Dryad
Published April 13, 2016 | Version v1
Dataset Open

Data from: Lake sediment multi-taxon DNA from North Greenland records early post-glacial appearance of vascular plants and accurately tracks environmental changes

Creators

  • 1. University of Oslo
  • 2. Aarhus University
  • 3. Natural History Museum
  • 4. Russian Academy of Sciences
  • 5. Norwegian University of Science and Technology

Description

High Arctic environments are particularly sensitive to climate changes, but retrieval of paleoecological data is challenging due to low productivity and biomass. At the same time, Arctic soils and sediments have proven exceptional for long-term DNA preservation due to their constantly low temperatures. Lake sediments contain DNA paleorecords of the surrounding ecosystems and can be used to retrieve a variety of organismal groups from a single sample. In this study, we analyzed vascular plant, bryophyte, algal (in particular diatom) and copepod DNA retrieved from a sediment core spanning the Holocene, taken from Bliss Lake on the northernmost coast of Greenland. A previous multi-proxy study including microscopic diatom analyses showed that this lake experienced changes between marine and lacustrine conditions. We inferred the same environmental changes from algal DNA preserved in the sediment core. Our DNA record was stratigraphically coherent, with no indication of leaching between layers, and our cross-taxon comparisons were in accordance with previously inferred local ecosystem changes. Authentic ancient plant DNA was retrieved from nearly all layers, both from the marine and the limnic phases, and distinct temporal changes in plant presence were recovered. The plant DNA was mostly in agreement with expected vegetation history, but very early occurrences of vascular plants, including the woody Empetrum nigrum, document terrestrial vegetation very shortly after glacial retreat. Our study shows that multi-taxon metabarcoding of sedimentary ancient DNA from lake cores is a valuable tool both for terrestrial and aquatic paleoecology, even in low-productivity ecosystems such as the High Arctic.

