Microbial communities (Eukaryotes and Bacteria) of transiently wetted vs. arid Antarctic Dry Valley soils

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

Amplicon sequencing dataset of Bacteria (16S ssu rRNA gene) and Eukaryotes (18S ssu rRNA gene) from wet and dry soil samples near Miers stream, Nostoc pond, Miers lake and Buddha lake, in the McMurdo Dry Valleys, Antarctica.

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How to cite

Researchers should cite this work as follows:

Niederberger T, Sohm J, Gunderson T, Parker A, Tirindelli J, Capone D, Carpenter E, Cary S (2019): Microbial communities (Eukaryotes and Bacteria) of transiently wetted vs. arid Antarctic Dry Valley soils. v1.2. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=eukaryotes_bacteria_in_wetted_vs_arid_antarctic_dry_valley_soils&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.

GBIF Registration

This resource has been registered with GBIF, and assigned the following GBIF UUID: 55ed602c-dc49-41d2-a860-4a626ba85ba8.  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:

Thomas Niederberger
University of Delaware Lewes US
Jill Sohm
University of Southern California Los Angeles US
Troy Gunderson
University of Southern California Los Angeles US
Alexander Parker
San Francisco State Universit Tiburon US
Joëlle Tirindelli
San Francisco State Universit Tiburon US
Douglas Capone
University of Southern California Los Angeles US
Edward Carpenter
San Fransisco State University Tiburon US
Stephen Cary
University of Delaware Lewes US

Who can answer questions about the resource:

Thomas Niederberger
University of Delaware Lewes US
Stephen Cary
University of Delaware Lewes US

Who filled in the metadata:

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

Who else was associated with the resource:

User

Geographic Coverage

Sample pairs were taken from wet and dry soil near Miers stream, Nostoc pond, Miers lake and Buddha lake, in the McMurdo Dry Valleys, Antarctica.

Bounding Coordinates South West [-78.096, 163.747], North East [-78.06, 163.832]

Taxonomic Coverage

Eukaryote (18S ssu rRNA marker gene) and Bacterial (16S ssu rRNA marker gene) microorganisms

Domain  Eukaryota (Eukaryotes),  Bacteria (Bacteria)

Temporal Coverage

Start Date / End Date 2009-01-18 / 2009-12-08

Project Data

No Description available

Title Microbial communities (Eukaryotes and Bacteria) of transiently wetted vs. arid Antarctic Dry Valley soils
Funding This research was supported by National Science Foundation Grants ANT 0739633, ANT 0739640, and ANT 0739648 and 0944560.

The personnel involved in the project:

Douglas Capone
Edward Carpenter
Stephen Cary

Sampling Methods

Soil samples were collected aseptically at each site into sterile Whirl-Pak bags using a sterile metal spatula and kept frozen during transport to the laboratory.

Study Extent Samples were collected from the Miers Valley region of Antarctica during the summer months, including: MS1, Miers Stream 1 (S78°05.748′, E163°44.822′), a site located at the edge of the runoff stream flowing from Miers Glacier into Miers Lake in Miers Valley; ML1, Miers Lake 1 (S78°05.615′, E163°49.912′) located on the north side of Miers Lake; BL, Baby Buddha Lake (S78°03.621′, E163°46.463′), and NP, Nostoc Pond (S78°03.920′, E163°46.497′) adjacent to lake systems located over the north ridge of Miers Valley.

Method step description:

  1. DNA was isolated from homogenized soil samples using the PowersoilTM DNA isolation kit (MOBIO) as per manufacturer’s instructions with all terminal-restriction fragment length polymorphisms (T-RFLPs) based on pooled triplicate PCR assays.
  2. Tagged amplicon pyrosequencing of the V1 to V3 region of the 16S and 18S rRNA gene (primer pairs 28F-519R and euk7F-euk570R, respectively) was performed on DNA extracts by the Research and Testing Laboratories located in Lubbock, TX (www.researchandtesting.com) using FLX technology (Roche).

Bibliographic Citations

  1. Niederberger, T. D., Sohm, J. A., Gunderson, T. E., Parker, A. E., Tirindelli, J., Capone, D. G., ... & Cary, S. C. (2015). Microbial community composition of transiently wetted Antarctic Dry Valley soils. Frontiers in microbiology, 6, 9.
  2. Niederberger, T. D., Sohm, J. A., Tirindelli, J., Gunderson, T., Capone, D. G., Carpenter, E. J., & Cary, S. C. (2012). Diverse and highly active diazotrophic assemblages inhabit ephemerally wetted soils of the Antarctic Dry Valleys. FEMS microbiology ecology, 82(2), 376-390.

Additional Metadata

Alternative Identifiers 55ed602c-dc49-41d2-a860-4a626ba85ba8
https://ipt.biodiversity.aq/resource?r=eukaryotes_bacteria_in_wetted_vs_arid_antarctic_dry_valley_soils