Marine bacterial, archaeal and eukaryotic microbial communities on the continental shelf of the western Antarctic Peninsula

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Última versión publicado por SCAR - Microbial Antarctic Resource System el mar 19, 2019 SCAR - Microbial Antarctic Resource System
Fecha de publicación:
19 de marzo de 2019
Licencia:
CC-BY 4.0

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Descripción

Amplicon sequencing dataset (454 pyrosequencing) of microbial Bacteria (16S ssu rRNA), Archaea (16S ssu rRNA) and Eukaryotes (18S ssu rRNA) in seawater on the continental shelf of the Antarctic Peninsula.

Versiones

La siguiente tabla muestra sólo las versiones publicadas del recurso que son de acceso público.

¿Cómo referenciar?

Los usuarios deben citar este trabajo de la siguiente manera:

Luria C, Ducklow H, Amaral-Zettler L (2019): Marine bacterial, archaeal and eukaryotic microbial communities on the continental shelf of the western Antarctic Peninsula. v1.1. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=marine_bacterial_archaeal_eukaryotic_microbial_communities_western_antarctic_peninsula&v=1.1

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. Esta obra está bajo una licencia Creative Commons de Atribución/Reconocimiento (CC-BY 4.0).

Registro GBIF

Este recurso ha sido registrado en GBIF con el siguiente UUID: 3a1bad58-879c-4e66-a780-2441ecf2fe3d.  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

Catherine Luria
  • Originador ●
  • Punto De Contacto
Brown University
Providence
US
Hugh Ducklow
  • Originador
Lamont-Doherty Earth Observatory of Columbia University
Palisades
US
Linda Amaral-Zettler
  • Originador ●
  • Punto De Contacto
Brown University
Providence
US
Maxime Sweetlove
  • Proveedor De Los Metadatos
Research assistant
Royal Belgian Institute of Natural Sciences
Rue Vautier 29
1000 Brussels
BE

Cobertura geográfica

Southern Ocean, Continental shelf off the Antarctic peninsula

Coordenadas límite Latitud Mínima Longitud Mínima [-63,97, -73,03], Latitud Máxima Longitud Máxima [41,64, -64,406]

Cobertura taxonómica

Bacteria (16S ssu rRNA gene, v6 region)

Dominio Bacteria (Bacteria)

Archaea (16S ssu rRNA gene, v6 region)

Dominio Archaea (Archaea)

Eukarya (18S ssu rRNA gene, v9 region)

Dominio Eukarya (Eukaryotes)

Cobertura temporal

Fecha Inicial / Fecha Final 2008-01-05 / 2008-01-27

Datos del proyecto

http://amarallab.mbl.edu

Título Microbial Inventory Research Across Diverse Aquatic Long Term Eco- logical Research Sites
Identificador MIRADA-LTERS
Fuentes de Financiación NSF DEB- 0717390 (MIRADA-LTERS) and NSF Awards OPP- 0217282 and 0823101 (Palmer LTER) from the Antarctic Organisms and Ecosystems Program
Descripción del área de estudio Palmer Antarctica LTER

Personas asociadas al proyecto:

Catherine Luria

Métodos de muestreo

Samples were drawn from 10 and 100 m depths from the northern and southern, inshore and offshore corners of the Palmer LTER sampling grid. We collected duplicate samples using a rosette equipped with 10 l Niskin bottles and conductivity, temperature, and depth (CTD) probes. To contrast summer and winter water, we also collected an additional Austral winter sample from 10 m depth at the northern, inshore sampling site in August 2008, using a submersible pump with silicone tubing. Water samples were filtered (1 to 2 l) through 0.2 μm SterivexTM filters (Millipore), preserved genomic DNA by flooding the 2 ml filter cartridge reservoir with sucrose lysis buffer (40 mM EDTA, 50 mM Tris-HCl, 0.75 M sucrose), and stored the filters at −80°C until processing.

Área de Estudio Sampling was conducted on the annual Palmer LTER (western coast of the Antarctic Peninsula) midsummer research cruise (January−February 2008)

Descripción de la metodología paso a paso:

  1. We extracted DNA using a Puregene DNA extraction kit (Qiagen), with modifications as described by Amaral-Zettler et al. (2009), and stored the DNA at −20°C until PCR amplification. Bacterial and archaeal V6 16S rRNA and eukaryotic V9 18S rRNA gene hypervariable regions were amplified as described previously (Huber et al. 2007, Amaral- Zettler et al. 2009), using ‘barcoded’ primers which al- lowed for multiplexed sequencing (see http://vamps. mbl.edu/resources/primers.php for details). For each sample, we pooled triplicate 50 μl PCR reaction products to minimize propagation of PCR errors and purified them using a QIAquick column-based purification kit (Qiagen). We sequenced purified amplicons on a 454 Genome Sequencer FLX (Roche) according to the manufacturer’s protocols using the LR70 kit.

Referencias bibliográficas

  1. Luria, C. M., Ducklow, H. W., & Amaral-Zettler, L. A. (2014). Marine bacterial, archaeal and eukaryotic diversity and community structure on the continental shelf of the western Antarctic Peninsula. Aquatic Microbial Ecology, 73(2), 107-121.

Metadatos adicionales