http://ipt.biodiversity.aq/resource?r=antarctic_pack_ice_bacterial_communities
Antarctic pack ice Bacterial (16S) communities
Eeva
Eronen-Rasimus
University of Helsink
Post doctoral researcher
Helsink
FI
Anne-Mari
Luhtanen
University of Helsink
Researcher
Helsink
FI
Janne-Markus
Rintala
University of Helsink
Adjunct professor
Helsink
FI
Bruno
Delille
Université de Liège
Research associate
Liège
BE
Gerhard
Dieckmann
Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research,
Senior scientist
Bremerhaven
DE
Antti
Karkman
University of Helsink
Post doctoral researcher
Helsink
FI
jean-louis
Tison
Université Libre de Bruxelles
Campus du Solbosch CP160/03, avenue F.D. Roosevelt 50
Brussels
1050
Jean-Louis.Tison@ulb.ac.be
Maxime
Sweetlove
Royal Belgian Istitute for Natural Sciences
Research assistent
Rue Vautier 29
Brussels
1000
msweetlove@naturalsciences.be
user
2018-12-17
eng
Amplicon sequencing dataset of Bacterial communities (16S ssu rRNA gene) in pack ice from the Southern Ocean, near Antarctica.
Metadata
GBIF Dataset Type Vocabulary: http://rs.gbif.org/vocabulary/gbif/dataset_type.xml
This work is licensed under a Creative Commons Attribution (CC-BY) 4.0 License.
Antarctica: Southern Ocean: Wedell Sea
-0.006
0.122
-61.526
-67.949
2013-06-21
2013-07-26
Bacteria 16S ssu rRNA marker gene, v1-v3
domain
Bacteria
Bacteria
unkown
Eeva
Eronen-Rasimus
University of Helsink
Post doctoral researcher
Helsink
FI
For the DNA extractions, approximately 500 ml of the melted sea-ice were filtered onto sterile 0.22-μm membrane filters (Ø 47 mm; Whatman GE Healthcare, Little Chalfont, Kent, UK) and frozen in liquid nitrogen and later transferred to –80 °C.
The bacterial community DNA was extracted from the filters with a PowerSoil DNA Isolation Kit (Mo Bio Laboratories Inc, Carlsbad, CA, USA), as described by Eronen-Rasimus et al. (2014), 6 months after the cruise. In addition to the samples, negative controls without the sample were extracted.
The 16S ribosomal RNA gene region from V1 to part of the V3 was amplified with a polymerase chain reaction, using the universal bacterial primers F8 and R492. A two-step polymerase chain reaction and Illumina MiSeq (Illumina Inc, San Diego, CA, USA) paired-end multiplex sequencing were performed at the Institute of Biotechnology, University of Helsinki, Finland.
The samples were collected from 10 pack-ice stations along the Weddell and Lazarev Seas during the Antarctic Winter Ecosystem Climate Study (AWECS, leg ANT-XXIX/6)-expedition aboard the R/V Polarstern during the austral winter in June–July 2013.
The ice cores were drilled with a trace-metal-clean (electropolished steel) ice auger, 14 cm in diameter. Two ice cores were collected and pooled at each station for the microbiological analyses. We emphasised careful sampling and subsequent sample processing to avoid contamination. The ice cores collected were cut with an ethanol-wiped handsaw into two to seven pieces, depending on the ice thickness (each horizon 10–30 cm), crushed and placed in sterile plastic containers at 4 °C over night in darkness after which the rest of the ice was quickly melted in a water bath with constant stirring. The melted samples were immediately filtered after becoming fully melted.
Antarctic pack ice Bacterial (16S) communities
Eeva
Eronen-Rasimus
The creation of this dataset was supported by the Walter and Andrée de Nottbeck Foundation, Academy of Finland and the Belgian Science Policy (Bigsouth project, SD/CA/05).
2018-12-17T11:23:58.046+01:00
dataset
Eronen-Rasimus E, Luhtanen A, Rintala J, Delille B, Dieckmann G, Karkman A, Tison J (2018): Antarctic pack ice Bacterial (16S) communities. v1.0. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. http://ipt.biodiversity.aq/resource?r=antarctic_pack_ice_bacterial_communities&v=1.0
Eronen-Rasimus, E., Luhtanen, A. M., Rintala, J. M., Delille, B., Dieckmann, G., Karkman, A., & Tison, J. L. (2017). An active bacterial community linked to high chl-a concentrations in Antarctic winter-pack ice and evidence for the development of an anaerobic sea-ice bacterial community. The ISME Journal, 11(10), 2345.