Arctic multi-year sea ice Bacteria

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 (454 pyrosequencing) of Bacteria (16S marker gene) in two multi-year sea-ice cores from the Arctic.

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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。:

Hatam I, Lange B, Beckers J, Haas C, Lanoil B, Charchuk R (2019): Arctic multi-year sea ice Bacteria. v1.2. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=arctic_multiyear_sea_ice_bacteria&v=1.2

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: 9f8879f7-ae24-4c6c-9209-d62408e5dcbb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:

Ido Hatam
University of Alberta Edmonton CA
Benjamin Lange
University of Alberta Edmonton CA
Justin Beckers
University of Alberta Edmonton CA
Christian Haas
University of Alberta Edmonton CA
Brian Lanoil
University of Alberta Edmonton CA
Rhianna Charchuk
University of Alberta Edmonton CA

リソースに関する質問に答えることができる人:

Ido Hatam
University of Alberta Edmonton CA
Brian Lanoil
University of Alberta Edmonton CA

メタデータを記載した人:

Maxime Sweetlove
Research assistent
Royal Belgian Institute of 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

Landfast ice off the northern shore of northern Ellesmere Island Nunavut, Canada (82.54905°N, −62.37685°W).

座標(緯度経度) 南 西 [82.549, -62.377], 北 東 [82.549, -62.377]

生物分類学的範囲

Bacteria, targeted with the 16S ssu rRNA marker gene (v1-v3 region)

Domain  Bacteria (Bacteria)

時間的範囲

生成(収集)期間 2011-05

プロジェクトデータ

説明がありません

タイトル Arctic multi-year sea ice Bacteria
ファンデイング Support was provided by the Natural Science and Engineering Research Council of Canada (NSERC) Discovery Grant program and the Polar Continental Shelf Program (PCSP); the Northern Scientific Training Program (NSTP) and Circumpolar-Boreal Arctic Research (C-BAR) programs.

プロジェクトに携わる要員:

Ido Hatam

収集方法

Two parallel cores were sampled using Kovacs Mark II 9 cm corer (Kovacs Enterprise, Roseburg, Oregon) and a 36 V electric hand drill. Prior to drilling, the core barrel was rinsed with sterile deionized water (Milli-Q Integral Water Purification System, EMD Millipore Corporation, Billerica, MA). The two cores were immediately sectioned on site to 30-cm intervals using a hand saw (rinsed in deionized water and wiped with an ethanol wipe) and placed in UV-sterilized polypropylene bags.

Study Extent Two ice cores were taken during May 2011 at one site on landfast ice off the northern shore of northern Ellesmere Island Nunavut, Canada (82.54905°N, −62.37685°W).

Method step description:

  1. Ice samples used were thawed at room temperature in the dark, and were filtered individually through 0.22-μm-pore-size polyethersulfone membrane filters (Pall, Mississauga, ON, Canada). Direct melting was used to avoid nonspecific addition of DNA and dilution of samples. All glassware was sterilized using 10% household bleach solution followed by thorough washing in sterile deionized water between samples to prevent cross-contamination. Each filter was placed in a microfuge tube and submerged in RNAlater® solution (Life Technologies, Burlington, ON, Canada) and stored at −20 °C for later DNA extraction.
  2. DNA was extracted from preserved filters by bead beating using the FastDNA® SPIN Kit for Soil (MP Biomedicals, Solon, OH) as instructed by the manufacturer. Filters from equivalent 30-cm sections of duplicate ice cores were combined prior to DNA extraction to ensure sufficient DNA yield. Seawater duplicate samples were processed individually.
  3. Molecular Research LP (Shallowater, TX) performed pyrosequencing of the V1-V3 regions of the bacterial 16S rRNA gene as described in Dowd et al. (2008). Amplification was performed using HotStarTaq Plus Master Mix Kit (Qiagen, Valencia, CA) under the following conditions: 94 °C for 3 min, followed by 28 cycles of 94 °C for 30 s; 53 °C for 40 s; and 72 °C for 1 min with a final elongation step at 72 °C for 5 min. Gene-specific forward PCR primer sequences were tagged with the sequencing adapters for GS FLX Titanium chemistry, an 8 base barcode, and a linker sequence. All PCRs were performed in triplicate, mixed in equal concentrations, and purified using Agencourt AMPure beads (Agencourt Bioscience Corporation, MA). FLX-Titanium amplicon pyrosequencing was performed using the Genome Sequencer FLX System (Roche, Branford, CT).

書誌情報の引用

  1. Hatam, I., Charchuk, R., Lange, B., Beckers, J., Haas, C., & Lanoil, B. (2014). Distinct bacterial assemblages reside at different depths in Arctic multiyear sea ice. FEMS microbiology ecology, 90(1), 115-125. https://doi.org/10.1111/1574-6941.12377

追加のメタデータ

代替識別子 9f8879f7-ae24-4c6c-9209-d62408e5dcbb
https://ipt.biodiversity.aq/resource?r=arctic_multiyear_sea_ice_bacteria