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Shotgun Environmental DNA, Pollen, and Macrofossil Analysis of Lateglacial Lake Sediments From Southern Sweden
Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Ecology and Genetics, Plant Ecology and Evolution.ORCID iD: 0000-0003-1956-4757
Univ Tromso, Arctic Univ Norway, Tromso Museum, Tromso, Norway.
Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular Evolution. Uppsala University, Science for Life Laboratory, SciLifeLab.
Univ Cambridge, Dept Zool, Cambridge, England.
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2019 (English)In: Frontiers in Ecology and Evolution, E-ISSN 2296-701X, Vol. 7, article id 189Article in journal (Refereed) Published
Abstract [en]

The lake sediments of Hasseldala Port in south-east Sweden provide an archive of local and regional environmental conditions similar to 14.5-9.5 ka BP (thousand years before present) and allow testing DNA sequencing techniques to reconstruct past vegetation changes. We combined shotgun sequencing with plant micro- and macrofossil analyses to investigate sediments dating to the Allerod (14.1-12.7 ka BP), Younger Dryas (12.7-11.7 ka BP), and Preboreal (<11.7 ka BP). Number of reads and taxa were not associated with sample age or organic content. This suggests that, beyond the initial rapid degradation, DNA is still present. The proportion of recovered plant DNA was low, but allowed identifying an important number of plant taxa, thus adding valid information on the composition of the local vegetation. Importantly, DNA provides a stronger signal of plant community changes than plant micro- and plant macrofossil analyses alone, since a larger number of new taxa were recorded in Younger Dryas samples. A comparison between the three proxies highlights differences and similarities and supports earlier findings that plants growing close to or within a lake are recorded by DNA. Plant macrofossil remains moreover show that tree birch was present close to the ancient lake since the Allerod; together with the DNA results, this indicates that boreal to subarctic climatic conditions also prevailed during the cold Younger Dryas interval. Increasing DNA reference libraries and enrichment strategies prior to sequencing are necessary to improve the potential and accuracy of plant identification using the shotgun metagenomic approach.

Place, publisher, year, edition, pages
Frontiers Media S.A., 2019. Vol. 7, article id 189
Keywords [en]
environmental DNA, ancient DNA, shotgun sequencing (metagenomics), pollen, macrofossils remains, lake sediments
National Category
Geosciences, Multidisciplinary
Identifiers
URN: urn:nbn:se:uu:diva-390682DOI: 10.3389/fevo.2019.00189ISI: 000472627800001OAI: oai:DiVA.org:uu-390682DiVA, id: diva2:1343052
Funder
Swedish Research Council, 2013-D0568401Swedish Research Council Formas, Dnr 2016-01236Knut and Alice Wallenberg FoundationCarl Tryggers foundation , 14:371The Research Council of Norway, 226134/F50Academy of Finland, 1278692Academy of Finland, 1310649Available from: 2019-08-15 Created: 2019-08-15 Last updated: 2019-08-15Bibliographically approved

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Parducci, LauraUnneberg, PerSalonen, J. Sakari
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