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).
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Researchers should cite this work as follows:
Vick-Majors T, Priscu J, Amaral-Zettler L (2019): Microbiome (Archaea, Bacteria and Eukaryota) of lake Fryxell and lake Bonney (McMurdo Dry Valleys, Antarctica). v1.2. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=microbiome_mc_murdo_dry_valley_lakes_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.
This resource has been registered with GBIF, and assigned the following GBIF UUID: 4b44031f-2271-48a8-b3d9-43b90768e071. 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.
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Lake Fryxell and lake Bonney, McMurdo Dry Valleys, Antarctica
|Bounding Coordinates||South West [-77.72, 162.297], North East [-77.72, 163.146]|
Archaea were profiled by targeting the v6 region of the 16S ssu rRNA gene
Bacteria were profiled by targeting the v6 region of the 16S ssu rRNA gene
Eukaryota were profiled by targeting the v9 region of the 18S ssu rRNA gene
|Start Date / End Date||2007-11-22 / 2008-03-25|
No Description available
|Funding||Funding was provided by NSF DEB-0717390 (MIRADA-LTERS) and OPP-1115254, OPP-0838953, OPP-1027284 and OPP- 0839075. The Montana Space Grant Consortium provided additional funding.|
The personnel involved in the project:
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.
|Study Extent||Sampling occurred during the Austral summer and autumn in lake Fryxell and lake Bonney, Antarctica|
Method step description:
- DNA extraction protocols can be found at http://amarallab.mbl.edu.
- 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.
- 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.
- 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.