707, USA
- Department of Archaeology, Universidad Nacional de San Antonio Abad del Cusco, Cusco 08006, Peru
| | - Richard Burger
- Department of Anthropology, Yale University, New Haven, CT 06511-3707, USA
| | - Janine Forst
- UCSC Paleogenomics Lab, Department of Anthropology, University of California Santa Cruz, Santa Cruz, CA 95064, USA
| | - Rodrigo Barquera
- Department of Archaeogenetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, 04103, Germany
| | - Jason Nesbitt
- Department of Anthropology, Tulane University, New Orleans, LA 70118, USA
| | - Jorge Calero
- Department of Archaeology, Universidad Nacional de San Antonio Abad del Cusco, Cusco 08006, Peru
| | - Eden Washburn
- UCSC Paleogenomics Lab, Department of Anthropology, University of California Santa Cruz, Santa Cruz, CA 95064, USA
| | - John Verano
- Department of Anthropology, Tulane University, New Orleans, LA 70118, USA
| | - Kimberly Zhu
- Department of Anthropology, University of California, Los Angeles, Los Angeles, CA 90095, USA
| | - Korey Sop
- UCSC Paleogenomics Lab, Department of Anthropology, University of California Santa Cruz, Santa Cruz, CA 95064, USA
| | - Kalina Kassadjikova
- UCSC Paleogenomics Lab, Department of Anthropology, University of California Santa Cruz, Santa Cruz, CA 95064, USA
| | - Bebel Ibarra Asencios
- Department of Anthropology, Tulane University, New Orleans, LA 70118, USA
- Department of Archaeology, Universidad Nacional Santiago Antúnez de Mayolo, Huaraz 02002, Peru
| | - Roberta Davidson
- Australian Centre for Ancient DNA, School of Biological Sciences and The Environment Institute, Adelaide University, Adelaide, SA 5005, Australia
| | - Brenda Bradley
- Department of Anthropology, Center for the Advanced Study of Human Paleobiology, The George Washington University, Washington, DC 20052, USA
| | - Johannes Krause
- Department of Archaeogenetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, 04103, Germany
| | - Lars Fehren-Schmitz
- UCSC Paleogenomics Lab, Department of Anthropology, University of California Santa Cruz, Santa Cruz, CA 95064, USA
- UCSC Genomics Institute, University of California, Santa Cruz, Santa Cruz, CA 95060, USA
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Gigante M, Mazzariol A, Bonetto J, Armaroli E, Cipriani A, Lugli F. Machine learning-based Sr isoscape of southern Sardinia: A tool for bio-geographic studies at the Phoenician-Punic site of Nora. PLoS One 2023; 18:e0287787. [PMID: 37467179 DOI: 10.1371/journal.pone.0287787] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2023] [Accepted: 06/13/2023] [Indexed: 07/21/2023] Open
Abstract
Since prehistoric times, the island of Sardinia-in the western Mediterranean-has played a leading role in the dynamics of human population and mobility, in the circulation of raw materials and artefacts, idioms and customs, of technologies and ideas that have enriched the biological, linguistic and cultural heritage of local groups. For the Phoenician and Punic periods (from the 9th to the 3rd centuries BCE), the ancient site of Nora-in southern Sardinia-represents an emblematic case in the study of migratory phenomena that occurred on the Island from the Iron Age until the Roman conquest. Despite the importance of exploring (and characterising) such movements from a wider bio-cultural perspective, the application of bio-geochemical tools for geographical provenance to the ancient skeletal populations of Sardinia is yet scarce. The present work is the first step towards filling this gap with the development of the first isoscape of southern Sardinia using new bioavailable Sr isotope data and a machine-learning approach. From a geolithological point of view, Sardinia is rather heterogeneous and requires detailed studies to correctly assess the distribution of the isotopic signature of bioavailable Sr. The random forest model employed here to construct the Sr isoscape uses several external environmental and geological variables. The most important predictors are related to age and bedrock type, with additional input from local soil properties. A 10-fold cross-validation gives a mean square error of 0.0008 and an R-squared of 0.81, so the model correctly predicts the 87Sr/86Sr ratio of unknown areas. By using a Bayesian provenance assignment workflow, we tested the isoscape here produced to determine the geographic origin and the mobility of archaeological and modern fauna collected from the Phoenician-Punic site of Nora and the surrounding Pula Plain. Our results indicate that archaeological sheep and goats (87Sr/86Sr < 0.7090) are compatible with areas close to Nora and Pula Plain, in agreement with archaeological evidence of pastoralism in those areas. Modern wild and domesticated fauna (87Sr/86Sr > 0.7090) show compatibility with several natural and anthropogenic locations in southern Sardinia, as expected based on modern species distribution data. Finally, we discuss the large Sr isotopic variability of the Nora baseline, where human mobility studies of human cremated and inhumed individuals are currently underway.
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Affiliation(s)
- Melania Gigante
- Department of Cultural Heritage, University of Padua, Padua, Italy
| | | | - Jacopo Bonetto
- Department of Cultural Heritage, University of Padua, Padua, Italy
| | - Elena Armaroli
- Department of Chemical and Geological Science, University of Modena & Reggio Emilia, Modena, Italy
| | - Anna Cipriani
- Department of Chemical and Geological Science, University of Modena & Reggio Emilia, Modena, Italy
- Lamont-Doherty Earth Observatory of Columbia University, Palisades, New York, United States of America
| | - Federico Lugli
- Department of Chemical and Geological Science, University of Modena & Reggio Emilia, Modena, Italy
- Department of Cultural Heritage, University of Bologna, Ravenna, Italy
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