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Antarctic polar desert surface soil microbiome

Latest version published by SCAR - Microbial Antarctic Resource System on Mar 28, 2019 SCAR - Microbial Antarctic Resource System

Whole-genome shotgun sequencing dataset targeting microbes in three soil samples from pristine polar desert at Robinson Ridge (eastern Antarctica)

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How to cite

Researchers should cite this work as follows:

Ji M, Greening C, Vanwonterghem I, Carere C, Bay S, Steen J, Montgomery K, Lines T, van Dorst J, Snape I, Stott M, Hugenholtz P, Ferrari B (2019): Antarctic polar desert surface soil microbiome. v1.0. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=antarctic_desert_surface_soil_microbiome&v=1.0

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The publisher and rights holder of this work is SCAR - Microbial Antarctic Resource System. This work is licensed under a Creative Commons Attribution (CC-BY) 4.0 License.

GBIF Registration

This resource has been registered with GBIF, and assigned the following GBIF UUID: ef36ddd4-b37c-4467-9ad4-eb77d679959b.  SCAR - Microbial Antarctic Resource System publishes this resource, and is itself registered in GBIF as a data publisher endorsed by Scientific Committee on Antarctic Research.

Keywords

Metadata

Contacts

Who created the resource:

Mukan Ji
Australian Centre for Astrobiology Randwick AU
Chris Greening
Monash University Clayton AU
Inka Vanwonterghem
University of Queensland St Lucia AU
Carlo Carere
Wairakei Research Centre Wairakei NZ
Sean Bay
Monash University Clayton AU
Jason Steen
University of Queensland St. Lucia AU
Kate Montgomery
Australian Centre for Astrobiology Randwick AU
Thomas Lines
Monash University Clayton AU
Josie van Dorst
Australian Centre for Astrobiology Randwick AU
Ian Snape
Australian Antarctic Division Kingston AU
Matthew Stott
Wairakei Research Centre Wairakei NZ
Philip Hugenholtz
University of Queensland St. Lucia AU
Belinda Ferrari
Australian Centre for Astrobiology Randwick AU

Who can answer questions about the resource:

Mukan Ji
Australian Centre for Astrobiology Randwick AU
Chris Greening
Monash University Clayton AU
Belinda Ferrari
Australian Centre for Astrobiology Randwick AU

Who filled in the metadata:

Maxime Sweetlove
Research assistent
Royal Belgian Institute of Natural Sciences Rue Vautier 29 1000 Brussels BE

Who else was associated with the resource:

User

Geographic Coverage

Robinson Ridge, east Antarctica

Bounding Coordinates South West [-66.37, 110.586], North East [-66.37, 110.586]

Taxonomic Coverage

whole genome shotgun sequencing

Domain  Bacteria (Bacteria),  Archaea (Archaea),  Eukaryota (Eukaryotes),  Viri (viruses)

Temporal Coverage

Start Date 2015-12-13

Project Data

No Description available

Title Bioplatforms Australia
Funding This work was supported by Bioplatforms Australia, an Australian Antarctic Science project grant (4406), an ARC Future Fellowship (FT170100341), an ARC DECRA Fellowship (DE170100310), an ARC DORA and Laureate Fellowship (DP120103498 and FL150100038), and a Marsden Grant (16-GNS-035). UNSW Sydney, the Centre for Geometric Biology (Monash University), and the Geothermal Resources of New Zealand research program (GNS Science) also provided funding to support this research.

The personnel involved in the project:

Mukan Ji

Sampling Methods

Samples were collected along a spatially explicit sampling design comprised of three 300-m-long transects, separated by 2-m distances from each other. Samples were sieved down to 63 μm, aliquoted into 5–25-g subsamples, and stored at −80 °C until analysis.

Study Extent samples were taken at the ice free Robinson Ridge (−66.367739, 110.585262), located 10 km south of Casey station in the Windmill Islands coast of Wilkes Land, is part of a pristine polar desert. Three surface soil samples (100 g) from the top 10 cm of the soil profile were collected in December 2005.

Method step description:

  1. Total community DNA was extracted from 0.25–0.3 g of each sample in technical triplicate using the FastDNA SPIN Kit for Soil (MP Biomedicals). All DNA extracts were quantified and DNA lysate quality was evaluated using automated ribosomal intergenic spacer analysis (ARISA).
  2. Metagenome libraries were prepared using the Nextera DNA Library Preparation Kit (Illumina) and sequenced using three-fifths of an Illumina HiSeq2000 flowcell lane at the Institute for Molecular Biosciences (University of Queensland).

Bibliographic Citations

  1. Ji, M., Greening, C., Vanwonterghem, I., Carere, C. R., Bay, S. K., Steen, J. A., ... & Snape, I. (2017). Atmospheric trace gases support primary production in Antarctic desert surface soil. Nature, 552(7685), 400. https://doi.org/10.1038/nature25014