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The potential of sedimentary ancient DNA to reconstruct past ocean ecosystems

Citation

Armbrecht, LH, The potential of sedimentary ancient DNA to reconstruct past ocean ecosystems, Oceanography, 33, (2) pp. 116-123. ISSN 1042-8275 (2020) [Refereed Article]


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This is an open access article made available under the terms of the Creative Commons Attribution 4.0 International (CC BY 4.0) License https://creativecommons.org/licenses/by/4.0/)

DOI: doi:10.5670/oceanog.2020.211

Abstract

Sedimentary ancient DNA (sedaDNA) offers a novel approach to investigating past marine ecosystems—from the smallest bacteria to phytoplankton and their predators—over geological timescales. Knowledge about such paleo-food webs can provide broad-scale biological context to paleoceanographic and environmental reconstructions. However, the field of marine sedaDNA research is still in its infancy; community reconstructions are complicated by the minuscule amounts of ancient DNA preserved in the sediments. Consequently, the identification of most prokaryotes and eukaryotes in sedaDNA is difficult, and sedaDNA sampling, extraction, and analysis require optimized procedures and rigorous contamination control to ensure that the sedaDNA signal is authentic and not overridden by modern environmental DNA. This article describes some of the latest developments in marine sedaDNA research, including the use of metagenomics to study past marine food webs, and new experimental and computational techniques to maximize taxonomic resolution, particularly that of eukaryotes. An example of bioinformatic techniques designed to increase taxonomic insight is presented, demonstrating the breadth of paleogenetic signals that could be extracted from marine sediments. With ongoing improvements in genetic reference databases, sedaDNA extraction techniques, species-specific enrichment approaches, and computational tools, marine sedaDNA will continue to improve our understanding of how marine ecosystems evolved in concert with changing environmental conditions.

Item Details

Item Type:Refereed Article
Keywords:sedimentary ancient DNA, Antarctica, phytoplankton, eukaryotes, metagenomics, hybridisation capture, authenticity
Research Division:Biological Sciences
Research Group:Genetics
Research Field:Genomics
Objective Division:Environmental Management
Objective Group:Marine systems and management
Objective Field:Marine biodiversity
UTAS Author:Armbrecht, LH (Dr Linda Armbrecht)
ID Code:146461
Year Published:2020
Web of Science® Times Cited:4
Deposited By:Ecology and Biodiversity
Deposited On:2021-09-08
Last Modified:2021-10-26
Downloads:5 View Download Statistics

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