Description
Amplicon sequencing dataset (Illumina MiSeq 250bp PE) of soil bacteria (16S ssu rRNA gene, v3-v4) on King George Island and Deception Island (Antarctica)
Versions
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How to cite
Researchers should cite this work as follows:
Chua C, Yong S, Gonzalez M, Lavin P, Cheah Y, Tan G, Wong C (2019): V3-V4 16S rDNA of soil bacteria in King George Island and Deception Island. v1.1. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=soil_bacteria_king_george_island_and_deception_island&v=1.1
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: fca3f5da-a6ae-464d-a488-38439546056d. 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
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Geographic Coverage
King George Island and Deception Island, Antarctica
| Bounding Coordinates | South West [-62.99, -60.68], North East [-62.19, -58.94] |
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Taxonomic Coverage
Bacteria, 16S ssu rRNA gene, v3-v4 region
| Domain | Bacteria (Bacteria) |
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Project Data
No Description available
| Title | V3-V4 16S rDNA of soil bacteria in King George Island and Deception Island |
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| Funding | his work was supported by the Ministry of Science, Technology and Innovation (MOSTI), Malaysia under the Flagship project FP0712E012. |
The personnel involved in the project:
Sampling Methods
Samples were stored at –20°C immediately after sampling.
| Study Extent | Soil samples were collected from King George Island (S62°11′35.3′′; W58°56′6.2′′) and Deception Island (S62°59′023′′; W60°40′51.7′′), Antarctica in February 2007. |
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Method step description:
- Total bacterial genomic DNA was extracted from soils using the method described in Zhou et al. (1996) DNA recovery from soils of diverse composition. Appl. Environ. Microbiol., 62(2), 316–322.
- The concentration and purity of the extracted genomic DNA were measured using the NanoDropTM 2000 spectrophotometer (Thermo Scientific Inc., Waltham, MA, USA).
- The V3–V4 region of the bacterial 16S rRNA gene was amplified using locus-specific primers, S-DBact-0341-b- S-17 (5′-TCG TCG GCA GCG TCA GAT GTG TAT AAG AGA CAG CCT ACG GGN GGC WGC AG-3′)and S-D-Bact-0785-a-A-21 (5′-GTC TCG TGG GCT CGG AGA TGT GTA TAA GAG ACA GGA CTA CHV GGG TAT CTA ATC C-3′). The 16S rDNA amplicons were subjected to paired-end sequencing on Illumina MiSeq platform using 2 × 250 bp MiSeq Reagent Kit v2 (Illumina® Inc., San Diego, California).
Bibliographic Citations
- Chua, C. Y., Yong, S. T., González, M. A., Lavin, P., Cheah, Y. K., Tan, G. Y. A., & Wong, C. M. V. L. (2018). Analysis of bacterial communities of King George and Deception Islands, Antarctica using high-throughput sequencing. CURRENT SCIENCE, 115(9), 1701.
Additional Metadata
| Alternative Identifiers | fca3f5da-a6ae-464d-a488-38439546056d |
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| https://ipt.biodiversity.aq/resource?r=soil_bacteria_king_george_island_and_deception_island |