Microorganisms (Bacteria and Archaea) in the marine cavity beneath the McMurdo Ice Shelf, Antarctica

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

Amplicon sequencing dataset (Illumina MiSeq) of Bacteria and Archaea (16S) in the marine cavity beneath the McMurdo Ice Shelf, Antarctica

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How to cite

Researchers should cite this work as follows:

Vick-Majors T, Achberger A, Santibanez P, Dore J, Hodson T, Michaud A, Christner B, Mikucki J, Skidmore M, Powell R, Adkins P, Brabante C, Mitchell A, Scherer R, Priscu J (2019): Microorganisms (Bacteria and Archaea) in the marine cavity beneath the McMurdo Ice Shelf, Antarctica. v1.1. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=microbes_sub_ice_seawater_antarctica&v=1.1

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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: 4200a83c-9ff7-43e0-ae09-ef1211847673.  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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Metadata

Contacts

Who created the resource:

Trista Vick-Majors
Montana State University Bozeman US
Amanda Achberger
Louisiana State University Baton Rouge US
Pamela Santibanez
Montana State University Bozeman US
John Dore
Montana State University Bozeman US
Timothy Hodson
Northern Illinois University DeKalb US
Alexander Michaud
Montana State University Bozeman US
Brent Christner
Louisiana State University Baton Rouge US
Jill Mikucki
Middlebury College Middlebury US
Mark Skidmore
Montana State University Bozeman US
Ross Powell
Northern Illinois University DeKalb US
Peyton Adkins
Louisiana State University Baton Rouge US
Carlo Brabante
University of Venice Venice IT
Andrew Mitchell
Aberystwyth University Aberystwyth GB
Reed Scherer
Northern Illinois University DeKalb US
John Priscu
Montana State University Bozeman US

Who can answer questions about the resource:

John Priscu
Montana State University Bozeman US

Who filled in the metadata:

Maxime Sweetlove
Research assistent
Royal Belgian Institute of Natural Science Rue Vautier 29 1000 Brussels

Who else was associated with the resource:

User

Geographic Coverage

the marine cavity beneath the McMurdo Ice Shelf, Antarctica

Bounding Coordinates South West [-77.89, 167.008], North East [-77.89, 167.008]

Taxonomic Coverage

Bacteria and Archaea (16S ssu rRNA gene)

Domain  Bacteria (bacteria),  Archaea (Archaea)

Temporal Coverage

Start Date 2012-12-01

Project Data

No Description available

Title The Whillans Ice Stream Subglacial Access Research Drilling (WISSARD) project
Funding The Whillans Ice Stream Subglacial Access Research Drilling (WISSARD) project was funded by National Science Foundation grants (0838933, 0838896, 0838941, 0839142, 0839059, 0838885, 0838855, 0838763, 0839107, 0838947, 0838854, 0838764 and 1142123) from the Office of Polar Programs. Partial support was also provided by funds from NSF award 1023233, 1115245, the American Association of University Women Dissertation Fellowship, the NSF’s Graduate Research Fellowship Program (1247192; A.M.A.), the Chilean Fulbright-CONICYT Scholarship (P.S), the Italian National Antarctic Program, and fellowships from the NSF’s IGERT Program (0654336) and the Montana Space Grant Consortium.

The personnel involved in the project:

John Priscu

Sampling Methods

A discrete water sample for nucleic acid extraction was collected in situ at 850 m with a Large Volume Water Transfer System (WTS-LV; McLane Research Laboratories, East Falmouth, Massachusetts). This system was fitted with a stacked 143 mm diameter filter housing that allowed the sample to be size fractionated into 10 um, 3 um, and 0.2 um classes (Supor Membrane filters were used; Pall). This system allowed us to concentrate 295 L of seawater on 142 mm filters during a 4 h in situ deployment. An additional discrete water sample (300 mL) from 30 m was obtained for nucleic acid extraction from a 10 L Niskin bottle sample that was fil- tered through a 47 mm 0.2 um Supor membrane filter (Pall). Filters from the WTS-LV were preserved as described previ- ously (Christner et al. 2014) while the entire 47 mm filter from the 30 m sample was placed in a 7 mL cryovial and preserved with 7 mL of a solution of 40 mM EDTA pH 8.0, 50 mM Tris pH 8.3, and 0.73 M Sucrose to prevent cell lysis during storage.

Study Extent After drilling through the Ice sheet (56m), water samples were taken from the marine cavity beneath the McMurdo Ice Shelf, Antarctica

Method step description:

  1. Nucleic acids were extracted from the 10 um, 3 um, and 0.2 um filters from 850 m and the 0.2 um filter from 30 m using a MO BIO PowerWater DNA Isolation Kit according to the manufactures instructions. The V4 hypervariable region of the small subunit (SSU) rRNA gene was amplified using the primers 515F and 806R (Caporaso et al. 2012) and sequenced on an Illumina MiSeq as described by Christner et al. (2014).

Bibliographic Citations

  1. Vick-Majors T. J., Achberger A., Santibáñez P., Dore J. E., Hodson T., Michaud A. B., et al. (2016). Biogeochemistry and microbial diversity in the marine cavity beneath the McMurdo Ice Shelf, Antarctica. Limnol. Oceanogr. 61 572–586. 10.1002/lno.10234  doi: 10.1002/lno.10234

Additional Metadata

Alternative Identifiers 4200a83c-9ff7-43e0-ae09-ef1211847673
https://ipt.biodiversity.aq/resource?r=microbes_sub_ice_seawater_antarctica