Antarctic polar desert surface soil microbiome

Mukan Ji1, Chris Greening2, Inka Vanwonterghem3, Carlo Carere4, Sean Bay2, Jason Steen5, Kate Montgomery1, Thomas Lines2, Josie van Dorst1, Ian Snape6, Matthew Stott4, Philip Hugenholtz5, Belinda Ferrari1, Maxime Sweetlove7

1 Australian Centre for Astrobiology, Randwick, Australia; 2 Monash University, Clayton, Australia; 3 University of Queensland, St Lucia, Australia; 4 Wairakei Research Centre, Wairakei, New Zealand; 5 University of Queensland, St. Lucia, Australia; 6 Australian Antarctic Division, Kingston, Australia; 7 Royal Belgian Institute of Natural Sciences, Rue Vautier 29, 1000, Brussels, Belgium

Corresponding author(s): Mukan JiChris GreeningInka VanwonterghemCarlo CarereSean BayJason SteenKate MontgomeryThomas LinesJosie van DorstIan SnapeMatthew StottPhilip HugenholtzBelinda Ferrari, Maxime Sweetlove (msweetlove@naturalsciences.be)

Received {date}; Revised {date}; Accepted {date}; Published {date}

Citation: Combination of authors, year of data paper publication (in parentheses), Title, Journal Name, Volume, Issue number (in parentheses), and doi of the data paper.

Resource Citation

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

Abstract

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

Keywords: Metadata

Project details

Project title: Bioplatforms Australia
Personnel: Mukan Ji
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.

Data published through GBIF: https://ipt.biodiversity.aq/resource?r=antarctic_desert_surface_soil_microbiome

Taxonomic coverage

General taxonomic coverage description: whole genome shotgun sequencing
Taxonomic ranks
Domain: Bacteria, Archaea, Eukaryota, Viri
Common names: Bacteria, Archaea, Eukaryotes, viruses

Spatial coverage

General spatial coverage: Robinson Ridge, east Antarctica
Coordinates: 66°22'10.2''S and 66°22'10.2''S Latitude; 110°35'8.16''E and 110°35'8.16''E Longitude 

Temporal coverage: December 13, 2015

Methods

Method step description: 
- . 	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).
- . 	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). 
Study extent description: 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. 
Sampling description: 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.

Metadata language: English
Date of metadata creation: 2019-03-28
Hierarchy level: Dataset

References
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