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Microbiome (Archaea, Bacteria and Eukaryota) of lake Fryxell and lake Bonney (McMurdo Dry Valleys, Antarctica)

Citation

Vick-Majors T, Priscu J, Amaral-Zettler L, Sweetlove M (2019). Microbiome (Archaea, Bacteria and Eukaryota) of lake Fryxell and lake Bonney (McMurdo Dry Valleys, Antarctica). Version 1.2. SCAR - Microbial Antarctic Resource System. Metadata dataset https://doi.org/10.15468/axqk7g accessed via GBIF.org on 2023-04-02.

Description

Amplicon sequencing dataset (454 pyrosequencing) of Archaea (16S), Bacteria (16S) and Eukaryote (18S) in the water column of lake Fryxell and Lake Bonney, in the McMurdo Dry valleys (Antarctica).

Sampling Description

Study Extent

Sampling occurred during the Austral summer and autumn in lake Fryxell and lake Bonney, Antarctica

Sampling

Duplicate samples were collected at depths of 6 m (bacterial and primary production maximum) and 9 m (chemocline; chlorophyll-a maximum) in lake Fryxell (2 November 2007 and 25 March 2008) and 13 m (chemocline; bacterial production, chlorophyll-a, primary production maximum) and 18 m (hypersaline, bottom of trophogenic zone) in lake Bonney (west Lobe; 30 November 2007 and 12 March 2008). Samples for DNA extraction were filtered onto 0.2-μM Sterivex filters (Millipore, Billerica, MA, USA) and stored with 2.0 ml of Puregene lysis buffer at −20 °C until further processing.

Method steps

  1. DNA extraction protocols can be found at http://amarallab.mbl.edu.
  2. The V6 hypervariable regions of Archaa and bacteria were amplified, while for Eukaryota, amplification of the V9 hypervariable region followed established protocols (Amaral-Zettler et al., 2009). We multiplex-sequenced the resulting amplicons using bar-coded primers (Huber et al., 2007; Amaral-Zettler et al., 2009) on a 454 Genome Sequencer FLX (Roche, Switzerland) using the manufacturer’s recommended protocol.

Taxonomic Coverages

Archaea were profiled by targeting the v6 region of the 16S ssu rRNA gene
  1. Archaea
    common name: Archaea rank: domain
Bacteria were profiled by targeting the v6 region of the 16S ssu rRNA gene
  1. Bacteria
    common name: Bacteria rank: domain
Eukaryota were profiled by targeting the v9 region of the 18S ssu rRNA gene
  1. Eukaryota
    common name: Eukaryotes rank: domain

Geographic Coverages

Lake Fryxell and lake Bonney, McMurdo Dry Valleys, Antarctica

Bibliographic Citations

  1. Vick-Majors, T. J., Priscu, J. C., & Amaral-Zettler, L. A. (2014). Modular community structure suggests metabolic plasticity during the transition to polar night in ice-covered Antarctic lakes. The ISME journal, 8(4), 778. -
  2. Xu, Y., Vick-Majors, T., Morgan-Kiss, R., Priscu, J. C., & Amaral-Zettler, L. (2014). Ciliate diversity, community structure, and novel taxa in lakes of the McMurdo Dry Valleys, Antarctica. The Biological Bulletin, 227(2), 175-190. -

Contacts

Trista Vick-Majors
originator
Montana State University
Bozeman
US
John Priscu
originator
Montana State University
Bozeman
US
Linda Amaral-Zettler
originator
he Josephine Bay Paul Center for Comparative Molecular Biology and Evolution
Woods Hole
US
Maxime Sweetlove
metadata author
position: Research assistent
Royal Belgian Institute of Natural Sciences
Rue Vautier 29
Brussels
1000
BE
email: msweetlove@naturalsciences.be
Trista Vick-Majors
administrative point of contact
Montana State University
Bozeman
US
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