• Je něco špatně v tomto záznamu ?

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

B. Lendvay, M. Hartmann, S. Brodbeck, D. Nievergelt, F. Reinig, S. Zoller, L. Parducci, F. Gugerli, U. Büntgen, C. Sperisen,

. 2018 ; 217 (4) : 1737-1748. [pub] 20171215

Jazyk angličtina Země Anglie, Velká Británie

Typ dokumentu časopisecké články, práce podpořená grantem

Perzistentní odkaz   https://www.medvik.cz/link/bmc19035476

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.

Citace poskytuje Crossref.org

000      
00000naa a2200000 a 4500
001      
bmc19035476
003      
CZ-PrNML
005      
20191014121016.0
007      
ta
008      
191007s2018 enk f 000 0|eng||
009      
AR
024    7_
$a 10.1111/nph.14935 $2 doi
035    __
$a (PubMed)29243821
040    __
$a ABA008 $b cze $d ABA008 $e AACR2
041    0_
$a eng
044    __
$a enk
100    1_
$a Lendvay, Bertalan $u Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Zürcherstrasse 111, CH-8903, Birmensdorf, Switzerland.
245    10
$a Improved recovery of ancient DNA from subfossil wood - application to the world's oldest Late Glacial pine forest / $c B. Lendvay, M. Hartmann, S. Brodbeck, D. Nievergelt, F. Reinig, S. Zoller, L. Parducci, F. Gugerli, U. Büntgen, C. Sperisen,
520    9_
$a 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.
650    _2
$a DNA rostlinná $x genetika $x izolace a purifikace $7 D018744
650    _2
$a dekontaminace $7 D003666
650    12
$a lesy $7 D065928
650    12
$a zkameněliny $7 D005580
650    _2
$a smrk $x genetika $7 D028222
650    _2
$a borovice $x klasifikace $x genetika $7 D028223
650    _2
$a druhová specificita $7 D013045
650    _2
$a dřevo $x genetika $7 D014934
655    _2
$a časopisecké články $7 D016428
655    _2
$a práce podpořená grantem $7 D013485
700    1_
$a Hartmann, Martin $u Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Zürcherstrasse 111, CH-8903, Birmensdorf, Switzerland.
700    1_
$a Brodbeck, Sabine $u Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Zürcherstrasse 111, CH-8903, Birmensdorf, Switzerland.
700    1_
$a Nievergelt, Daniel $u Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Zürcherstrasse 111, CH-8903, Birmensdorf, Switzerland.
700    1_
$a Reinig, Frederick $u Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Zürcherstrasse 111, CH-8903, Birmensdorf, Switzerland.
700    1_
$a Zoller, Stefan $u Genetic Diversity Centre, ETH Zurich, Universitätstrasse 16, CH-8092, Zurich, Switzerland.
700    1_
$a Parducci, Laura $u Department of Ecology and Genetics, Evolutionary Biology Centre, Uppsala University, Norbyvägen 18D, 75236, Uppsala, Sweden.
700    1_
$a Gugerli, Felix $u Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Zürcherstrasse 111, CH-8903, Birmensdorf, Switzerland.
700    1_
$a Büntgen, Ulf $u Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Zürcherstrasse 111, CH-8903, Birmensdorf, Switzerland. Department of Geography, University of Cambridge, Downing Place, Cambridge, CB2 3EN, UK. Global Change Research Centre, Masaryk University, 613 00, Brno, Czech Republic.
700    1_
$a Sperisen, Christoph $u Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Zürcherstrasse 111, CH-8903, Birmensdorf, Switzerland.
773    0_
$w MED00007692 $t The New phytologist $x 1469-8137 $g Roč. 217, č. 4 (2018), s. 1737-1748
856    41
$u https://pubmed.ncbi.nlm.nih.gov/29243821 $y Pubmed
910    __
$a ABA008 $b sig $c sign $y a $z 0
990    __
$a 20191007 $b ABA008
991    __
$a 20191014121441 $b ABA008
999    __
$a ok $b bmc $g 1452136 $s 1074026
BAS    __
$a 3
BAS    __
$a PreBMC
BMC    __
$a 2018 $b 217 $c 4 $d 1737-1748 $e 20171215 $i 1469-8137 $m New phytologist $n New Phytol $x MED00007692
LZP    __
$a Pubmed-20191007

Najít záznam

Citační ukazatele

    Možnosti archivace