ITS samples from the air and snow of Livingston Island
Citation
Rosa L H, Pinto O H B, Santl-Temkiv T, Convey P, Carvalho-Silva M, Rosa C A, Camara P, Sweetlove M (2021). ITS samples from the air and snow of Livingston Island. SCAR - Microbial Antarctic Resource System. Metadata dataset https://doi.org/10.15468/ahvmcd accessed via GBIF.org on 2024-08-18.Description
Snow (n=2) and air (n=1) samples from Livingston Island (Antarctica) were analyzed for the presence of Fungi using amplicon sequencing techniques (Illumina MiSeq, ITS2 marker gene).Purpose
Raw DNA sequence dataSampling Description
Study Extent
Air and snow samples were collected at Punta Polaca (62°40′16″ S; 60°22′43″ W), Hurd Peninsula, Livingston Island, South Shetland Islands, near to the Spanish station Juan Carlos I in March 2019.Sampling
Two air samples were collected with a high flow glass impinger following Šantl-Temkiv et al. The chamber was filled with 2 L of sampling liquid (ddH2O) and the sampler was run for 5 min, so that the liquid came in contact with the entire chamber, after which 0.5 L of the sampling liquid was removed, stored as a control, and analyzed along with the samples. The resulting solution was filtered directly on the Sterivex filter units for the air. Air was collected over c. 5 h on March 11th 2019. In addition, the two separate air DNA extractions were combined together in order to increase DNA yield. Two freshly deposited snow samples were collected on March 20th 2019 at the same site using a sterilized shovel. Both pairs of samples were separately combined in order to increase DNA yield. Snow was melted at room temperature, under strictly sterile conditions, for 24 h in the laboratory at Juan Carlos I Station and then filtered using Sterivex filters.Quality Control
The control represented a field blank to certify that the samples were not contaminated by external organisms.Method steps
- Total DNA was extracted from environmental samples using the Qiagen Power Soil Kit (Qiagen, USA) following the manufacturer’s instructions. Extracted DNA was used as template for generating PCR amplicons. The internal transcribed spacer 2 (ITS2) of the nuclear ribosomal DNA was used as a DNA barcode for molecular species identification. PCR amplicons were generated using the universal primers ITS3 and ITS4 and were sequenced by high-throughput sequencing at Macrogen Inc. (South Korea) on an Illumina MiSeq sequencer, using the MiSeq Reagent Kit v3 (600-cycle) following the manufacturer’s protocol.
Taxonomic Coverages
Geographic Coverages
Antarctica: Livingston Island, near Spanish Juan Carlos I station
Bibliographic Citations
- Rosa, L. H., Pinto, O. H. B., Šantl-Temkiv, T., Convey, P., Carvalho-Silva, M., Rosa, C. A., & Câmara, P. E. (2020). DNA metabarcoding of fungal diversity in air and snow of Livingston Island, South Shetland Islands, Antarctica. Scientific reports, 10(1), 1-11. -
Contacts
Luis Hendrique Rosaoriginator
Universidade Federal de Minas Gerais
BR
Otavo Henrique Bezzera Pinto
originator
BR
Tina Santl-Temkiv
originator
DK
Peter Convey
originator
GB
Micheline Carvalho-Silva
originator
BR
Carlos Augusto Rosa
originator
BR
Paulo Camara
originator
BR
Maxime Sweetlove
metadata author
Royal Belgian Institute of Natural Sciences
Brussels
BE
email: msweetlove@naturalsciences.be
Luiz Hendrique Rosa
administrative point of contact
Universidade Federal de Minas Gerais
BR