Microbial communities (Eukaryotes and Bacteria) of transiently wetted vs. arid Antarctic Dry Valley soils
Citation
Niederberger T, Sohm J, Gunderson T, Parker A, Tirindelli J, Capone D, Carpenter E, Cary S, Sweetlove M (2019). Microbial communities (Eukaryotes and Bacteria) of transiently wetted vs. arid Antarctic Dry Valley soils. Version 1.2. SCAR - Microbial Antarctic Resource System. Metadata dataset https://doi.org/10.15468/y7hujy accessed via GBIF.org on 2024-09-01.Description
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.Sampling Description
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.Sampling
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.Method steps
- 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.
- 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).
Taxonomic Coverages
Eukaryote (18S ssu rRNA marker gene) and Bacterial (16S ssu rRNA marker gene) microorganisms
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Eukaryotacommon name: Eukaryotes rank: domain
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Bacteriacommon name: Bacteria rank: domain
Geographic Coverages
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.
Bibliographic Citations
- 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. -
- 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. -
Contacts
Thomas Niederbergeroriginator
University of Delaware
Lewes
US
Jill Sohm
originator
University of Southern California
Los Angeles
US
Troy Gunderson
originator
University of Southern California
Los Angeles
US
Alexander Parker
originator
San Francisco State Universit
Tiburon
US
Joëlle Tirindelli
originator
San Francisco State Universit
Tiburon
US
Douglas Capone
originator
University of Southern California
Los Angeles
US
Edward Carpenter
originator
San Fransisco State University
Tiburon
US
Stephen Cary
originator
University of Delaware
Lewes
US
Maxime Sweetlove
metadata author
position: Research assistent
Royal Belgian Institute for Natural Sciences
Rue Vautier 29
Brussels
1000
BE
email: msweetlove@naturalsciences.be
Thomas Niederberger
administrative point of contact
University of Delaware
Lewes
US
Stephen Cary
administrative point of contact
University of Delaware
Lewes
US