Antarctic polar desert surface soil microbiome

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Latest version published by SCAR - Microbial Antarctic Resource System on Mar 28, 2019 SCAR - Microbial Antarctic Resource System
Publication date:
28 March 2019
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CC-BY 4.0

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Description

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

Versions

The table below shows only published versions of the resource that are publicly accessible.

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

Rights

Researchers should respect the following rights statement:

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

Mukan Ji
  • Originator ●
  • Point Of Contact
Australian Centre for Astrobiology
Randwick
AU
Chris Greening
  • Originator ●
  • Point Of Contact
Monash University
Clayton
AU
Inka Vanwonterghem
  • Originator
University of Queensland
St Lucia
AU
Carlo Carere
  • Originator
Wairakei Research Centre
Wairakei
NZ
Sean Bay
  • Originator
Monash University
Clayton
AU
Jason Steen
  • Originator
University of Queensland
St. Lucia
AU
Kate Montgomery
  • Originator
Australian Centre for Astrobiology
Randwick
AU
Thomas Lines
  • Originator
Monash University
Clayton
AU
Josie van Dorst
  • Originator
Australian Centre for Astrobiology
Randwick
AU
Ian Snape
  • Originator
Australian Antarctic Division
Kingston
AU
Matthew Stott
  • Originator
Wairakei Research Centre
Wairakei
NZ
Philip Hugenholtz
  • Originator
University of Queensland
St. Lucia
AU
Belinda Ferrari
  • Originator ●
  • Point Of Contact
Australian Centre for Astrobiology
Randwick
AU
Maxime Sweetlove
  • Metadata Provider
Research assistent
Royal Belgian Institute of Natural Sciences
Rue Vautier 29
1000 Brussels
BE

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