Marine bacterial, archaeal and eukaryotic microbial communities on the continental shelf of the western Antarctic Peninsula

最新版本 由 SCAR - Microbial Antarctic Resource System 發佈於 Mar 19, 2019 SCAR - Microbial Antarctic Resource System

Amplicon sequencing dataset (454 pyrosequencing) of microbial Bacteria (16S ssu rRNA), Archaea (16S ssu rRNA) and Eukaryotes (18S ssu rRNA) in seawater on the continental shelf of the Antarctic Peninsula.

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如何引用

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Luria C, Ducklow H, Amaral-Zettler L (2019): Marine bacterial, archaeal and eukaryotic microbial communities on the continental shelf of the western Antarctic Peninsula. v1.1. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=marine_bacterial_archaeal_eukaryotic_microbial_communities_western_antarctic_peninsula&v=1.1

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The publisher and rights holder of this work is SCAR - Microbial Antarctic Resource System. This work is licensed under a Creative Commons Attribution (CC-BY) 4.0 License.

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關鍵字

Metadata

聯絡資訊

資源建立者:

Catherine Luria
Brown University Providence US
Hugh Ducklow
Lamont-Doherty Earth Observatory of Columbia University Palisades US
Linda Amaral-Zettler
Brown University Providence US

可回覆此資源相關問題者:

Catherine Luria
Brown University Providence US
Linda Amaral-Zettler
Brown University Providence US

元數據填寫者:

Maxime Sweetlove
Research assistant
Royal Belgian Institute of Natural Sciences Rue Vautier 29 1000 Brussels BE

與此資源的相關者:

使用者

地理涵蓋範圍

Southern Ocean, Continental shelf off the Antarctic peninsula

界定座標範圍 緯度南界 經度西界 [-63.97, -73.03], 緯度北界 經度東界 [41.64, -64.406]

分類群涵蓋範圍

Bacteria (16S ssu rRNA gene, v6 region)

Domain  Bacteria (Bacteria)

Archaea (16S ssu rRNA gene, v6 region)

Domain  Archaea (Archaea)

Eukarya (18S ssu rRNA gene, v9 region)

Domain  Eukarya (Eukaryotes)

時間涵蓋範圍

起始日期 / 結束日期 2008-01-05 / 2008-01-27

計畫資料

http://amarallab.mbl.edu

計畫名稱 Microbial Inventory Research Across Diverse Aquatic Long Term Eco- logical Research Sites
辨識碼 MIRADA-LTERS
經費來源 NSF DEB- 0717390 (MIRADA-LTERS) and NSF Awards OPP- 0217282 and 0823101 (Palmer LTER) from the Antarctic Organisms and Ecosystems Program
研究區域描述 Palmer Antarctica LTER

The personnel involved in the project:

Catherine Luria

取樣方法

Samples were drawn from 10 and 100 m depths from the northern and southern, inshore and offshore corners of the Palmer LTER sampling grid. We collected duplicate samples using a rosette equipped with 10 l Niskin bottles and conductivity, temperature, and depth (CTD) probes. To contrast summer and winter water, we also collected an additional Austral winter sample from 10 m depth at the northern, inshore sampling site in August 2008, using a submersible pump with silicone tubing. Water samples were filtered (1 to 2 l) through 0.2 μm SterivexTM filters (Millipore), preserved genomic DNA by flooding the 2 ml filter cartridge reservoir with sucrose lysis buffer (40 mM EDTA, 50 mM Tris-HCl, 0.75 M sucrose), and stored the filters at −80°C until processing.

研究範圍 Sampling was conducted on the annual Palmer LTER (western coast of the Antarctic Peninsula) midsummer research cruise (January−February 2008)

方法步驟描述:

  1. We extracted DNA using a Puregene DNA extraction kit (Qiagen), with modifications as described by Amaral-Zettler et al. (2009), and stored the DNA at −20°C until PCR amplification. Bacterial and archaeal V6 16S rRNA and eukaryotic V9 18S rRNA gene hypervariable regions were amplified as described previously (Huber et al. 2007, Amaral- Zettler et al. 2009), using ‘barcoded’ primers which al- lowed for multiplexed sequencing (see http://vamps. mbl.edu/resources/primers.php for details). For each sample, we pooled triplicate 50 μl PCR reaction products to minimize propagation of PCR errors and purified them using a QIAquick column-based purification kit (Qiagen). We sequenced purified amplicons on a 454 Genome Sequencer FLX (Roche) according to the manufacturer’s protocols using the LR70 kit.

引用文獻

  1. Luria, C. M., Ducklow, H. W., & Amaral-Zettler, L. A. (2014). Marine bacterial, archaeal and eukaryotic diversity and community structure on the continental shelf of the western Antarctic Peninsula. Aquatic Microbial Ecology, 73(2), 107-121.