Antarctic polar desert surface soil microbiome
Latest version published by SCAR - Microbial Antarctic Resource System on Mar 28, 2019
Whole-genome shotgun sequencing dataset targeting microbes in three soil samples from pristine polar desert at Robinson Ridge (eastern Antarctica)
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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.
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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.
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Geographic Coverage
Robinson Ridge, east Antarctica
| Bounding Coordinates | South West [-66.37, 110.586], North East [-66.37, 110.586] |
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Taxonomic Coverage
whole genome shotgun sequencing
| Domain | Bacteria (Bacteria), Archaea (Archaea), Eukaryota (Eukaryotes), Viri (viruses) |
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Temporal Coverage
| Start Date | 2015-12-13 |
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Project Data
No Description available
| Title | Bioplatforms Australia |
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| 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. |
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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. |
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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).
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
Additional Metadata
| Alternative Identifiers | https://ipt.biodiversity.aq/resource?r=antarctic_desert_surface_soil_microbiome |
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