دورية أكاديمية
Microstratigraphic preservation of ancient faunal and hominin DNA in Pleistocene cave sediments.
| العنوان: | Microstratigraphic preservation of ancient faunal and hominin DNA in Pleistocene cave sediments. |
|---|---|
| المؤلفون: | Massilani D; Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, D-04103 Leipzig, Germany; paabo@eva.mpg.de diyendo_massilani@eva.mpg.de mmeyer@eva.mpg.de mike.morley@flinders.edu.au., Morley MW; Archaeology, College of Humanities, Arts and Social Sciences, Flinders University, Adelaide, South Australia 5042, Australia; paabo@eva.mpg.de diyendo_massilani@eva.mpg.de mmeyer@eva.mpg.de mike.morley@flinders.edu.au., Mentzer SM; Institute for Archaeological Sciences, Eberhard Karls University of Tübingen, Tübingen, 72074 Tübingen, Germany.; Senckenberg Centre for Human Evolution and Paleoenvironment, Universität Tübingen, Tübingen, 72070 Tübingen, Germany., Aldeias V; Interdisciplinary Center for Archaeology and Evolution of Human Behaviour, University of Algarve, 8005-139 Faro, Portugal., Vernot B; Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, D-04103 Leipzig, Germany., Miller C; Institute for Archaeological Sciences, Eberhard Karls University of Tübingen, Tübingen, 72074 Tübingen, Germany.; Senckenberg Centre for Human Evolution and Paleoenvironment, Universität Tübingen, Tübingen, 72070 Tübingen, Germany.; Sentre For Fremragende Forskning (SFF), Centre for Early Sapiens Behaviour, University of Bergen, Bergen, 5020 Bergen, Norway., Stahlschmidt M; Department of Human Evolution, Max Planck Institute for Evolutionary Anthropology, Leipzig, D-04103 Leipzig, Germany., Kozlikin MB; Institute of Archaeology and Ethnography, Russian Academy of Sciences, Siberian Branch, Novosibirsk 630090, Russia., Shunkov MV; Institute of Archaeology and Ethnography, Russian Academy of Sciences, Siberian Branch, Novosibirsk 630090, Russia., Derevianko AP; Institute of Archaeology and Ethnography, Russian Academy of Sciences, Siberian Branch, Novosibirsk 630090, Russia., Conard NJ; Institute for Archaeological Sciences, Eberhard Karls University of Tübingen, Tübingen, 72074 Tübingen, Germany.; Senckenberg Centre for Human Evolution and Paleoenvironment, Universität Tübingen, Tübingen, 72070 Tübingen, Germany., Wurz S; Sentre For Fremragende Forskning (SFF), Centre for Early Sapiens Behaviour, University of Bergen, Bergen, 5020 Bergen, Norway.; School of Geography, Archaeology and Environmental Studies and Evolutionary Studies Institute, University of the Witwatersrand, Johannesburg, Wits 2050, South Africa., Henshilwood CS; Sentre For Fremragende Forskning (SFF), Centre for Early Sapiens Behaviour, University of Bergen, Bergen, 5020 Bergen, Norway.; School of Geography, Archaeology and Environmental Studies and Evolutionary Studies Institute, University of the Witwatersrand, Johannesburg, Wits 2050, South Africa., Vasquez J; Center for Environmental Management of Military Lands, Colorado State University, Fort Collins, CO 80524., Essel E; Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, D-04103 Leipzig, Germany., Nagel S; Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, D-04103 Leipzig, Germany., Richter J; Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, D-04103 Leipzig, Germany., Nickel B; Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, D-04103 Leipzig, Germany., Roberts