Bacterioplankton in surface waters off the northern tip of the Antarctic Peninsula

Latest version published by SCAR - Microbial Antarctic Resource System on Jun 10, 2021 SCAR - Microbial Antarctic Resource System

Amplicon sequencing dataset (454 LS) targeting planktonic Bacteria (16S ssu rRNA) in surface layer sea water samples (n=18) from the Northern tip of the Antarctic Peninsula.

Downloads

Download the latest version of the metadata-only resource metadata as EML or RTF:

Metadata as an EML file download in English (10 KB)
Metadata as an RTF file download in English (11 KB)

Versions

The table below shows only published versions of the resource that are publicly accessible.

How to cite

Researchers should cite this work as follows:

Cao S, He J, Zhang F, Lin L, Gao Y, Zhou Q (2021): Bacterioplankton in surface waters off the northern tip of the Antarctic Peninsula. v1.0. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=bacterioplankton_from_northern_tip_antarctic_peninsula&v=1.0

Rights

Researchers should respect the following rights statement:

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.

GBIF Registration

This resource has been registered with GBIF, and assigned the following GBIF UUID: 6acade15-6d79-4dad-824e-a70b73db623c.  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:

Shunan Cao
The Key Laboratory for Polar Science, State Ocean Administration, Polar Research Institute of China Shanghai CN
Jianfeng He
The Key Laboratory for Polar Science, State Ocean Administration, Polar Research Institute of China Shanghai CN
Fang Zhang
The Key Laboratory for Polar Science, State Ocean Administration, Polar Research Institute of China Shanghai CN
Ling Lin
The Key Laboratory for Polar Science, State Ocean Administration, Polar Research Institute of China Shanghai CN
Yuan Gao
The Key Laboratory for Polar Science, State Ocean Administration, Polar Research Institute of China Shanghai CN
Qiming Zhou
School of Life Science and Technology, Harbin Institute of Technology Harbin CN

Who can answer questions about the resource:

Jianfeng He
The Key Laboratory for Polar Science, State Ocean Administration, Polar Research Institute of China Shanghai CN

Who filled in the metadata:

Maxime Sweetlove
Royal Belgian Institute of Natural Sciences Brussels BE

Who else was associated with the resource:

User
Jianfeng He
The Key Laboratory for Polar Science, State Ocean Administration, Polar Research Institute of China Shanghai CN

Geographic Coverage

Northern tip of the Antarctic Peninsula

Bounding Coordinates South West [-65.613, -66.441], North East [-64.815, -62.593]

Temporal Coverage

Start Date / End Date 2011-12-30 / 2012-01-29

Project Data

No Description available

Title CHINARE-2011–2015
Funding This work was funded by the Chinese Polar Environment Comprehensive Investigation & Assessment Programs (CHINARE-2011–2015), an international cooperation programme of the Chinese National Arctic and Antarctic Research Expedition (IC201514) and the National Natural Science Foundation of China (grant nos. 41206189 and 41476168).
Study Area Description Seawater from the northern tip of the Antarctic Peninsula.

The personnel involved in the project:

Jianfeng He

Sampling Methods

Thirteen samples were taken at 25 m depth (the layer of maximum oxygen), three samples were taken at 2 m and two samples were taken at 50 m depth. An SBE 911 plus CTD instrument combined with an SBE 32 Carousel water sampler (both by Sea-Bird Electronics) equipped with 24 Niskin bottles was used to collect seawater and measure physical parameters (temperature and salinity). +- 2 L of seawater was pre-filtered through 3 μm pore size polycarbonate membranes (Whatman), and then filtered with a vacuum pump through polycarbonate membranes (47 mm diameter, 0.2-μm pore size, Whatman). Samples were subsequently frozen at −80°C.

Study Extent Samples (n=18) were collected in the waters by the northern tip of the Antarctic Peninsula, including the northern area of the Bransfield Strait, the Powell Basin and the South Orkney tableland area during the 28th Chinese National Antarctic Research Expedition, from December 2011 to January 2012.
Quality Control The PCR products were purified using AxyPrepTM DNA Purification Kit (Axygen®) and quantified using a Qubit® 2.0 Fluorometer (Life Technologies).

Method step description:

  1. DNA was extracted using a modified cetyltrimethylammonium bromide method and examined by agarose gel electrophoresis.
  2. The V1–V3 region of the 16S rRNA gene of Bacteria was amplified using the universal primer pair F8 (5′-CCTATCCCCTGTGT- GCCTTGGCAGTCTCAG-AGAGTTTGATCCTGGCTCAG-3′) and R533 (5′-CCATCTCATCCCTGC- GTGTCTCCGACTCAG-NNNNNNNN-TTACCGCGGCTGCT- GGCAC-3′; NNNNNNNN being the place of the sample-specific barcode). PCR was performed using 5–10 ng genomic DNA in a final volume of 50 μL. The PCR procedure was as follows: initial denaturation at 95°C for 2 min; 25 cycles at 95°C for 30 s, 56.4°C for 1 min and 72°C for 30 s; and a final extension at 72°C for 5 min.
  3. 454 pyrosequencing was performed on an FLX Titanium Genome Sequencer (454/Roche Life Sciences).

Bibliographic Citations

  1. Cao, S., He, J., Zhang, F., Lin, L., Gao, Y., & Zhou, Q. (2019). Diversity and community structure of bacterioplankton in surface waters off the northern tip of the Antarctic Peninsula. Polar Research.