Abstract:
Between December 2012 and March 2013, snow measurements were conducted in 3 snow pits at both Gourlay Snowfield and Tuva Glacier, Signy Island, to determine the bacterial diversity within the snowpacks. Sites are denoted 'TX' and 'GY', where 'X' and 'Y' are numbers representing one of nine snowpits in a grid at Tuva and Gourlay respectively. Snow samples of the 'top' layer were taken from the surface snow layer at a depth of 0 to 20 cm from the surface; snow samples of the middle 'mid' layer were taken from 20 cm to the bottom of the snow pit; and samples from the 'ice' layer were taken from the superimposed ice at the bottom of the snow pit. Snow and ice samples were collected from these pits and transported frozen to the UK for further analysis.
Funding was provided by the NERC grants NE/H014446/1 and NE/H014802/1.
Keywords:
Bacterial production, Glacier, Primary production, Sequencing, Signy Island, Snow, Superimposed ice
| Access Constraints: | Requests for data can be made via the UK Polar Data Centre (UK PDC) at BAS. |
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| Use Constraints: | This data is governed by the NERC data policy http://www.nerc.ac.uk/research/sites/data/policy/ and supplied under Open Government Licence v.3 http://www.nationalarchives.gov.uk/doc/open-government-licence/version/3/ |
| Creation Date: | 2017-05-08 |
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| Dataset Progress: | Complete |
| Dataset Language: | English |
| ISO Topic Categories: |
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| Parameters: |
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| Personnel: | |
| Name | UK PDC |
| Role(s) | Metadata Author |
| Organisation | British Antarctic Survey |
| Name | Dr Pete Convey |
| Role(s) | Investigator |
| Organisation | British Antarctic Survey |
| Name | Dr Marie Sabacka |
| Role(s) | Technical Contact |
| Organisation | University of Bristol |
| Name | Dr Andy Hodson |
| Role(s) | Investigator |
| Organisation | University of Sheffield |
| Name | Dr David Pearce |
| Role(s) | Investigator |
| Organisation | British Antarctic Survey |
| Parent Dataset: | N/A |
| Reference: | Publication in progress. | |
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| Lineage: | Melted snow and ice (500-1500 mL) was filtered onto 0.2µm Whatman® Nucleopore using a sterilized filtration unit. DNA was isolated from the filter using MoBio PowerWater® DNA isolation kit and following the instruction manuals. The highly variable V3/V4 region of the 16S rDNA was amplified with bacterial primers S-D-Bact-0341-b-S-17 forward and S-D-Bact-0785-a-A-21 reverse, with overhang illumina adaptor attached to the primer sequences, creating a single amplicon of ~460 bp (Klindworth et al., 2013). The reaction was carried out in 50 µl volumes containing 0.3 mg/ml Bovine Serum Albumin, 250 uM dNTPs, 0.5 uM of each primer, 0.02 U Phusion High-Fidelity DNA Polymerase (Finnzymes OY, Espoo, Finland) and 5x Phusion HF Buffer containing 1.5mM MgCl2. The following PCR conditions were used: initial denaturation at 95C for 5min, followed by 25 cycles consisting of denaturation (95oC for 40 s), annealing (55oC for 2 min) and extension (72oC for 1 min) and a final extension step at 72oC for 7 min. Samples were sequenced using illumina MiSeq platform at Liverpool Centre for Genomics Research and generated 2 x 300 bp overlapping pair-end reads. The 16S sequences were further processed using mothur (v. 1.35) pipeline (Schloss et al., 2009). Chimeric sequences were identified and removed using UCHIME (Edgar et al., 2011). Reads were clustered into operational taxonomical units (OTUs), based on at least 97% sequence similarity, and assigned taxonomical identification against SILVA bacterial database (Quast et al., 2013). |
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| Temporal Coverage: | |
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| Start Date | 2012-12-01 |
| End Date | 2013-03-31 |
| Spatial Coverage: | |
| Latitude | |
| Southernmost | -60.726 |
| Northernmost | -60.709 |
| Longitude | |
| Westernmost | -45.644 |
| Easternmost | -45.607 |
| Altitude | |
| Min Altitude | N/A |
| Max Altitude | N/A |
| Depth | |
| Min Depth | N/A |
| Max Depth | N/A |
| Location: | |
| Location | Antarctica |
| Detailed Location | Gourlay Snowfield and Tuva Glacier, Signy Island |
| Data Collection: | Instruments used include: PCR machine MiSeq illumina sequencer |
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| Data Storage: | Data is in Excel format and is approximately 1MB. |
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