Antarctic pack ice Bacterial (16S) communities

Última versión Publicado por SCAR - Microbial Antarctic Resource System en Mar 19, 2019 SCAR - Microbial Antarctic Resource System

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

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¿Cómo referenciar?

Los usuarios deben citar este trabajo de la siguiente manera:

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

Derechos

Los usuarios deben respetar los siguientes derechos de uso:

El publicador y propietario de los derechos de este trabajo es SCAR - Microbial Antarctic Resource System. This work is licensed under a Creative Commons Attribution (CC-BY) 4.0 License.

Registro GBIF

Este recurso ha sido registrado en GBIF con el siguiente UUID: bd9de0e6-69c1-4ec6-b49b-fa6f84454163.  SCAR - Microbial Antarctic Resource System publica este recurso, y está registrado en GBIF como un publicador de datos avalado por Scientific Committee on Antarctic Research.

Palabras Clave

Metadata

Contactos

¿Quién creó el recurso?:

Eeva Eronen-Rasimus
University of Helsink Helsink FI
Anne-Mari Luhtanen
University of Helsink Helsink FI
Janne-Markus Rintala
University of Helsink Helsink FI
Bruno Delille
Université de Liège Liège BE
Gerhard Dieckmann
Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research, Bremerhaven DE
Antti Karkman
University of Helsink Helsink FI
Jean-Louis Tison
Université Libre de Bruxelles Campus du Solbosch CP160/03, avenue F.D. Roosevelt 50 1050 Brussels

¿Quién puede resolver dudas acerca del recurso?:

Eeva Eronen-Rasimus
University of Helsink Helsink FI

¿Quién documentó los metadatos?:

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

¿Quién más está asociado con el recurso?:

Usuario

Cobertura Geográfica

Antarctica: Southern Ocean: Wedell Sea

Coordenadas límite Latitud Mínima Longitud Mínima [-67.949, -0.006], Latitud Máxima Longitud Máxima [-61.526, 0.122]

Cobertura Taxonómica

Bacteria 16S ssu rRNA marker gene, v1-v3

Dominio  Bacteria (Bacteria)

Cobertura Temporal

Fecha Inicial / Fecha Final 2013-06-21 / 2013-07-26

Datos del Proyecto

No hay descripción disponible

Título Antarctic pack ice Bacterial (16S) communities
Fuentes de Financiación 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).

Personas asociadas al proyecto:

Eeva Eronen-Rasimus

Métodos de Muestreo

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.

Área de Estudio 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.

Descripción de la metodología paso a paso:

  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.

Referencias Bibliográficas

  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.

Metadatos Adicionales

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