Predicting sample success for large-scale ancient DNA studies on marine mammals
| Autor: | Aikaterini Glykou, Peter Jordan, Marta Maria Ciucani, Anne Birgitte Gotfredsen, Xenia Keighley, Kerstin Lidén, Hans Ahlgren, Morten Tange Olsen, Paul Szpak, Lesley Howse, Fátima Sánchez Barreiro, Maiken Hemme Bro-Jørgensen |
|---|---|
| Přispěvatelé: | Arctic and Antarctic studies |
| Jazyk: | angličtina |
| Rok vydání: | 2021 |
| Předmět: |
0106 biological sciences
0301 basic medicine aDNA Aquatic Organisms seal Range (biology) walrus Sample (statistics) Context (language use) Biology 010603 evolutionary biology 01 natural sciences Genome 03 medical and health sciences zooarchaeology Genetics Animals Biologiska vetenskaper Resource Article 14. Life underwater DNA Ancient Historia och arkeologi Ecology Evolution Behavior and Systematics Zooarchaeology Arctic Regions History and Archaeology RESOURCE ARTICLES endogenous content Biological Sciences Molecular and Statistical Advances Caniformia 030104 developmental biology Ancient DNA Archaeology Sample size determination Evolutionary biology pinnipeds DNA damage Scale (map) sample age Biotechnology |
| Zdroj: | Keighley, X, Bro-Jørgensen, M H, Ahlgren, H, Szpak, P, Ciucani, M M, Sánchez Barreiro, F, Howse, L, Gotfredsen, A B, Glykou, A, Jordan, P, Lidén, K & Olsen, M T 2021, ' Predicting sample success for large-scale ancient DNA studies on marine mammals ', Molecular Ecology Resources, vol. 21, no. 4, pp. 1149-1166 . https://doi.org/10.1111/1755-0998.13331 Molecular Ecology Resources Molecular Ecology Resources, 21(4), 1149-1166. Wiley |
| ISSN: | 1471-8278 |
| DOI: | 10.1111/1755-0998.13331 |
| Popis: | In recent years, nonhuman ancient DNA studies have begun to focus on larger sample sizes and whole genomes, offering the potential to reveal exciting and hitherto unknown answers to ongoing biological and archaeological questions. However, one major limitation to such studies is the substantial financial and time investments still required during sample screening, due to uncertainty regarding successful sample selection. This study investigates the effect of a wide range of sample properties including latitude, sample age, skeletal element, collagen preservation, and context on endogenous content and DNA damage profiles for 317 ancient and historic pinniped samples collected from across the North Atlantic and surrounding regions. Using generalised linear and mixed‐effect models, we found that a range of factors affected DNA preservation within each of the species under consideration. The most important findings were that endogenous content varied significantly within species according to context, the type of skeletal element, the collagen content and collection year. There also appears to be an effect of the sample's geographic origin, with samples from the Arctic generally showing higher endogenous content and lower damage rates. Both latitude and sample age were found to have significant relationships with damage levels, but only for walrus samples. Sex, ontogenetic age and extraction material preparation were not found to have any significant relationship with DNA preservation. Overall, skeletal element and sample context were found to be the most influential factors and should therefore be considered when selecting samples for large‐scale ancient genome studies. |
| Databáze: | OpenAIRE |
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