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Microorganisms (Bacteria, Archaea and phototroph eukaryotes) from Fildes Bay, King George Island, Antarctica

Citation

Moreno-Pino M, De la Iglesia R, Valdivia N, Hendriquez-Castilo C, Galan A, Diez B, Trefault N, Sweetlove M (2019). Microorganisms (Bacteria, Archaea and phototroph eukaryotes) from Fildes Bay, King George Island, Antarctica. Version 1.1. SCAR - Microbial Antarctic Resource System. Metadata dataset https://doi.org/10.15468/sr1hmq accessed via GBIF.org on 2023-09-28.

Description

Amplicon sequencing dataset (Illumina MiSeq and 454 pyrosequencing) of Bacteria and Archaea (16S ssu rRNA gene) and phototroph eukaryotes (16S chloroplast) from sea water in Fildes Bay, King George Island, Antarctica

Sampling Description

Study Extent

Water samples were taken at Fildes Bay, King George Island, Antarctica, on 7 and 8 February 2012

Sampling

Surface water samples (5 m depth) were collected with 5 L Niskin bottles from 17 different locations. Each location was assigned to one of the following four categories: Collins Glacier (‘C’ stations), Nelson Glacier (‘N’ stations), Fildes Bay (‘F’ stations) and Inner Bay (‘IB’ stations). Seawater samples (5 L) were prefiltered on board through 100 μm pore mesh and stored in acid-washed carboys and kept on dark until subsampling at the laboratory.

Method steps

  1. For photosynthetic eukaryote identification, plastidial 16S rRNA PCR products (in triplicates) were obtained using primer pair PLA491F–OXY1313, purified using Zymoclean kit (Zymo Research) and checked on an Agilent Bioanalzyer DNA1000 chip for the absence of primer dimers, and quantified using a PicoGreen dsDNA quantitation reagent (Invitrogen). Equal amount of purified PCR products were pooled for subsequent 454 pyrosequencing using a Roche GS-FLX Junior.
  2. For bacterial identification, general 16S rRNA PCR products (in triplicates) were obtained using primers 515Fseq and 806rcbc (Caporaso et al.2011) following conditions from Earth Microbiome Project (EMP) (Gilbert, Jansson and Knight 2014). Illumina primer constructs were obtained from EMP also. Amplicons were quantified using KAPA Library Quantification Kit (KAPA Biosystem) and sequenced using Illumina Miseq following Caporaso et al. (2012) protocol. 12 pM of qPCR quantified amplicons pool were sequenced using a 300 cycles Illumina Miseq kit.

Taxonomic Coverages

Bacteria and Archaea (16S ssu rRNA gene)
  1. Bacteria
    common name: Bacteria rank: domain
  2. Archaea
    common name: Archaea rank: domain
phototrophic eukaryotes, based on the chloroplast 16S ssu rRNA gene
  1. Eukaryota
    common name: algae rank: domain

Geographic Coverages

Fildes Bay, King George Island, Antarctica

Bibliographic Citations

  1. Moreno-Pino, M., De la Iglesia, R., Valdivia, N., Henríquez-Castilo, C., Galán, A., Díez, B., & Trefault, N. (2016). Variation in coastal Antarctic microbial community composition at sub-mesoscale: spatial distance or environmental filtering?. FEMS microbiology ecology, 92(7). - doi: 10.1093/femsec/ w088

Contacts

Mario Moreno-Pino
originator
Universidad Mayor
Santiago
CL
Rodrigo De la Iglesia
originator
Pontificia Universidad Catolica de Chile
Santiago
CL
Nelson Valdivia
originator
Universidad Australe de Chile
Valdivia
CL
Carlos Hendriquez-Castilo
originator
Pontificia Universidad Catolica de Chile
Santiago
CL
Alexander Galan
originator
Universidad Catolica de la Santisima Concepcion
Talcahuano
CL
Beatriz Diez
originator
Universidad Catolica de Chile
Santiago
CL
Nicole Trefault
originator
Universidad Mayor
Santiago
CL
Maxime Sweetlove
metadata author
position: Research assistent
Royal Belgian Institute of Natural Sciences
Rue Vautier 29
Brussels
1000
BE
email: msweetlove@naturalsciences.be
Mario Moreno-Pino
administrative point of contact
Universidad Mayor
Santiago
CL
Nicole Trefault
administrative point of contact
Universidad Mayor
Santiago
CL
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