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Microorganisms (eukaryote and bacteria) in Antarctic cryoconite holes.
Citation
Sommers P, Darcy J, Gendrom E, Stanish L, Bagshaw E, Porazinska D, Schmidt S (2019): Microorganisms (eukaryote and bacteria) in Antarctic cryoconite holes.. v1.1. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=microbes_antarctic_cryoconite&v=1.1 https://doi.org/10.15468/xqzc8b

Access data
Archived data
Availability: Creative Commons License This dataset is licensed under a Creative Commons Attribution 4.0 International License.

Description
Amplicon sequencing dataset (Illumina MiSeq) of Eukaryotes (18S ssu rRNA) and Bacterial (16S ssu rRNA) microbes in Antarctic cryoconite holes. more

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.
Study Extent: Nineteen cryoconite holes on glaciers in Taylor Valley (McMurdo Dry Valleys, Antarctica) were sampled between 15 December 2007 and 4 January 2008.
Method step description:
  1. 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.

Scope
Keywords:
Terrestrial, Dna sequencing, Metadata, Antarctica, Bacteria

Geographical coverage
Antarctica Stations [Marine Regions]
Taylor Valley

Temporal coverage
15 December 2007 - 4 January 2008

Taxonomic coverage
Bacteria [WoRMS]

Parameter
Molecular data

Contributors
University of Colorado at Boulder, moredata creator
University of Hawaii; University of Hawaii at Manoa, moredata creator
National Ecological Observatory Network (NEON), moredata creator
Cardiff University, moredata creator

Related datasets
Published in:
AntOBIS: Antarctic Ocean Biodiversity Information System, more
(Partly) included in:
RAS: Register of Antarctic Species, more

Dataset status: Completed
Data type: Metadata
Data origin: Research: field survey
Metadatarecord created: 2019-04-05
Information last updated: 2019-04-10
All data in the Integrated Marine Information System (IMIS) is subject to the VLIZ privacy policy