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

Citation

Cao S, He J, Zhang F, Lin L, Gao Y, Zhou Q, Sweetlove M (2021). Bacterioplankton in surface waters off the northern tip of the Antarctic Peninsula. SCAR - Microbial Antarctic Resource System. Metadata dataset https://doi.org/10.15468/qmpvnn accessed via GBIF.org on 2023-06-04.

Description

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.

Sampling Description

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.

Sampling

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.

Quality Control

The PCR products were purified using AxyPrepTM DNA Purification Kit (Axygen®) and quantified using a Qubit® 2.0 Fluorometer (Life Technologies).

Method steps

  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).

Taxonomic Coverages

Geographic Coverages

Northern tip of the Antarctic Peninsula

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. -

Contacts

Shunan Cao
originator
The Key Laboratory for Polar Science, State Ocean Administration, Polar Research Institute of China
Shanghai
CN
Jianfeng He
originator
The Key Laboratory for Polar Science, State Ocean Administration, Polar Research Institute of China
Shanghai
CN
Fang Zhang
originator
The Key Laboratory for Polar Science, State Ocean Administration, Polar Research Institute of China
Shanghai
CN
Ling Lin
originator
The Key Laboratory for Polar Science, State Ocean Administration, Polar Research Institute of China
Shanghai
CN
Yuan Gao
originator
The Key Laboratory for Polar Science, State Ocean Administration, Polar Research Institute of China
Shanghai
CN
Qiming Zhou
originator
School of Life Science and Technology, Harbin Institute of Technology
Harbin
CN
Maxime Sweetlove
metadata author
Royal Belgian Institute of Natural Sciences
Brussels
BE
email: msweetlove@naturalsciences.be
Jianfeng He
user
The Key Laboratory for Polar Science, State Ocean Administration, Polar Research Institute of China
Shanghai
CN
Jianfeng He
administrative point of contact
The Key Laboratory for Polar Science, State Ocean Administration, Polar Research Institute of China
Shanghai
CN
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