Thorough assessment of DNA preservation from fossil bone and sediments excavated from a late Pleistocene–Holocene cave deposit on Kangaroo Island, South Australia

Haouchar, Dalal, Haile, James, McDowell, Matthew C., Murray, Daithi C., White, Nicole E., Allcock, Richard J.N., Phillips, Matthew J., Prideaux, Gavin J., & Bunce, Michael (2013) Thorough assessment of DNA preservation from fossil bone and sediments excavated from a late Pleistocene–Holocene cave deposit on Kangaroo Island, South Australia. Quaternary Science Reviews, 84(1), pp. 56-64.

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Abstract

Fossils and sediments preserved in caves are an excellent source of information for investigating impacts of past environmental changes on biodiversity. Until recently studies have relied on morphology-based palaeontological approaches, but recent advances in molecular analytical methods offer excellent potential for extracting a greater array of biological information from these sites. This study presents a thorough assessment of DNA preservation from late Pleistocene–Holocene vertebrate fossils and sediments from Kelly Hill Cave Kangaroo Island, South Australia. Using a combination of extraction techniques and sequencing technologies, ancient DNA was characterised from over 70 bones and 20 sediment samples from 15 stratigraphic layers ranging in age from >20 ka to ∼6.8 ka. A combination of primers targeting marsupial and placental mammals, reptiles and two universal plant primers were used to reveal genetic biodiversity for comparison with the mainland and with the morphological fossil record for Kelly Hill Cave. We demonstrate that Kelly Hill Cave has excellent long-term DNA preservation, back to at least 20 ka. This contrasts with the majority of Australian cave sites thus far explored for ancient DNA preservation, and highlights the great promise Kangaroo Island caves hold for yielding the hitherto-elusive DNA of extinct Australian Pleistocene species.

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11 citations in Scopus
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9 citations in Web of Science®

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ID Code: 65260
Item Type: Journal Article
Refereed: Yes
Additional URLs:
Keywords: Pleistocene-Holocene, Quaternary, Fossils, Ancient DNA, Biodiversity
DOI: 10.1016/j.quascirev.2013.11.007
ISSN: 0277-3791
Subjects: Australian and New Zealand Standard Research Classification > EARTH SCIENCES (040000) > GEOLOGY (040300) > Palaeontology (incl. Palynology) (040308)
Australian and New Zealand Standard Research Classification > BIOLOGICAL SCIENCES (060000) > EVOLUTIONARY BIOLOGY (060300) > Animal Systematics and Taxonomy (060301)
Australian and New Zealand Standard Research Classification > BIOLOGICAL SCIENCES (060000) > EVOLUTIONARY BIOLOGY (060300) > Speciation and Extinction (060311)
Divisions: Current > Schools > School of Earth, Environmental & Biological Sciences
Current > Institutes > Institute for Future Environments
Current > QUT Faculties and Divisions > Science & Engineering Faculty
Deposited On: 11 Dec 2013 00:18
Last Modified: 14 May 2014 04:12

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