メタデータ

Bacteria in Antarctic glacial foreland soils

最新バージョン SCAR - Microbial Antarctic Resource System によって公開 2019/03/19 SCAR - Microbial Antarctic Resource System

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説明

Amplicon sequencing dataset (Illumina MiSeq) of Bacteria (16S ssu rRNA) in an Antarctic glacial foreland soil gradient

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。:

Yan W, Ma H, Shi G, Sun B, Xiao X, Zhang Y (2018): Bacteria in Antarctic glacial foreland soils. v1.3. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=bacteria_antarctic_glacial_foreland_soils&v=1.3

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: 8e7cf0b8-4789-4b79-9dc9-33d65ed79918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

リソースを作成した人:
-

Wenkai Yan
Shanghai Jiao Tong University
Shanghai
CN
Hongmei Ma
Polar Research Institute of China
Shanghai
CN
Guitao Shi
Polar Research Institute of China
Shanghai
CN
Bo Sun
Polar Research Institute of China
Shanghai
CN
Xiang Xiao
Shanghai Jiao Tong University
Shanghai
CN
Yu Zhang
Shanghai Jiao Tong University
Shanghai
CN

リソースに関する質問に答えることができる人:

Wenkai Yan
Shanghai Jiao Tong University
Shanghai
CN

メタデータを記載した人:
-

Maxime Sweetlove
Research assistent
Royal Belgian Institute for Natural Sciences
Rue Vautier 29
1000 Brussels
BE

他に、リソースに関連付けられていた人:

データ利用者

地理的範囲

Soil samples were collected from the glacial foreland in Larsemann Hills in East Antarctica

座標(緯度経度) 南 西 [-69, 76.407], 北 東 [-69, 76.407]

生物分類学的範囲

Bacteria 16S ssu rRNA marker gene, v4 region

Domain Bacteria (Bacteria)

プロジェクトデータ

説明がありません

タイトル Bacteria in Antarctic glacial foreland soils
ファンデイング Funding was provided by the National Natural Science Foundation of China (grants 41276202, 41476123, 41676177), China Ocean Mineral Resources R&D Association (grants DY125-22-04), and the thirteen Five-Year Plan for Polar Science (grants CHINARE 2016-02-02).

プロジェクトに携わる要員:

Wenkai Yan

収集方法

Surface soil layers, approximately 5 cm, were collected. When sites were covered by ice (3,4 and 5), the covering ice was gently cracked and the ice fractures were removed before sampling the soil beneath. The samples were stored in plastic bags and kept at -20°C during transport and storage in the laboratory until they were used for further analysis.

Study Extent Soil samples were collected from the glacial foreland in Larsemann Hills in East Antarctica (-69.39762S, 76.40666 E), during the 29th Chinese National Antarctic Research Expedition in the Antarctic summer in February 2013.

Method step description:

  1. Each soil sample was homogenized and sub-sampled for DNA extraction and geochemical measurements.
  2. An SDS-based method was employed to extract the DNA from soil (Natarajan et al., 2016). The bacterial V4 region of the 16S rRNA gene was amplified with a special bacterial primer pair 533F (TGCCAGCAGCCGCGGTAA)/Bact806R (GGACTACCAGGGTATCTAATCCTGTT). A sample tagging approach was employed, and a different barcode was added before the forward primer for each sample. The PCR reagents were mixed as follow: 5 μl of 10× Taq buffer (Takara, Otsu, Shiga, Japan), 4 μl of dNTP (Takara, Otsu, Shiga, Japan), 1 μl of each primer (10 μM stored concentration), 0.25 μl of Ex Taq DNA polymerase (Takara, Otsu, Shiga, Japan), approximately 50 ng of DNA, 2.5 μl of BSA (Bull Serum Albumin), and 32.75 μl of water. The PCR amplification consisted of an initial denaturation at 94°C for 5 min; 25 cycles of denaturation at 94°C for 40 s, annealing at 58°C for 40 s, and extension at 72°C for 1 min; and a final extension at 72°C for 8 min. The PCR products were purified with a Gel Extraction Kit (Omega Bio-Tek, Norcross, GA, United States) according to the manufacturer’s instructions.
  3. The reads were obtained with MiSeq sequencing platform (Illumina, San Diego, CA, United States).

書誌情報の引用

  1. Yan, W., Ma, H., Shi, G., Li, Y., Sun, B., Xiao, X., & Zhang, Y. (2017). Independent Shifts of Abundant and Rare Bacterial Populations across East Antarctica Glacial Foreland. Frontiers in microbiology, 8, 1534.

追加のメタデータ

代替識別子 8e7cf0b8-4789-4b79-9dc9-33d65ed79918
https://ipt.biodiversity.aq/resource?r=bacteria_antarctic_glacial_foreland_soils