Microbes (Eukaryotes and Archaea) in sea water from Fildes Peninsula (King George Island, Antarctica)

Latest version published by SCAR - Microbial Antarctic Resource System on Mar 19, 2019 SCAR - Microbial Antarctic Resource System

Amplicon sequencing dataset (Illumina MiSeq) of microbial Eukaryotes (18S ssu rRNA gene), and Archaea in sea water samples taken during the 29th Chinese Antarctic scientific expedition in 2013 at Greatwall cove and Ardley cove, Fildes Peninsula (King George Island, Antarctica).

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How to cite

Researchers should cite this work as follows:

Luo W, Li H, Gao S, Yu Y, Lin L, Zeng T (2019): Microbes (Eukaryotes and Archaea) in sea water from Fildes Peninsula (King George Island, Antarctica). v1.2. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=microbes_fildes_peninsula_antarctica&v=1.2

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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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This resource has been registered with GBIF, and assigned the following GBIF UUID: a4af5ceb-4035-49f5-b41a-bb548307b4f8.  SCAR - Microbial Antarctic Resource System publishes this resource, and is itself registered in GBIF as a data publisher endorsed by Scientific Committee on Antarctic Research.

Keywords

Metadata

Contacts

Who created the resource:

Wei Luo
Polar Research Institute of China Shanghai CN
Huirong Li
Polar Research Institute of China Shanghai CN
Shengquan Gao
Second Institute of Oceanography Hangzhou CN
Yong Yu
Polar Research Institute of China Shanghai CN
Ling Lin
Polar Research Institute of China Shanghai CN
Tinxin Zeng
Polar Research Institute of China Shanghai CN

Who can answer questions about the resource:

Wei Luo
Polar Research Institute of China Shanghai CN

Who filled in the metadata:

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

Who else was associated with the resource:

User

Geographic Coverage

Fildes Peninsula, King George Island, Antarctica

Bounding Coordinates South West [-62.2, -58.9], North East [-62.2, -58.9]

Taxonomic Coverage

microbial Eukaryotes were sampled based on marker gene amplification (18S ssu rRNA gene)

Domain  Eukaryota (Eukaryotes)

Archaea were sampled based on marker gene amplification

Domain  Archaea (Archaea)

Temporal Coverage

Start Date / End Date 2013-01-17 / 2013-01-23

Project Data

No Description available

Title Microbes (Eukaryotes and Archaea) in sea water from Fildes Peninsula (King George Island, Antarctica)
Funding This work was supported by the National High-Tech Research and Development Program of China (Grant Nos. 2012AA021706, 2013AA065805), National Natural Science Foundation of China (No. 41376191), Chinese Polar Environment Comprehensive Investigation and Assessment Program (CHINARE2014-02-01), and Shanghai Rising-Star Program (11QA1407300).

The personnel involved in the project:

Wei Luo

Sampling Methods

1 L of surface sea water from each station was collected and prefiltered through a 20-µm mesh sieve to remove most of the mesozooplankton and large particles, and then directly filtered through a 0.2-µm pore size nucleopore membrane filter (Whatman). The filters were frozen at −80 °C in cetyltrimethylammonium bromide (CTAB) buffer until laboratory experiments were carried out.

Study Extent Samples were taken in January 2013, during the 29th Chinese National Antarctic Research Expedition at Greatwall Cove and Ardley Cove (king George Island, Antarctica)

Method step description:

  1. DNA extraction was performed as described by Luo et al. (2009).
  2. Polymerase chain reaction (PCR) was performed using primers with barcodes flanking the hypervariable V4 region of the 18S rRNA gene: 3NDf with the reverse primer V4_euk_R2. PCR was conducted in 20 μL reactions with 0.2 μM each of the primers, ~10 ng of template DNA, 1 × PCR buffer, and 2.5 U of Pfu DNA Polymerase (Promega, USA). The amplification programme consisted of an initial denaturation step at 95 °C for 2 min, followed by 30 cycles at 95 °C for 30 s, 55 °C for 30 s, and 72 °C for 30 s, and a final extension of 72 °C for 5 min. PCR products were pooled and purified using a DNA gel extraction kit (Axygen, Hangzhou, China). The DNA concentration of each PCR product was determined using a Quant-iT PicoGreen double-stranded DNA assay (Invitrogen, Germany) and was quality controlled on a TBS-380 Mini-Fluorometer (Turner Biosystems, Sunnyvale, CA, USA). Finally, amplicons of all samples were pooled in equimolar concentrations.
  3. 18S rRNA amplification and sequencing on the Illumina MiSeq2000 were done by following the standard protocols of Earth Microbiome Project (EMP) (Caporaso et al. 2012).

Bibliographic Citations

  1. Luo, W., Li, H., Gao, S., Yu, Y., Lin, L., & Zeng, Y. (2016). Molecular diversity of microbial eukaryotes in sea water from Fildes Peninsula, King George Island, Antarctica. Polar Biology, 39(4), 605-616. https://doi.org/10.1007/s00300-015-1815-8

Additional Metadata

Alternative Identifiers a4af5ceb-4035-49f5-b41a-bb548307b4f8
https://ipt.biodiversity.aq/resource?r=microbes_fildes_peninsula_antarctica