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

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216224%3A14310%2F18%3A00113403" target="_blank" >RIV/00216224:14310/18:00113403 - isvavai.cz</a>

Alternative codes found

RIV/86652079:_____/18:00496066

Result on the web

<a href="https://nph.onlinelibrary.wiley.com/doi/full/10.1111/nph.14935" target="_blank" >https://nph.onlinelibrary.wiley.com/doi/full/10.1111/nph.14935</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1111/nph.14935" target="_blank" >10.1111/nph.14935</a>

Result language

angličtina

Original language name

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

Original language description

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. 13000yr 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.

Czech name

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Czech description

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Type

J_imp - Article in a specialist periodical, which is included in the Web of Science database

CEP classification

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OECD FORD branch

10511 - Environmental sciences (social aspects to be 5.7)

Project

—

Continuities

I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Publication year

2018

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Name of the periodical

New Phytologist

ISSN

0028-646X

e-ISSN

—

Volume of the periodical

217

Issue of the periodical within the volume

4

Country of publishing house

US - UNITED STATES

Number of pages

12

Pages from-to

1737-1748

UT code for WoS article

000424284400030

EID of the result in the Scopus database

2-s2.0-85041595596