Fungi (LSU) in soils from the South Shetland island, Antarctic Peninsula island, and Union Glacier

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

Amplicon sequencing dataset of microbial Fungi (LSU D1-D2) of terrestrial habitats in Antarctica, including eight islands of the South Shetland Archipelago, two islands on the Antarctic Peninsula and Union Glacier.

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バージョン

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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。:

Baeza M, Barahona S, Alcaino J, Cifuentes V (2018): Fungi (LSU) in soils from the South Shetland island, Antarctic Peninsula island, and Union Glacier. v1.3. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=fungi_soils_s_shetland_and_antarctica&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: 11c8e968-361d-4cea-abae-67450fa03fe8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:

Marcelo Baeza
Universidad de Chile Santiago CL
Salvador Barahona
Universidad de Chile Santiago CL
Jennifer Alcaino
Universidad de Chile Santiago CL
Victor Cifuentes
Universidad de Chile Santiago CL

リソースに関する質問に答えることができる人:

Marcelo Baeza
Universidad de Chile Santiago CL

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

South Shetland Islands, Union Glacier (Antarctica)

座標(緯度経度) 南 西 [-79.82, -83.31], 北 東 [-62.1, -58.1]

生物分類学的範囲

LSU marker gene for microbial soil Fungi

Phylum  Fungi (Fungi)

時間的範囲

開始日 / 終了日 2010-01-01 / 2015-01-01

プロジェクトデータ

説明がありません

タイトル FONDECYT grant 1130333
ファンデイング This work was supported by Comisión Nacional de Investigación Científica y Tecnológica (No. FONDECYT grant 1130333).

プロジェクトに携わる要員:

Marcelo Baeza
Salvador Barahona
Jennifer Alcaino
Victor Cifuentes

収集方法

Samples were collected in sterile 50 ml plastic tubes, which were sealed and shipped at -20°C to the Genetics Laboratory of the Faculty of Science at the Universidad de Chile. Once samples arrived at the laboratory, they were maintained at -80°C until processing.

Study Extent Soil samples were gathered during several expeditions to Antarctica, including Union Glacier, Lagotellerie island, King George, Deception, Snow, Dee, Livingstone, Greenwich, Robert, Nelson and Litchfield islands.

Method step description:

  1. A PowerSoil DNA Isolation Kit (MO BIO Laboratories Inc., Carlsbad, CA, United States) was used for direct DNA extraction from soil samples. The manufacturers’ instructions were followed, with only one modification, the disruption step, was performed using a Mini Beadbeater-16 cell disrupter (BioSpec Bartlesville, United States) instead of vortex agitation, as no PCR-amplicons were obtained in reactions using samples obtained through vortex agitation.
  2. The PCR reactions were performed using 1 μl of DNA sample (direct or 1/10 dilution), 5 units of Taq DNA polymerase, dNTP mix at 0.4 mM each, forward and reverse primers at 1 mM final each, PCR buffer and MgCl2 2 mM. Amplification was performed using a 2720 (Applied Biosystems) thermal cycler using the following protocol: initial denaturation at 94°C for 3 min; 35 cycles of denaturation at 94°C for 30 s, annealing at 50°C for 3 min, and extension at 72°C for 3 min; and a final extension step at 72°C for 10 min. The universal primers F63 (5′-GCA TAT CAA TAA GCG GAG GAA AAG-3′) and LR3 (5′-GGT CCG TGT TTC AAG ACG G-3′) were used; these primers have been described as specific for amplifying the fungal D1/D2 region of the large subunit ribosomal gene (LSU). In all PCR reactions, the same forward primer (F63) was used, but the reverse primer (LR3) was specific for each soil sample as a 454 adapter, a specific barcode and a linker sequence were added.
  3. Sequencing was performed at OMICS Solutions (Santiago, Chile) using the Ion 314TM Chip Kit v2 (Thermo Fisher) and Ion Torrent personal genome machine (PGM), according to the manufacturer’s instructions (Rothberg et al., 2011). Three independent runs were performed: (i) samples from King George Island; (ii) samples from Deception, Snow, Dee, Livingstone, Greenwich, Robert, Nelson and Litchfield islands; and iii) samples from Lagotellerie and Union Glacier.

書誌情報の引用

  1. Baeza, M., Barahona, S., Alcaíno, J., & Cifuentes, V. (2017). Amplicon-Metagenomic Analysis of Fungi from Antarctic Terrestrial Habitats. Frontiers in microbiology, 8, 2235.
  2. Carrasco, M., Rozas, J. M., Barahona, S., Alcaíno, J., Cifuentes, V., & Baeza, M. (2012). Diversity and extracellular enzymatic activities of yeasts isolated from King George Island, the sub-Antarctic region. BMC microbiology, 12(1), 251.
  3. Troncoso, E., Barahona, S., Carrasco, M., Villarreal, P., Alcaíno, J., Cifuentes, V., & Baeza, M. (2017). Identification and characterization of yeasts isolated from the South Shetland Islands and the Antarctic Peninsula. Polar Biology, 40(3), 649-658.
  4. Barahona, S., Yuivar, Y., Socias, G., Alcaíno, J., Cifuentes, V., & Baeza, M. (2016). Identification and characterization of yeasts isolated from sedimentary rocks of Union Glacier at the Antarctica. Extremophiles, 20(4), 479-491.

追加のメタデータ

代替識別子 11c8e968-361d-4cea-abae-67450fa03fe8
https://ipt.biodiversity.aq/resource?r=fungi_soils_s_shetland_and_antarctica