Microbial communities (Bacteria and Archaea) in Lake Fryxell (Antarctica) along an oxygen gradient
最新版本 由 SCAR - Microbial Antarctic Resource System 發佈於 2019年3月19日 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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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

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關鍵字

Metadata

聯絡資訊

資源建立者:

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

可回覆此資源相關問題者:

Anne Jungblut
The Natural History Museum
London
GB

元數據填寫者:

Maxime Sweetlove
Assistent researcher
Royal Belgian Institute of Natural Sciences
1000 Brussels
BE

與此資源的相關者:

使用者
地理涵蓋範圍

Lake Fryxell, Antarctica

界定座標範圍 緯度南界 經度西界 [-77.36, 162.2], 緯度北界 經度東界 [-77.36, 162.2]
分類群涵蓋範圍

Archaea and Bacteria (16S ssu rRNA gene)

Domain  Bacteria (Bacteria),  Archaea (Archaea)
計畫資料

無相關描述

計畫名稱 Microbial communities (Bacteria and Archaea) in Lake Fryxell (Antarctica) along an oxygen gradient
經費來源 This work was supported in part by NSF grant number 1115245 and NASA grant number NN13AI60G.

參與計畫的人員:

Peter Doran
Dawn Sumner
取樣方法

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.

研究範圍 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.

方法步驟描述:

  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.
引用文獻
  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.
額外的元數據
替代的識別碼 59b5ae66-7413-448e-889d-681efbc1c00d
https://ipt.biodiversity.aq/resource?r=microbes_antarctic_lake_fryxell_oxygen