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V3-V4 16S rDNA of soil bacteria in King George Island and Deception Island
Citation
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 https://dx.doi.org/10.15468/spzi1j
Contact: Chua, C. ; Wong, C.

Access data
Archived data
Availability: Creative Commons License This dataset is licensed under a Creative Commons Attribution 4.0 International License.

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). more

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.
Method step description:
  1. 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.
  2. The concentration and purity of the extracted genomic DNA were measured using the NanoDropTM 2000 spectrophotometer (Thermo Scientific Inc., Waltham, MA, USA).
  3. 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).

Scope
Keywords:
Dna sequencing, Metadata, Antarctica, South Shetland I., Deception I., Antarctica, South Shetland I., King George I., Bacteria

Geographical coverage
Antarctica, South Shetland I., Deception I. [Marine Regions]
Antarctica, South Shetland I., King George I. [Marine Regions]

Temporal coverage
February 2007

Taxonomic coverage
Bacteria [WoRMS]

Parameter
Molecular data

Contributors
Instituto Antártico Chileno (INACH), moredata creator
Universiti Malaysia Sabah, moredata creator
University of Malaya, moredata creator
University Putra Malaysia, moredata creator

Dataset status: Completed
Data type: Metadata
Data origin: Research: field survey
Metadatarecord created: 2019-04-08
Information last updated: 2019-04-10
All data in the Integrated Marine Information System (IMIS) is subject to the VLIZ privacy policy