Increasing sustainability in palaeoproteomics by optimizing digestion times for large-scale archaeological bone analyses
Summary: Palaeoproteomic analysis of skeletal proteomes is used to provide taxonomic identifications for an increasing number of archaeological specimens. The success rate depends on a range of taphonomic factors and differences in the extraction protocols employed. By analyzing 12 archaeological bo...
| Main Authors: | , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2024-04-01
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| Series: | iScience |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2589004224006539 |
| _version_ | 1797249129266544640 |
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| author | Louise Le Meillour Virginie Sinet-Mathiot Ragnheiður Diljá Ásmundsdóttir Jakob Hansen Dorothea Mylopotamitaki Gaudry Troché Huan Xia Jorsua Herrera Bethencourt Karen Ruebens Geoff M. Smith Zandra Fagernäs Frido Welker |
| author_facet | Louise Le Meillour Virginie Sinet-Mathiot Ragnheiður Diljá Ásmundsdóttir Jakob Hansen Dorothea Mylopotamitaki Gaudry Troché Huan Xia Jorsua Herrera Bethencourt Karen Ruebens Geoff M. Smith Zandra Fagernäs Frido Welker |
| author_sort | Louise Le Meillour |
| collection | DOAJ |
| description | Summary: Palaeoproteomic analysis of skeletal proteomes is used to provide taxonomic identifications for an increasing number of archaeological specimens. The success rate depends on a range of taphonomic factors and differences in the extraction protocols employed. By analyzing 12 archaeological bone specimens from two archaeological sites, we demonstrate that reducing digestion duration from 18 to 3 hours has no measurable impact on the obtained taxonomic identifications. Peptide marker recovery, COL1 sequence coverage, or proteome complexity are also not significantly impacted. Although we observe minor differences in sequence coverage and glutamine deamidation, these are not consistent across our dataset. A 6-fold reduction in digestion time reduces electricity consumption, and therefore CO2 emission intensities. We furthermore demonstrate that working in 96-well plates further reduces electricity consumption by 60%, in comparison to individual microtubes. Reducing digestion time therefore has no impact on the taxonomic identifications, while reducing the environmental impact of palaeoproteomic projects. |
| first_indexed | 2024-04-24T20:25:34Z |
| format | Article |
| id | doaj.art-1c188764b39044689b840664d60c3d12 |
| institution | Directory Open Access Journal |
| issn | 2589-0042 |
| language | English |
| last_indexed | 2024-04-24T20:25:34Z |
| publishDate | 2024-04-01 |
| publisher | Elsevier |
| record_format | Article |
| series | iScience |
| spelling | doaj.art-1c188764b39044689b840664d60c3d122024-03-22T05:40:23ZengElsevieriScience2589-00422024-04-01274109432Increasing sustainability in palaeoproteomics by optimizing digestion times for large-scale archaeological bone analysesLouise Le Meillour0Virginie Sinet-Mathiot1Ragnheiður Diljá Ásmundsdóttir2Jakob Hansen3Dorothea Mylopotamitaki4Gaudry Troché5Huan Xia6Jorsua Herrera Bethencourt7Karen Ruebens8Geoff M. Smith9Zandra Fagernäs10Frido Welker11Globe Institute, University of Copenhagen, 1353 Copenhagen, DenmarkUniversity of Bordeaux, CNRS, Ministère de la Culture, PACEA, UMR 5199, 33615 Pessac, France; University of Bordeaux, CNRS, Bordeaux INP, CBMN, UMR 5248 and Bordeaux Proteome Platform, 33076 Bordeaux, FranceGlobe Institute, University of Copenhagen, 1353 Copenhagen, DenmarkGlobe Institute, University of Copenhagen, 1353 Copenhagen, Denmark; Departament de Prehistòria, Universitat Autònoma de Barcelona, 08193 Bellaterra, SpainChaire de Paléoanthropologie, CIRB, Collège de France, Université PSL, CNRS, INSERM, 75005 Paris, FranceGlobe Institute, University of Copenhagen, 1353 Copenhagen, DenmarkCollege of Earth and Environmental Sciences, Lanzhou University, Lanzhou 730000, ChinaGlobe Institute, University of Copenhagen, 1353 Copenhagen, DenmarkChaire de Paléoanthropologie, CIRB, Collège de France, Université PSL, CNRS, INSERM, 75005 Paris, FranceSchool of Anthropology and Conservation, University of Kent, CT2 7NRH Canterbury, UKGlobe Institute, University of Copenhagen, 1353 Copenhagen, DenmarkGlobe Institute, University of Copenhagen, 1353 Copenhagen, Denmark; Corresponding authorSummary: Palaeoproteomic analysis of skeletal proteomes is used to provide taxonomic identifications for an increasing number of archaeological specimens. The success rate depends on a range of taphonomic factors and differences in the extraction protocols employed. By analyzing 12 archaeological bone specimens from two archaeological sites, we demonstrate that reducing digestion duration from 18 to 3 hours has no measurable impact on the obtained taxonomic identifications. Peptide marker recovery, COL1 sequence coverage, or proteome complexity are also not significantly impacted. Although we observe minor differences in sequence coverage and glutamine deamidation, these are not consistent across our dataset. A 6-fold reduction in digestion time reduces electricity consumption, and therefore CO2 emission intensities. We furthermore demonstrate that working in 96-well plates further reduces electricity consumption by 60%, in comparison to individual microtubes. Reducing digestion time therefore has no impact on the taxonomic identifications, while reducing the environmental impact of palaeoproteomic projects.http://www.sciencedirect.com/science/article/pii/S2589004224006539ArchaeologyProteomics |
| spellingShingle | Louise Le Meillour Virginie Sinet-Mathiot Ragnheiður Diljá Ásmundsdóttir Jakob Hansen Dorothea Mylopotamitaki Gaudry Troché Huan Xia Jorsua Herrera Bethencourt Karen Ruebens Geoff M. Smith Zandra Fagernäs Frido Welker Increasing sustainability in palaeoproteomics by optimizing digestion times for large-scale archaeological bone analyses iScience Archaeology Proteomics |
| title | Increasing sustainability in palaeoproteomics by optimizing digestion times for large-scale archaeological bone analyses |
| title_full | Increasing sustainability in palaeoproteomics by optimizing digestion times for large-scale archaeological bone analyses |
| title_fullStr | Increasing sustainability in palaeoproteomics by optimizing digestion times for large-scale archaeological bone analyses |
| title_full_unstemmed | Increasing sustainability in palaeoproteomics by optimizing digestion times for large-scale archaeological bone analyses |
| title_short | Increasing sustainability in palaeoproteomics by optimizing digestion times for large-scale archaeological bone analyses |
| title_sort | increasing sustainability in palaeoproteomics by optimizing digestion times for large scale archaeological bone analyses |
| topic | Archaeology Proteomics |
| url | http://www.sciencedirect.com/science/article/pii/S2589004224006539 |
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