Microbial (Bacteria, 16S) Diversity in Antarctic marine sediments (Admiralty Bay and Bransfield Strait)

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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

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L’éditeur et détenteur des droits de cette ressource est SCAR - Microbial Antarctic Resource System. Ce travail est sous licence Creative Commons Attribution (CC-BY) 4.0.

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Cette ressource a été enregistrée sur le portail GBIF, et possède l'UUID GBIF suivante : 2afaca55-5c1e-456e-be07-53fc268035d7.  SCAR - Microbial Antarctic Resource System publie cette ressource, et est enregistré dans le GBIF comme éditeur de données avec l'approbation du Scientific Committee on Antarctic Research.

Mots-clé

Metadata

Contacts

Couverture géographique

King George Island, Antarctica

Couverture taxonomique

Bacteria 16S ssh rRNA

Couverture temporelle

Données sur le projet

Pas de description disponible

Les personnes impliquées dans le projet:

Méthodes d'échantillonnage

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.

Description des étapes de la méthode:

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).

Citations bibliographiques

1. Franco, D. C., Signori, C. N., Duarte, R. T., Nakayama, C. R., Campos, L. S., & Pellizari, V. H. (2017). High prevalence of gammaproteobacteria in the sediments of admiralty bay and north bransfield Basin, Northwestern Antarctic Peninsula. Frontiers in microbiology, 8, 153.

Métadonnées additionnelles