Microbiome (Archaea, Bacteria and Fungi) in soils from King George Island (Antarctica)

最新バージョン SCAR - Microbial Antarctic Resource System により出版 3 19, 2019 SCAR - Microbial Antarctic Resource System

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説明

Amplicon sequencing dataset (Illumina MiSeq) of Bacteria (16S); Archaea (16S) and Fungi (ITS) in soils from the Fildes region on King George Island (Antarctica).

バージョン

次の表は、公にアクセス可能な公開バージョンのリソースのみ表示しています。

引用方法

研究者はこの研究内容を以下のように引用する必要があります。:

Zhang Y, Lu L, Chang X, Jiang F, Gao X, Yao Y, Cao S, Zhou Q, Peng F (2019): Microbiome (Archaea, Bacteria and Fungi) in soils from King George Island (Antarctica). v1.1. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=microbiome_soil_king_george_island_antarctica&v=1.1

権利

研究者は権利に関する下記ステートメントを尊重する必要があります。:

パブリッシャーとライセンス保持者権利者は SCAR - Microbial Antarctic Resource System。 This work is licensed under a Creative Commons Attribution (CC-BY 4.0) License.

GBIF登録

このリソースをはGBIF と登録されており GBIF UUID: 0e3185d2-7264-4487-b77a-b559de2f2a79が割り当てられています。   Scientific Committee on Antarctic Research によって承認されたデータ パブリッシャーとして GBIF に登録されているSCAR - Microbial Antarctic Resource System が、このリソースをパブリッシュしました。

キーワード

Metadata

連絡先

Yumin Zhang
  • 最初のデータ採集者
  • 連絡先
Wuhan University
Wuhan
CN
Lu Lu
  • 最初のデータ採集者
Wuhan University
Wuhan
CN
Xulu Chang
  • 最初のデータ採集者
Wuhan University
Wuhan
CN
Fan Jiang
  • 最初のデータ採集者
Wuhan University
Wuhan
CN
Xiangdong Gao
  • 最初のデータ採集者
Wuhan University
Wuhan
CN
Yifeng Yao
  • 最初のデータ採集者
Chinese Academy of Sciences
Beijing
CN
Shunan Cao
  • 最初のデータ採集者
Polar Research Institute of China
Shanhai
CN
Qiming Zhou
  • 最初のデータ採集者
ChosenMed Technology (Beijing) Company Limited
Beijing
CN
Fang Peng
  • 最初のデータ採集者
Wuhan University
Wuhan
CN
Maxime Sweetlove
  • メタデータ提供者
Research assistent
Royal Belgian Institute of Natural Sciences
Rue vautier 29
1000 Brussels
BE

地理的範囲

Fildes region on the King George island, Antarctica

座標(緯度経度) 南 西 [-62.24, -59.03], 北 東 [-62.15, -58.84]

生物分類学的範囲

Bacteria, profiled by targeting the 16S ssu rRNA gene

Domain Bacteria (Bacteria)

Archaea, profiled by targeting the 16S ssu rRNA gene

Domain Archaea (Archaea)

Fungi, profiled by targeting ITS gene

Phylum Fungi (Fungi)

プロジェクトデータ

説明がありません

タイトル Microbiome (Archaea, Bacteria and Fungi) in soils from King George Island (Antarctica)
ファンデイング This work was supported by the National Key R&D Program of China (2018YFC1406700), the R&D Infrastructure and Facility Development Program of the Ministry of Science and Technology of the People’s Republic of China (Grant No. NIMR-2017-8), the National Natural Science Foundation of China (Grant No. 31270538), and the Chinese Polar Scientific Strategy Research Fund IC201706.

プロジェクトに携わる要員:

Yumin Zhang

収集方法

Soils were sampled from the A-horizon (10 cm) at an internal distance of approximately 3–5 m, and samples were collected in triplicate around each quadrat plot. Soil samples collected for each replicate were taken from five soil cores (5 cm diameter) and mixed thoroughly. A total of 36 soil samples were placed in sterile plastic bags, and soil DNA was extracted within 2 h in the laboratory of the Great Wall Station. The remaining soils were stored in the freezer until further soil physico-chemical property analyses were performed.

Study Extent The 12 permanent quadrat plots (1.5 m × 1.0 m each) investigated in this study were established on the Fildes Peninsula and Ardley Island between 2013 and 2015. Each quadrat plot was fenced to minimize disturbance. The distance between quadrat plots ranges from approximately 1.6 to 8.2 km. Sampling occurred during China’s 33rd Antarctic expedition in January 2017.

Method step description:

  1. The bacterial hypervariable V4 region of the 16S rRNA genes was amplified using primers 515F (5’-GTGCCAGCMGCCGCGGTAA-3’) with a 7-nucleotide barcode and 907R (5’-CCGTCAATTCMTTTRAGTTT-3’). Amplifications of the bacterial 16S rRNA genes were performed, consisting of an initial denaturation at 98 °C for 30 s, followed by 25 cycles of denaturation at 98 °C for 15 s, annealing at 50 °C for 30 s, extension at 72 °C for 30 s, and a final extension at 72 °C for 5 min.
  2. The archaeal V5-6 region of 16S rRNA genes was amplified using primers 524F-10-extF (5’-TGYCAGCCGCCGCGGTAA-3’) with a 7-nucleotide barcode and Arch958-modR (5’-YCCGGCGTTGAVTCCAATT-3’). Amplifications of the archaeal 16S rRNA genes were performed, consisting of an initial denaturation at 95 °C for 30 s, followed by 25 cycles of denaturation at 95 °C for 15 s, annealing at 55 °C for 30 s, extension at 72 °C for 30 s, and a final extension at 72 °C for 5 min.
  3. The fungal rDNA ITS1-5.8S-ITS2 region was amplified using primers ITS5 (5’-GGAAGTAAAAGTCGTAACAAGG-3’) with a 7-nucleotide barcode and ITS4 (5’-TCCTCCGCTTATTGATATGC-3’). Amplifications of the fungal ITS regions were performed, consisting of an initial denaturation at 95 °C for 30 s, followed by 25 cycles of denaturation at 95 °C for 15 s, annealing at 50 °C for 30 s, extension at 72 °C for 30 s, and a final extension at 72 °C for 5 min. The PCR 25 μl reaction mixture contained 0.25 μl Q5 high-fidelity DNA polymerase (NEB), 5 μl reaction buffer, 5 μl high GC buffer, 0.5 μl of 10 mM dNTP, 1 μl template DNA, 1 μl of each primer (10 μM), and 11.25 μl ddH2O.
  4. PCR products were purified using an AxyPreDNA Gel Extraction Kit (Axygen Biosciences, Corning, NY, USA) according to the manufacturer’s instructions. The purified PCR amplicons from each sample were then mixed after quantification using a Quant-iT PicoGreen dsDNA Assay Kit (Invitrogen) in the Microplate reader (Bio Tek, FLx800). Sequencing was performed on the Illumina Miseq Platform.

書誌情報の引用

  1. Zhang, Y., Lu, L., Chang, X., Jiang, F., Gao, X., Yao, Y., ... & Peng, F. (2018). Small-scale soil microbial community heterogeneity linked to landform historical events on King George Island, maritime Antarctica. Frontiers in microbiology, 9, 3065.

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