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Bacteria on mummified seals in the Antarctic Dry Valleys
Citation
Tiao G, Lee C, McDonald I, Cowan D, Cary C (2019): Bacteria on mummified seals in the Antarctic Dry Valleys. v1.2. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=antarctic_dry_valley_mummified_seal_microbiome&v=1.2 https://doi.org/10.15468/o1km7d
Contact: Tiao, Grace

Access data
Archived data
Availability: Creative Commons License This dataset is licensed under a Creative Commons Attribution 4.0 International License.

Description
Amplicon dataset of Bacteria (16S ssu rRNA) living around mummified seal carcasses in the Antarctic Dry Valleys. more

Soil samples (>10 g each) were collected aseptically at a depth of 0.05m. Samples were stored in sterile plastic containers at −80 °C until analysis.

Study Extent: On 30 January 2006, a mummified crabeater seal was carried from its original resting site near Lake Miers (S 78°05′36″, E 163°51′22″), Miers Valley, Victoria Land, Antarctica, to a new site of similar geomorphology 20 m north. Samples for amplicon sequencing were taken from the original site before transportation (austral summer 2005), the new site before transportation (control, austral summer 2006), and the new site after incubation (austral summer 2009).

Method step description:

  1. 16S rRNA gene were generated using the primer pair Tx9 (5′-GGATTAGAWACCCBGGTAGTC-3′) and 1391R (5′-GACGGGCRGTGWGTRCA-3′). PCR was performed in triplicate and pooled to reduce stochastic variability between reactions. Each 30 μl reaction contained 5 or 20 ng of extracted community DNA, Pfx polymerase and platinum polymerase (0.5 U each; Invitrogen), 1× Pfx PCR buffer with Pfx enhancer, 0.2 mM dNTPs, 1 mM MgCl2, 0.02 mg ml−1 BSA, 0.8 μM of forward and reverse primer, and PCR-grade water. Thermal cycling conditions were 94 °C for 2 min; 18 or 24 cycles of 94 °C for 15 s, 55 °C for 30 s and 68 °C for 1 min; and 68 °C for 3 min.
  2. Amplicons were size-selected and purified using polyacrylamide gel electrophoresis before being prepared for pyrosequencing by Taxon Biosciences (Tiburon, CA, USA).

Scope
Keywords:
Terrestrial, Dna sequencing, Metadata, Antarctica, Victoria Land, McMurdo Dry Valleys, Bacteria

Geographical coverage
Antarctica, Victoria Land, McMurdo Dry Valleys [Marine Regions]

Temporal coverage
15 January 2005 - 15 January 2009

Taxonomic coverage
Bacteria [WoRMS]

Parameter
Molecular data

Contributors
University of Waikatodata creator
Tiao, Grace
Lee, Charles
McDonald, Ian
Cary, Stephen Craig
University of the Western Capedata creator
Cowan, Donald

Related datasets
Published in:
AntOBIS: Antarctic Ocean Biodiversity Information System
(Partly) included in:
RAS: Register of Antarctic Species

Dataset status: Completed
Data type: Metadata
Data origin: Research: field survey
Metadatarecord created: 2019-03-29
Information last updated: 2019-04-10
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