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Microbial (Bacteria, 16S) Diversity in Antarctic marine sediments (Admiralty Bay and Bransfield Strait)
Citatie
Franco D, Signori C, Duarte R, Nakayama C, Campos L, Pellizari V (2018): Microbial (Bacteria, 16S) Diversity in Antarctic marine sediments (Admiralty Bay and Bransfield Strait). v1.2. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=antarctic_marine_sediment_microbes&v=1.2 https://doi.org/10.15468/sdqgny
Contact: Franco, Diego

Toegang tot data
Gearchiveerde data
Beschikbaarheid: Creative Commons License Deze dataset valt onder een Creative Commons Naamsvermelding 4.0 Internationaal-licentie.

Beschrijving
Amplicon dataset of Bacteria (16S ssh rRNA marker gene) found Antarctic marine sediments (Admiralty Bay and Bransfield Strait), sampled in December 2008. meer

In total, 15 samples of marine sediments were collected using a Mini Box Corer (MBC) at different depths. The top 5 cm of sediments were transferred to sterile Whirl-Pack sample bags (Nasco, WI, USA) and stored frozen onboard (-20°C). Samples were shipped to the University of São Paulo (USP) after 4 months of sampling.
Study Extent: Surface sediment samples were collected along a bathymetric gradient in King George Island (stations 1–9, depths ranging from 100 to 502 m) and NBB – Bransfield Strait (stations 10–15, depths 693–1,147 m), located in the Northwestern Antarctic Peninsula. Sampling was conducted by the Brazilian Navy vessel NApOc Ary Rongel during the austral summer, December 2008.
Method step description:
  1. Genomic DNA was extracted from 0.25 g of surface sediment in quadruplicate using a PowerSoil DNA Kit (MoBio, Carlsbad, CA, USA), according to the manufacturer’s instructions. Microbial 16S rRNA gene fragments were amplified using a set of primers designed by adding a 10-nucleotide barcode to the forward primer, 519F, (5′-CAGCMGCCGCGGTAATWC-3′) and reverse primer 1068R (5′-CTGACGRCRGCCATGC-3′). The amplification reaction was carried out using the Accuprime pfx SuperMix (Thermo Scientific, USA) according to the manufacturer. PCR was performed with a thermal cycler (Thermo Scientific, USA) under the following conditions: 95°C for 5 min, 26 cycles of 95°C for 15 s, 59°C for 30 s and 68°C for 1 min. The PCR products were purified by using a DNA clean & concentrator kit (Zymo Research, USA).
  2. The amplicons from each sample were mixed at equimolar concentrations and then sequenced using GSFLX titanium instruments and reagents (Roche 454, Life Sciences, USA) at the Center for Advanced Technologies in Genomics (University of São Paulo, Brazil).

Scope
Kernwoorden:
Marien/Kust, Dna sequencing, Metadata, PSW, Antarctic Penninsula, Admiralty Bay, PSW, Antarctica, Bransfield Strait, Bacteria

Geografische spreiding
PSW, Antarctic Penninsula, Admiralty Bay [Marine Regions]
PSW, Antarctica, Bransfield Strait [Marine Regions]

Spreiding in de tijd
1 December 2008 - 6 December 2008

Taxonomic coverage
Bacteria [WoRMS]

Parameter
Moleculaire data

Bijdrage door
University of São Paulo (USP), meerdata creator
Federal University of Santa Catarina (UFSC), meerdata creator
Universidade Federal de São Paulo (UNIFESP), meerdata creator
Universidade Federal do Rio de Janeiro; Departamento de Zoologia, meerdata creator

Gerelateerde datasets
Gepubliceerd in:
AntOBIS: Antarctic Ocean Biodiversity Information System, meer
(Gedeeltelijk) opgenomen in:
RAS: Register of Antarctic Species, meer

Dataset status: Afgelopen
Data type: Meta database
Data oorsprong: Onderzoek: veldonderzoek
Metadatarecord aangemaakt: 2019-04-03
Informatie laatst gewijzigd: 2019-04-10
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