RG; Centre for Archaeological Science, School of Earth, Atmospheric and Life Sciences, University of Wollongong, Wollongong, New South Wales 2522, Australia.; Australian Research Council Centre of Excellence for Australian Biodiversity and Heritage, University of Wollongong, Wollongong, New South Wales 2522, Australia., Pääbo S; Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, D-04103 Leipzig, Germany; paabo@eva.mpg.de diyendo_massilani@eva.mpg.de mmeyer@eva.mpg.de mike.morley@flinders.edu.au., Slon V; Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, D-04103 Leipzig, Germany.; Department of Anatomy and Anthropology, Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv 6997801, Israel.; Department of Human Molecular Genetics and Biochemistry, Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv 6997801, Israel.; The Dan David Center for Human Evolution and Biohistory Research, Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv 6997801, Israel., Goldberg P; Senckenberg Centre for Human Evolution and Paleoenvironment, Universität Tübingen, Tübingen, 72070 Tübingen, Germany.; Centre for Archaeological Science, School of Earth, Atmospheric and Life Sciences, University of Wollongong, Wollongong, New South Wales 2522, Australia., Meyer M; Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, D-04103 Leipzig, Germany; paabo@eva.mpg.de diyendo_massilani@eva.mpg.de mmeyer@eva.mpg.de mike.morley@flinders.edu.au. |
| المصدر: | Proceedings of the National Academy of Sciences of the United States of America [Proc Natl Acad Sci U S A] 2022 Jan 04; Vol. 119 (1). |
| نوع المنشور: | Journal Article; Research Support, Non-U.S. Gov't |
| اللغة: | English |
| بيانات الدورية: | Publisher: National Academy of Sciences Country of Publication: United States NLM ID: 7505876 Publication Model: Print Cited Medium: Internet ISSN: 1091-6490 (Electronic) Linking ISSN: 00278424 NLM ISO Abbreviation: Proc Natl Acad Sci U S A Subsets: MEDLINE |
| أسماء مطبوعة: | Original Publication: Washington, DC : National Academy of Sciences |
| مواضيع طبية MeSH: | Caves* , DNA, Ancient* , Fossils*, Hominidae/*genetics , Neanderthals/*genetics, Animals |
| مستخلص: | Ancient DNA recovered from Pleistocene sediments represents a rich resource for the study of past hominin and environmental diversity. However, little is known about how DNA is preserved in sediments and the extent to which it may be translocated between archaeological strata. Here, we investigate DNA preservation in 47 blocks of resin-impregnated archaeological sediment collected over the last four decades for micromorphological analyses at 13 prehistoric sites in Europe, Asia, Africa, and North America and show that such blocks can preserve DNA of hominins and other mammals. Extensive microsampling of sediment blocks from Denisova Cave in the Altai Mountains reveals that the taxonomic composition of mammalian DNA differs drastically at the millimeter-scale and that DNA is concentrated in small particles, especially in fragments of bone and feces (coprolites), suggesting that these are substantial sources of DNA in sediments. Three microsamples taken in close proximity in one of the blocks yielded Neanderthal DNA from at least two male individuals closely related to Denisova 5 , a Neanderthal toe bone previously recovered from the same layer. Our work indicates that DNA can remain stably localized in sediments over time and provides a means of linking genetic information to the archaeological and ecological records on a microstratigraphic scale. Competing Interests: The authors declare no competing interest. (Copyright © 2021 the Author(s). Published by PNAS.) |
