Antarctic polar desert surface soil microbiome
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, Sweetlove M (2019). Antarctic polar desert surface soil microbiome. SCAR - Microbial Antarctic Resource System. Metadata dataset https://doi.org/10.15468/pematf accessed via GBIF.org on 2024-12-15.Description
Whole-genome shotgun sequencing dataset targeting microbes in three soil samples from pristine polar desert at Robinson Ridge (eastern Antarctica)Sampling Description
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.Sampling
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.Method steps
- 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).
Taxonomic Coverages
whole genome shotgun sequencing
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Bacteriacommon name: Bacteria rank: domain
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Archaeacommon name: Archaea rank: domain
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Eukaryotacommon name: Eukaryotes rank: domain
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Viricommon name: viruses rank: domain
Geographic Coverages
Robinson Ridge, east Antarctica
Bibliographic Citations
- 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
Contacts
Mukan Jioriginator
Australian Centre for Astrobiology
Randwick
AU
Chris Greening
originator
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
Australian Centre for Astrobiology
Randwick
AU
Maxime Sweetlove
metadata author
position: Research assistent
Royal Belgian Institute of Natural Sciences
Rue Vautier 29
Brussels
1000
BE
email: msweetlove@naturalsciences.be
Mukan Ji
administrative point of contact
Australian Centre for Astrobiology
Randwick
AU
Chris Greening
administrative point of contact
Monash University
Clayton
AU
Belinda Ferrari
administrative point of contact
Australian Centre for Astrobiology
Randwick
AU