Improved recovery of ancient DNA from subfossil wood - application to the world's oldest Late Glacial pine forest

Improved recovery of ancient DNA from subfossil wood - application to the world's oldest Late Glacial pine forest

© 2017 The Authors. New Phytologist © 2017 New Phytologist Trust.

Bibliographische Detailangaben
Veröffentlicht in:The New phytologist. - 1979. - 217(2018), 4 vom: 15. März, Seite 1737-1748
1. Verfasser: Lendvay, Bertalan (VerfasserIn)
Weitere Verfasser: Hartmann, Martin, Brodbeck, Sabine, Nievergelt, Daniel, Reinig, Frederick, Zoller, Stefan, Parducci, Laura, Gugerli, Felix, Büntgen, Ulf, Sperisen, Christoph
Format: Online-Aufsatz
Sprache:English
Veröffentlicht: 2018
Zugriff auf das übergeordnete Werk:The New phytologist
Schlagworte:Journal Article Research Support, Non-U.S. Gov't DNA metabarcoding ancient DNA experimental contamination laser cleaning post-mortem DNA damage subfossil wood DNA, Plant
Beschreibung
Zusammenfassung:© 2017 The Authors. New Phytologist © 2017 New Phytologist Trust.
Ancient DNA from historical and subfossil wood has a great potential to provide new insights into the history of tree populations. However, its extraction and analysis have not become routine, mainly because contamination of the wood with modern plant material can complicate the verification of genetic information. Here, we used sapwood tissue from 22 subfossil pines that were growing c. 13 000 yr bp in Zurich, Switzerland. We developed and evaluated protocols to eliminate surface contamination, and we tested ancient DNA authenticity based on plastid DNA metabarcoding and the assessment of post-mortem DNA damage. A novel approach using laser irradiation coupled with bleaching and surface removal was most efficient in eliminating contaminating DNA. DNA metabarcoding confirmed which ancient DNA samples repeatedly amplified pine DNA and were free of exogenous plant taxa. Pine DNA sequences of these samples showed a high degree of cytosine to thymine mismatches, typical of post-mortem damage. Stringent decontamination of wood surfaces combined with DNA metabarcoding and assessment of post-mortem DNA damage allowed us to authenticate ancient DNA retrieved from the oldest Late Glacial pine forest. These techniques can be applied to any subfossil wood and are likely to improve the accessibility of relict wood for genome-scale ancient DNA studies
Beschreibung:Date Completed 13.09.2019
Date Revised 08.04.2022
published: Print-Electronic
Citation Status MEDLINE
ISSN:1469-8137
DOI:10.1111/nph.14935