Bacteria in Antarctic glacial foreland soils

最新版本 published by SCAR - Microbial Antarctic Resource System on 3月 19, 2019 SCAR - Microbial Antarctic Resource System
發布日期:
2019年3月19日
授權條款:
CC-BY 4.0

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說明

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

版本

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如何引用

研究者應依照以下指示引用此資源。:

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

權利

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此資料的發布者及權利單位為 SCAR - Microbial Antarctic Resource System。 This work is licensed under a Creative Commons Attribution (CC-BY 4.0) License.

GBIF 註冊

此資源已向GBIF註冊,並指定以下之GBIF UUID: 8e7cf0b8-4789-4b79-9dc9-33d65ed79918。  SCAR - Microbial Antarctic Resource System 發佈此資源,並經由Scientific Committee on Antarctic Research同意向GBIF註冊成為資料發佈者。

關鍵字

Metadata

聯絡資訊

Wenkai Yan
  • 出處
  • 連絡人
Shanghai Jiao Tong University
Shanghai
CN
Hongmei Ma
  • 出處
Polar Research Institute of China
Shanghai
CN
Guitao Shi
  • 出處
Polar Research Institute of China
Shanghai
CN
Bo Sun
  • 出處
Polar Research Institute of China
Shanghai
CN
Xiang Xiao
  • 出處
Shanghai Jiao Tong University
Shanghai
CN
Yu Zhang
  • 出處
Shanghai Jiao Tong University
Shanghai
CN
Maxime Sweetlove
  • 元數據提供者
Research assistent
Royal Belgian Institute for Natural Sciences
Rue Vautier 29
1000 Brussels
BE

地理涵蓋範圍

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

界定座標範圍 緯度南界 經度西界 [-69, 76.407], 緯度北界 經度東界 [-69, 76.407]

分類群涵蓋範圍

Bacteria 16S ssu rRNA marker gene, v4 region

Domain Bacteria (Bacteria)

計畫資料

無相關描述

計畫名稱 Bacteria in Antarctic glacial foreland soils
經費來源 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).

參與計畫的人員:

Wenkai Yan

取樣方法

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.

研究範圍 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.

方法步驟描述:

  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).

引用文獻

  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.

額外的詮釋資料

替代的識別碼 8e7cf0b8-4789-4b79-9dc9-33d65ed79918
https://ipt.biodiversity.aq/resource?r=bacteria_antarctic_glacial_foreland_soils