Antarctic pack ice Bacterial (16S) communities

Dernière version Publié par SCAR - Microbial Antarctic Resource System le mars 19, 2019 SCAR - Microbial Antarctic Resource System
Date de publication:
19 mars 2019
Licence:
CC-BY 4.0

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Description

Amplicon sequencing dataset of Bacterial communities (16S ssu rRNA gene) in pack ice from the Southern Ocean, near Antarctica.

Versions

Le tableau ci-dessous n'affiche que les versions publiées de la ressource accessibles publiquement.

Comment citer

Les chercheurs doivent citer cette ressource comme suit:

Eronen-Rasimus E, Luhtanen A, Rintala J, Delille B, Dieckmann G, Karkman A, Tison J (2018): Antarctic pack ice Bacterial (16S) communities. v1.2. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=antarctic_pack_ice_bacterial_communities&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. Ce travail est sous licence Creative Commons Attribution (CC-BY) 4.0.

Enregistrement GBIF

Cette ressource a été enregistrée sur le portail GBIF, et possède l'UUID GBIF suivante : bd9de0e6-69c1-4ec6-b49b-fa6f84454163.  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

Eeva Eronen-Rasimus
  • Créateur
  • Personne De Contact
University of Helsink
Helsink
FI
Anne-Mari Luhtanen
  • Créateur
University of Helsink
Helsink
FI
Janne-Markus Rintala
  • Créateur
University of Helsink
Helsink
FI
Bruno Delille
  • Créateur
Université de Liège
Liège
BE
Gerhard Dieckmann
  • Créateur
Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research,
Bremerhaven
DE
Antti Karkman
  • Créateur
University of Helsink
Helsink
FI
Jean-Louis Tison
  • Créateur
Université Libre de Bruxelles
Campus du Solbosch CP160/03, avenue F.D. Roosevelt 50
1050 Brussels
Maxime Sweetlove
  • Fournisseur Des Métadonnées
Research assistent
Royal Belgian Istitute for Natural Sciences
Rue Vautier 29
1000 Brussels

Couverture géographique

Antarctica: Southern Ocean: Wedell Sea

Enveloppe géographique Sud Ouest [-67,949, -0,006], Nord Est [-61,526, 0,122]

Couverture taxonomique

Bacteria 16S ssu rRNA marker gene, v1-v3

Domain Bacteria (Bacteria)

Couverture temporelle

Date de début / Date de fin 2013-06-21 / 2013-07-26

Données sur le projet

Pas de description disponible

Titre Antarctic pack ice Bacterial (16S) communities
Financement The creation of this dataset was supported by the Walter and Andrée de Nottbeck Foundation, Academy of Finland and the Belgian Science Policy (Bigsouth project, SD/CA/05).

Les personnes impliquées dans le projet:

Eeva Eronen-Rasimus

Méthodes d'échantillonnage

The ice cores were drilled with a trace-metal-clean (electropolished steel) ice auger, 14 cm in diameter. Two ice cores were collected and pooled at each station for the microbiological analyses. We emphasised careful sampling and subsequent sample processing to avoid contamination. The ice cores collected were cut with an ethanol-wiped handsaw into two to seven pieces, depending on the ice thickness (each horizon 10–30 cm), crushed and placed in sterile plastic containers at 4 °C over night in darkness after which the rest of the ice was quickly melted in a water bath with constant stirring. The melted samples were immediately filtered after becoming fully melted.

Etendue de l'étude The samples were collected from 10 pack-ice stations along the Weddell and Lazarev Seas during the Antarctic Winter Ecosystem Climate Study (AWECS, leg ANT-XXIX/6)-expedition aboard the R/V Polarstern during the austral winter in June–July 2013.

Description des étapes de la méthode:

  1. For the DNA extractions, approximately 500 ml of the melted sea-ice were filtered onto sterile 0.22-μm membrane filters (Ø 47 mm; Whatman GE Healthcare, Little Chalfont, Kent, UK) and frozen in liquid nitrogen and later transferred to –80 °C.
  2. The bacterial community DNA was extracted from the filters with a PowerSoil DNA Isolation Kit (Mo Bio Laboratories Inc, Carlsbad, CA, USA), as described by Eronen-Rasimus et al. (2014), 6 months after the cruise. In addition to the samples, negative controls without the sample were extracted.
  3. The 16S ribosomal RNA gene region from V1 to part of the V3 was amplified with a polymerase chain reaction, using the universal bacterial primers F8 and R492. A two-step polymerase chain reaction and Illumina MiSeq (Illumina Inc, San Diego, CA, USA) paired-end multiplex sequencing were performed at the Institute of Biotechnology, University of Helsinki, Finland.

Citations bibliographiques

  1. Eronen-Rasimus, E., Luhtanen, A. M., Rintala, J. M., Delille, B., Dieckmann, G., Karkman, A., & Tison, J. L. (2017). An active bacterial community linked to high chl-a concentrations in Antarctic winter-pack ice and evidence for the development of an anaerobic sea-ice bacterial community. The ISME Journal, 11(10), 2345.

Métadonnées additionnelles

Identifiants alternatifs bd9de0e6-69c1-4ec6-b49b-fa6f84454163
https://ipt.biodiversity.aq/resource?r=antarctic_pack_ice_bacterial_communities