| References: | Proc Natl Acad Sci U S A. 2013 Sep 24;110(39):15758-63. (PMID: 24019490) Proc Natl Acad Sci U S A. 2009 Dec 29;106(52):22352-7. (PMID: 20018740) BMC Biol. 2018 Oct 25;16(1):121. (PMID: 30359256) Sci Rep. 2020 Nov 25;10(1):20574. (PMID: 33239666) Biotechniques. 2015 Aug 01;59(2):87-93. (PMID: 26260087) Mol Biol Evol. 2020 Apr 1;37(4):1237-1239. (PMID: 31904846) Proc Natl Acad Sci U S A. 2007 Sep 11;104(37):14616-21. (PMID: 17715061) J Mol Biol. 1990 Oct 5;215(3):403-10. (PMID: 2231712) Curr Biol. 2003 Sep 16;13(18):R693-5. (PMID: 13678604) Bioinformatics. 2009 Jul 15;25(14):1754-60. (PMID: 19451168) Mol Biol Evol. 2007 Apr;24(4):982-9. (PMID: 17255121) Curr Biol. 2021 Jun 21;31(12):2728-2736.e8. (PMID: 33878301) Sci Rep. 2019 Sep 26;9(1):13785. (PMID: 31558742) Environ Sci Technol. 1988 Oct;22(10):1234-7. (PMID: 22148621) Proc Natl Acad Sci U S A. 2016 Aug 16;113(33):9310-4. (PMID: 27482085) Nature. 2019 Jan;565(7741):640-644. (PMID: 30700871) Science. 2012 Oct 12;338(6104):222-6. (PMID: 22936568) Science. 2017 May 12;356(6338):605-608. (PMID: 28450384) Nature. 2016 Mar 24;531(7595):504-7. (PMID: 26976447) Philos Trans R Soc Lond B Biol Sci. 2015 Jan 19;370(1660):20130383. (PMID: 25487334) Sci Rep. 2016 Sep 12;6:32969. (PMID: 27615365) Nat Ecol Evol. 2022 Jan;6(1):28-35. (PMID: 34824388) Nature. 2014 Jan 2;505(7481):43-9. (PMID: 24352235) Proc Natl Acad Sci U S A. 2015 Dec 22;112(51):15696-700. (PMID: 26630009) PLoS One. 2012;7(3):e34131. (PMID: 22479540) PLoS One. 2010 Nov 16;5(11):e14004. (PMID: 21103372) Science. 2003 May 2;300(5620):791-5. (PMID: 12702808) Nature. 2019 Jan;565(7741):594-599. (PMID: 30700870) Nat Protoc. 2020 Aug;15(8):2279-2300. (PMID: 32612278) Genome Biol. 2014 Mar 03;15(3):R46. (PMID: 24580807) Electrophoresis. 2008 Apr;29(7):1467-72. (PMID: 18318449) Nucleic Acids Res. 2017 Jun 20;45(11):6310-6320. (PMID: 28486705) Science. 2021 May 7;372(6542):. (PMID: 33858989) Nature. 2021 Jul;595(7867):399-403. (PMID: 34163072) Nucleic Acids Res. 2014 Oct;42(18):e141. (PMID: 25100869) J Ultrastruct Res. 1969 Jan;26(1):31-43. (PMID: 4887011) Proc Natl Acad Sci U S A. 2013 Feb 5;110(6):2223-7. (PMID: 23341637) Nat Protoc. 2018 Nov;13(11):2447-2461. (PMID: 30323185) Nature. 2018 Mar 29;555(7698):652-656. (PMID: 29562232) Science. 1998 Jul 17;281(5375):402-6. (PMID: 9665881) Genome Res. 2007 Mar;17(3):377-86. (PMID: 17255551) Genome Res. 2017 Jul;27(7):1230-1237. (PMID: 28408382) Mol Ecol. 2012 Apr;21(8):1966-79. (PMID: 21917035) Science. 2020 Oct 30;370(6516):584-587. (PMID: 33122381) |
| فهرسة مساهمة: | Keywords: Denisova Cave; ancient DNA; sediment DNA; sediment curation; soil micromorphology |
| المشرفين على المادة: | 0 (DNA, Ancient) |
| تواريخ الأحداث: | Date Created: 20211231 Date Completed: 20220221 Latest Revision: 20220221 |
| رمز التحديث: | 20240628 |
| مُعرف محوري في PubMed: | PMC8740756 |
| DOI: | 10.1073/pnas.2113666118 |
| PMID: | 34969841 |
| قاعدة البيانات: | MEDLINE |
| تدمد: | 1091-6490 |
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| DOI: | 10.1073/pnas.2113666118 |