Using next-generation sequencing for molecular reconstruction of past Arctic vegetation and climate
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Using next-generation sequencing for molecular reconstruction of past Arctic vegetation and climate. / Sønstebø, J. H.; Gielly, L.; Brysting, A. K.; Elven, R.; Edwards, M.; Haile, James Seymour; Willerslev, Eske; Coissac, E.; Rioux, D.; Sannier, J.; Taberlet, P.; Brochmann, C.
In: Molecular Ecology Resources, Vol. 10, No. 6, 11.2010, p. 1009-1018.Research output: Contribution to journal › Journal article › Research › peer-review
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TY - JOUR
T1 - Using next-generation sequencing for molecular reconstruction of past Arctic vegetation and climate
AU - Sønstebø, J. H.
AU - Gielly, L.
AU - Brysting, A. K.
AU - Elven, R.
AU - Edwards, M.
AU - Haile, James Seymour
AU - Willerslev, Eske
AU - Coissac, E.
AU - Rioux, D.
AU - Sannier, J.
AU - Taberlet, P.
AU - Brochmann, C.
N1 - © 2010 Blackwell Publishing Ltd.
PY - 2010/11
Y1 - 2010/11
N2 - Palaeoenvironments and former climates are typically inferred from pollen and macrofossil records. This approach is time-consuming and suffers from low taxonomic resolution and biased taxon sampling. Here, we test an alternative DNA-based approach utilizing the P6 loop in the chloroplast trnL (UAA) intron; a short (13-158 bp) and variable region with highly conserved flanking sequences. For taxonomic reference, a whole trnL intron sequence database was constructed from recently collected material of 842 species, representing all widespread and/or ecologically important taxa of the species-poor arctic flora. The P6 loop alone allowed identification of all families, most genera (>75%) and one-third of the species, thus providing much higher taxonomic resolution than pollen records. The suitability of the P6 loop for analysis of samples containing degraded ancient DNA from a mixture of species is demonstrated by high-throughput parallel pyrosequencing of permafrost-preserved DNA and reconstruction of two plant communities from the last glacial period. Our approach opens new possibilities for DNA-based assessment of ancient as well as modern biodiversity of many groups of organisms using environmental samples.
AB - Palaeoenvironments and former climates are typically inferred from pollen and macrofossil records. This approach is time-consuming and suffers from low taxonomic resolution and biased taxon sampling. Here, we test an alternative DNA-based approach utilizing the P6 loop in the chloroplast trnL (UAA) intron; a short (13-158 bp) and variable region with highly conserved flanking sequences. For taxonomic reference, a whole trnL intron sequence database was constructed from recently collected material of 842 species, representing all widespread and/or ecologically important taxa of the species-poor arctic flora. The P6 loop alone allowed identification of all families, most genera (>75%) and one-third of the species, thus providing much higher taxonomic resolution than pollen records. The suitability of the P6 loop for analysis of samples containing degraded ancient DNA from a mixture of species is demonstrated by high-throughput parallel pyrosequencing of permafrost-preserved DNA and reconstruction of two plant communities from the last glacial period. Our approach opens new possibilities for DNA-based assessment of ancient as well as modern biodiversity of many groups of organisms using environmental samples.
U2 - 10.1111/j.1755-0998.2010.02855.x
DO - 10.1111/j.1755-0998.2010.02855.x
M3 - Journal article
C2 - 21565110
VL - 10
SP - 1009
EP - 1018
JO - Molecular Ecology
JF - Molecular Ecology
SN - 0962-1083
IS - 6
ER -
ID: 33950603