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

Dernière version Publié par SCAR - Microbial Antarctic Resource System le Mar 19, 2019 SCAR - Microbial Antarctic Resource System

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

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Comment citer

Les chercheurs doivent citer cette ressource comme suit:

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

Droits

Les chercheurs doivent respecter la déclaration de droits suivante:

L’éditeur et détenteur des droits de cette ressource est SCAR - Microbial Antarctic Resource System. This work is licensed under a Creative Commons Attribution (CC-BY) 4.0 License.

Enregistrement GBIF

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

Personne ayant créé cette ressource:

Diego Franco
Universidade de São Paulo São Paulo BR
Camila Signori
Universidade de São Paulo São Paulo BR
Rubens Duarte
Universidade Federal de Santa Catarina Florianópolis BR
Cristina Nakayama
Universidade Federal de São Paulo Diadema
Lucia Campos
Universidade Federal do Rio de Janeiro Rio de Janeiro BR
Vivian Pellizari
Universidade de São Paulo São Paulo BR

Personne pouvant répondre aux questions sur la ressource:

Diego Franco
Universidade de São Paulo São Paulo BR

Personne ayant renseigné les métadonnées:

Maxime Sweetlove
Research assistent
Royal Belgian Institute for Natural Sciences Rue Vautier 29 1000 Brussels

Autres personnes associées à la ressource:

Utilisateur

Couverture géographique

King George Island, Antarctica

Enveloppe géographique Sud Ouest [-62.293, -58.476], Nord Est [-62.08, -58.17]

Couverture taxonomique

Bacteria 16S ssh rRNA

Domain  Bacteria (Bacteria)

Couverture temporelle

Date de début / Date de fin 2008-12-01 / 2008-12-06

Données sur le projet

Pas de description disponible

Titre Microbial Diversity in Antarctic marine sediments
Financement This dataset was funded by the Brazilian Antarctic Program (PROANTAR), and the Brazilian National Council for Scientific and Technological Development – CNPq (MABIREH/IPY/CAML Project n. 520293/2006-1).

Les personnes impliquées dans le projet:

Diego Franco

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.

Etendue de l'étude 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.

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

Identifiants alternatifs 2afaca55-5c1e-456e-be07-53fc268035d7
https://ipt.biodiversity.aq/resource?r=antarctic_marine_sediment_microbes