Notes

Bliss_bryo_arcticborealbryo.tag
The unique P6 loop trnL sequences produced by amplification of DNA with the primers bryo_P6F_1* & bryo_P6R as detailed in the associated publication. The data was recovered from DNA preserved in a sediment core spanning the Holocene from Bliss Lake, Peary Land, North Greenland. Taxonomic identification of sequences was inferred using a compilation of quality-checked and curated reference libraries for arctic and boreal species constructed at the Natural History Museum in Oslo (arctic vascular plants: Sønstebø et al. 2010; boreal vascular plants: Willerslev et al. 2014; bryophytes: Soininen et al. 2015). Further details can be found in the ReadMe file.
Bliss_bryo_embl113.tag
The unique P6 loop trnL sequences produced by amplification of DNA with the primers bryo_P6F_1* & bryo_P6R as detailed in the associated publication. The data was recovered from DNA preserved in a sediment core spanning the Holocene from Bliss Lake, Peary Land, North Greenland. Taxonomic identification of sequences was inferred using a reference library formatted from the EMBL Nucleotide Database standard release 113 by extracting sequences of the targeted region using ecoPCR (Ficetola et al. 2010). Further details can be found in the ReadMe file.
Bliss_vp1_arcticborealbryo.tag
The unique P6 loop trnL sequences produced by amplification of DNA with the primers trnL_g and trnL_h as detailed in the associated publication. The data was recovered from DNA preserved in a sediment core spanning the Holocene from Bliss Lake, Peary Land, North Greenland. These sequences were recovered in the first round of amplification and sequencing of vascular plant DNA, as detailed in the associated publication (vascular plant dataset 1, "vp1"). Taxonomic identification of sequences was inferred using a compilation of quality-checked and curated reference libraries for arctic and boreal species constructed at the Natural History Museum in Oslo (arctic vascular plants: Sønstebø et al. 2010; boreal vascular plants: Willerslev et al. 2014; bryophytes: Soininen et al. 2015). Further details can be found in the ReadMe file.
Bliss_vp1_embl113.tag
The unique P6 loop trnL sequences produced by amplification of DNA with the primers trnL_g and trnL_h preserved in a sediment core spanning the Holocene from Bliss Lake, Peary Land, North Greenland. The data was recovered from DNA preserved in a sediment core spanning the Holocene from Bliss Lake, Peary Land, North Greenland. These sequences were recovered in the first round of amplification and sequencing of vascular plant DNA, as detailed in the associated publication (vascular plant dataset 1, "vp1"). Taxonomic identification of sequences was inferred using a reference library formatted from the EMBL Nucleotide Database standard release 113 by extracting sequences of the targeted region using ecoPCR (Ficetola et al. 2010). Further details can be found in the ReadMe file.
Bliss_vp2_arcticborealbryo.tag
The unique P6 loop trnL sequences produced by amplification of DNA with the primers trnL_g and trnL_h as detailed in the associated publication. The data was recovered from DNA preserved in a sediment core spanning the Holocene from Bliss Lake, Peary Land, North Greenland. These sequences were recovered in the second round of amplification and sequencing of vascular plant DNA, as detailed in the associated publication (vascular plant dataset 2, "vp2"). Taxonomic identification of sequences was inferred using a compilation of quality-checked and curated reference libraries for arctic and boreal species constructed at the Natural History Museum in Oslo (arctic vascular plants: Sønstebø et al. 2010; boreal vascular plants: Willerslev et al. 2014; bryophytes: Soininen et al. 2015). Further details can be found in the ReadMe file.
Bliss_vp2_embl113.tag
The unique P6 loop trnL sequences produced by amplification of DNA with the primers trnL_g and trnL_h preserved in a sediment core spanning the Holocene from Bliss Lake, Peary Land, North Greenland. The data was recovered from DNA preserved in a sediment core spanning the Holocene from Bliss Lake, Peary Land, North Greenland. These sequences were recovered in the second round of amplification and sequencing of vascular plant DNA, as detailed in the associated publication (vascular plant dataset 2, "vp2"). Taxonomic identification of sequences was inferred using a reference library formatted from the EMBL Nucleotide Database standard release 113 by extracting sequences of the targeted region using ecoPCR (Ficetola et al. 2010). Further details can be found in the ReadMe file.
Bliss_diat_embl113.tag
The unique rbcL sequences produced by amplification of DNA with the primers rbcL_705f & rbcl_808r as detailed in the associated publication. The data was recovered from DNA preserved in a sediment core spanning the Holocene from Bliss Lake, Peary Land, North Greenland. Taxonomic identification of sequences was inferred using a reference library formatted from the EMBL Nucleotide Database standard release 113 by extracting sequences of the targeted region using ecoPCR (Ficetola et al. 2010). Further details can be found in the ReadMe file.
Bliss_cop_embl113.tag
The unique sequences produced by amplification of DNA with the primers CopF2 & CopR1 as detailed in the associated publication. The data was recovered from DNA preserved in a sediment core spanning the Holocene from Bliss Lake, Peary Land, North Greenland. Taxonomic identification of sequences was inferred using a reference library formatted from the EMBL Nucleotide Database standard release 113 by extracting sequences of the targeted region using ecoPCR (Ficetola et al. 2010). Further details can be found in the ReadMe file.

Files

README_for_Bliss_bryo_arcticborealbryo.tag.fasta.txt

Files (572.5 kB)

Name Size Download all
md5:3cf8fa2ec91a384a4a840eb91617d42c
16.3 kB Download
md5:0d7d94132ec7e6e0a9ffcff91a1cdfc4
15.6 kB Download
md5:76438a710928e30104014b6bc3ac3140
8.1 kB Download
md5:823f83c55cdc6902ffca75862ae48691
153.3 kB Download
md5:aac046f1f87341fd17044c7653bf4450
94.6 kB Download
md5:2693a8f6ee7fc4f790e079f06a0e45b8
94.7 kB Download
md5:6ce19ad1fdfce52d8c76302c03fe2c72
80.0 kB Download
md5:9ee4503e3b919f2bc5ba2f97e89159be
78.7 kB Download
md5:153048a4bc29ec1d9f1b9d89c36bb15f
3.9 kB Preview Download
md5:153048a4bc29ec1d9f1b9d89c36bb15f
3.9 kB Preview Download
md5:153048a4bc29ec1d9f1b9d89c36bb15f
3.9 kB Preview Download
md5:153048a4bc29ec1d9f1b9d89c36bb15f
3.9 kB Preview Download
md5:153048a4bc29ec1d9f1b9d89c36bb15f
3.9 kB Preview Download
md5:153048a4bc29ec1d9f1b9d89c36bb15f
3.9 kB Preview Download
md5:153048a4bc29ec1d9f1b9d89c36bb15f
3.9 kB Preview Download
md5:153048a4bc29ec1d9f1b9d89c36bb15f
3.9 kB Preview Download

Additional details

Related works

Is cited by
10.1016/j.quascirev.2015.03.027 (DOI)