http://ipt.biodiversity.aq/resource?r=microbes_antarctic_cryoconite
Microorganisms (eukaryote and bacteria) in Antarctic cryoconite holes.
Pacifica
Sommers
University of Colorado at Boulder
Boulder
US
John
Darcy
University of Hawaï at Manoa
Manoa
US
Eli
Gendrom
University of Colorado at Boulder
Boulder
US
Lee
Stanish
National Ecological Observatory Network
Boulder
US
Elizabeth
Bagshaw
Cardiff University
Cardiff
GB
Dorota
Porazinska
University of Colorado at Boulder
Boulder
US
Steven
Schmidt
University of Colorado at Boulder
Boulder
US
Maxime
Sweetlove
Royal Belgian Institute of Natural Sciences
Research assistent
Rue Vautier 29
Brussels
1000
msweetlove@naturalsciences.be
user
2019-02-05
eng
Amplicon sequencing dataset (Illumina MiSeq) of Eukaryotes (18S ssu rRNA) and Bacterial (16S ssu rRNA) microbes in Antarctic cryoconite holes.
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.
Cryoconite holes in Taylor Valley, Antarctica
162.967
162.967
-77.615
-77.615
2007
Bacteria (16S ssu rRNA gene)
domain
Bacteria
Bacteria
Eukaryotes (18S ssu rRNA gene)
domain
Eukaryota
Eukaryotes
unkown
Pacifica
Sommers
University of Colorado at Boulder
Boulder
US
All cryoconite samples were stored frozen at –70◦C to minimize DNA degradation. Between 25 April 2016 and 2 May 2016, the frozen cryoconite sediments were thawed at room temperature and 0.4 g was processed for DNA extraction from each technical replicate separately (47 total from 19 samples) using PowerSoil DNA Isolation Kits (MoBio Inc., Carlsbad, CA, USA), according to the manufacture’s protocol. Extracted genomic DNA was amplified in triplicate using 16S (515f-806r primers) and 18S (1391f-EukBr primers) SSU ribosomal gene markers. Amplified DNA was pooled and normalized to equimolar concentrations using SequalPrep Normalization Plate Kits (Invitrogen), and sequenced using the Illumina MiSeq V2 (2 × 250 bp chemistry) at the BioFrontiers Sequencing Core Facility at the University of Colorado at Boulder.
Nineteen cryoconite holes on glaciers in Taylor Valley (McMurdo Dry Valleys, Antarctica) were sampled between 15 December 2007 and 4 January 2008.
A core was collected from the center of each hole using a SIPRE corer. The core was removed and stored in a Ziploc bag that had been triple-rinsed with deionized water. For the samples in which meltwater was present at the time of sampling, the ice lid was removed with the SIPRE corer, and then a water sample was pumped out using a hand powered vacuum pump. A sample of sediment was removed and stored in a triple-rinsed Ziploc bag. On return to the eld laboratory, samples were stored at –20◦C until processing up to 30 days later. Samples were eventually allowed to melt out in the collection bags and water samples were drawn off using syringes, leaving the sediment behind.
Antarctic cryoconite 2007
Pacifica
Sommers
This work was funded by NSF Polar Programs Award 1443578 and by Duke University.
2019-02-05T11:36:31.829+01:00
dataset
Sommers P, Darcy J, Gendrom E, Stanish L, Bagshaw E, Porazinska D, Schmidt S (2019): Microorganisms (eukaryote and bacteria) in Antarctic cryoconite holes.. v1.0. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. http://ipt.biodiversity.aq/resource?r=microbes_antarctic_cryoconite&v=1.0
Sommers, P., Darcy, J. L., Gendron, E. M., Stanish, L. F., Bagshaw, E. A., Porazinska, D. L., & Schmidt, S. K. (2017). Diversity patterns of microbial eukaryotes mirror those of bacteria in Antarctic cryoconite holes. FEMS microbiology ecology, 94(1), fix167.