V3-V4 16S rDNA of soil bacteria in King George Island and Deception Island

C. Chua1, S. Yong1, M. Gonzalez2, P. Lavin2, Y. Cheah3, G. Tan4, C. Wong1, Maxime Sweetlove5

1 Universiti Malaysia Sabah, 88400, Kota Kinabalu, Malaysia; 2 Instituto Antártico Chileno, Punta Arenas, Chile; 3 Universiti Putra Malaysia, 43400, Serdang, Malaysia; 4 University of Malaya, 88400, Kuala Lumpur, Malaysia; 5 Royal Belgian Institute for Naturals Sciences, Rue Vautier 29, 1000, Brussels

Corresponding author(s): C. ChuaS. YongM. GonzalezP. LavinY. CheahG. TanC. Wong, Maxime Sweetlove (msweetlove@naturalsciences.be)

Received {date}; Revised {date}; Accepted {date}; Published {date}

Citation: Combination of authors, year of data paper publication (in parentheses), Title, Journal Name, Volume, Issue number (in parentheses), and doi of the data paper.

Resource 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

Abstract

Amplicon sequencing dataset (Illumina MiSeq 250bp PE) of soil bacteria (16S ssu rRNA gene, v3-v4) on King George Island and Deception Island (Antarctica)

Keywords: Metadata

Project details

Project title: V3-V4 16S rDNA of soil bacteria in King George Island and Deception Island
Personnel: C. Chua
Funding: his work was supported by the Ministry of Science, Technology and Innovation (MOSTI), Malaysia under the Flagship project FP0712E012.

Data published through GBIF: https://ipt.biodiversity.aq/resource?r=soil_bacteria_king_george_island_and_deception_island

Taxonomic coverage

General taxonomic coverage description: Bacteria, 16S ssu rRNA gene, v3-v4 region
Taxonomic ranks
Domain: Bacteria
Common names: Bacteria

Spatial coverage

General spatial coverage: King George Island and Deception Island, Antarctica
Coordinates: 62°59'24''S and 62°11'24''S Latitude; 60°40'48''W and 58°56'24''W Longitude 

Methods

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).
Study extent description: 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.
Sampling description: Samples were stored at –20°C immediately after sampling.

Metadata language: English
Date of metadata creation: 2019-02-01
Hierarchy level: Dataset

References
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.