Microbial communities (Bacteria and Archaea) in Lake Fryxell (Antarctica) along an oxygen gradient

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 (MiSeq) of Archaea and Bacteria (16S ssu rRNA) in microbial mats at the floor of lake Fryxell (Antarctica).

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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。:

Jungblut A, Hawes I, Mackey T, Krusor M, Doran P, Sumner D, Eiser J, Hillman C, Goroncy A (2019): Microbial communities (Bacteria and Archaea) in Lake Fryxell (Antarctica) along an oxygen gradient. v1.1. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=microbes_antarctic_lake_fryxell_oxygen&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: 59b5ae66-7413-448e-889d-681efbc1c00d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:

Anne Jungblut
The Natural History Museum London GB
Ian Hawes
University of Canterbury Christchurch NZ
Tyler Mackey
University of California Davis US
Megan Krusor
University of California Davis US
Peter Doran
Louisiana State University Baton Rouge US
Dawn Sumner
University of California Davis US
Jonathan Eiser
University of California Davis US
Colin Hillman
University of Canterbury Christchurch NZ
Alexander Goroncy
University of Canterbury Christchurch NZ

リソースに関する質問に答えることができる人:

Anne Jungblut
The Natural History Museum London GB

メタデータを記載した人:

Maxime Sweetlove
Assistent researcher
Royal Belgian Institute of Natural Sciences 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

Lake Fryxell, Antarctica

座標(緯度経度) 南 西 [-77.36, 162.2], 北 東 [-77.36, 162.2]

生物分類学的範囲

Archaea and Bacteria (16S ssu rRNA gene)

Domain  Bacteria (Bacteria),  Archaea (Archaea)

プロジェクトデータ

説明がありません

タイトル Microbial communities (Bacteria and Archaea) in Lake Fryxell (Antarctica) along an oxygen gradient
ファンデイング This work was supported in part by NSF grant number 1115245 and NASA grant number NN13AI60G.

プロジェクトに携わる要員:

Peter Doran
Dawn Sumner

収集方法

Samples were collected by a diver by cutting squares of mat from the lake floor and gently lifting them into a plastic box previously cleaned with antibacterial wipes. Box lids were sealed under water and samples returned to the surface and transferred to lakeside laboratory, where they were immediately dissected using flame-sterilized blades and forceps. Pinnacle and ridge-pit mats were dissected according to their distinctively pigmented horizontal upper (pink-purple and brown-purple, respectively), middle (pale purple and green-beige, respectively), and lower (all beige) layers. Prostrate mats were similarly dissected into upper (brown-purple), middle (green- beige), and lower (beige) layers. Dissected subsamples were rinsed in ster- ile deionized water, transferred into sterile plastic tubes, and frozen at 20°C until further analysis.

Study Extent Microbial mat samples representing the main three macroscopic mat morphologies, i.e., cuspate pinnacle, ridge-pit, and prostrate were collected from the floor of Lake Fryxell in November 2012.

Method step description:

  1. DNA extractions of each of the triplicate mat sections were performed using the MoBio PowerDNA biofilm kit according to the manufacturer’s instructions. DNA was quantified using a Qubit fluorometer, and equal amounts of DNA per sample were pooled for 16S rRNA gene amplification. 16S rRNA gene PCR products were amplified in triplicate, pooled, and cleaned using the MoBio UltraClean PCR clean-up kit ac- cording to the manufacturer’s instructions. For the high-throughput se- quencing, we used primers (515f and 806r), described by Caporaso et al., which amplify both archaeal and bacterial 16S rRNA genes, including cyanobacterial 16S rRNA genes.
  2. Sequencing was performed on a MiSeq Illumina sequencer at NZ Genomics Limited, Palmerston North, New Zealand.

書誌情報の引用

  1. Jungblut, A. D., Hawes, I., Mackey, T. J., Krusor, M., Doran, P. T., Sumner, D. Y., ... & Goroncy, A. K. (2016). Microbial mat communities along an oxygen gradient in a perennially ice-covered Antarctic lake. Appl. Environ. Microbiol., 82(2), 620-630.

追加のメタデータ

代替識別子 59b5ae66-7413-448e-889d-681efbc1c00d
https://ipt.biodiversity.aq/resource?r=microbes_antarctic_lake_fryxell_oxygen