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
Publication date:
19 March 2019
License:
CC-BY 4.0

Download the latest version of the metadata-only resource metadata as EML or RTF:

Metadata as an EML file download in English (13 KB)
Metadata as an RTF file download in English (11 KB)

Description

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

Versions

The table below shows only published versions of the resource that are publicly accessible.

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

Rights

Researchers should respect the following rights statement:

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.

Keywords

Metadata

Contacts

Trista Vick-Majors
  • Originator
Montana State University
Bozeman
US
Amanda Achberger
  • Originator
Louisiana State University
Baton Rouge
US
Pamela Santibanez
  • Originator
Montana State University
Bozeman
US
John Dore
  • Originator
Montana State University
Bozeman
US
Timothy Hodson
  • Originator
Northern Illinois University
DeKalb
US
Alexander Michaud
  • Originator
Montana State University
Bozeman
US
Brent Christner
  • Originator
Louisiana State University
Baton Rouge
US
Jill Mikucki
  • Originator
Middlebury College
Middlebury
US
Mark Skidmore
  • Originator
Montana State University
Bozeman
US
Ross Powell
  • Originator
Northern Illinois University
DeKalb
US
Peyton Adkins
  • Originator
Louisiana State University
Baton Rouge
US
Carlo Brabante
  • Originator
University of Venice
Venice
IT
Andrew Mitchell
  • Originator
Aberystwyth University
Aberystwyth
GB
Reed Scherer
  • Originator
Northern Illinois University
DeKalb
US
John Priscu
  • Originator
  • Point Of Contact
Montana State University
Bozeman
US
Maxime Sweetlove
  • Metadata Provider
Research assistent
Royal Belgian Institute of Natural Science
Rue Vautier 29
1000 Brussels

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