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Bacterial diversity in closed cryoconite holes in Southern Victoria Land (Antarctica)

Última versión Publicado por SCAR - Microbial Antarctic Resource System en 19 de marzo de 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 of that profiled Bacteria (16S ssu rRNA gene) in different closed cryoconite holes on the Diamond Glacier and Koettliz Glacier (Southern Victoria Land, Antarctica).

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:

Webster-Brown J, Hawes I, Jungblut A, Wood S, Christenson H (2019): Bacterial diversity in closed cryoconite holes in Southern Victoria Land (Antarctica). v1.2. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=bacteria_in_closed_cryoconite_holes_antarctica&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. Este trabajo está autorizado bajo una Licencia Creative Commons Atribución/Reconocimiento 4.0 Internacional (CC-BY) 4.0.

Registro GBIF

Este recurso ha sido registrado en GBIF con el siguiente UUID: f03a9318-a568-433a-9c5d-db0b88b7e2a4.  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?:
-

Jenny Webster-Brown
University of Canterbury
Christchurch
NZ
Ian Hawes
University of Canterbury
Christchurch
NZ
Anne Jungblut
Natural History Museum
London
GB
Susanna Wood
University of Waikato
Hamilton
NZ
Hannah Christenson
University of Canterbury
Christchurch
NZ

¿Quién puede resolver dudas acerca del recurso?:

Jenny Webster-Brown
University of Canterbury
Christchurch
NZ

¿Quién documentó los metadatos?:
-

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

¿Quién más está asociado con el recurso?:

Usuario

Cobertura geográfica

Diamind and Koettliz Glaciers (Southern Victoria Land, Antarctica)

Coordenadas límite Latitud Mínima Longitud Mínima [-79,5, 159], Latitud Máxima Longitud Máxima [-78,08, 165,03]

Cobertura taxonómica

Bacteria were profiled based on amplicon sequencing of the 16S ssu rRNA gene

Dominio Bacteria (Bacteria)

Métodos de muestreo

Access through the ice lid was accomplished using a 50-mm diameter Kovacs ice drill, which was cleaned between each hole with antibacterial wipes. Water samples were collected directly into three 60-mL centrifuge tubes for determination of major ions and isotopes, using a manual vacuum apparatus. A sample (1 L) was collected by vacuum into an acid-washed PVC bottle. A subsample (100 mL) filtered (Whatman GF/F) into an acid-washed polyethylene bottle and frozen for later nutrient analysis.

Área de Estudio Cryoconite holes were sampled in the austral summer (December–January), during Antarctic field seasons between2010 and 2013 at the Koettlitz Glacier and Diamond Glacier (Southern Victoria Land, Antarctica). Only cryoconite holes with a diameter of greater than 30 cm (which were typically also greater than 35 cm deep) routinely contained liquid water, and were targeted for sampling. Selection was based on replicate N+1 being the next encountered appropriately sized closed cryoconite hole encountered in a random direction from replicate N.

Descripción de la metodología paso a paso:

  1. DNA was extracted from sediment using the MoBio Power Soil kit (USA). Biosystems, USA). A region of the 16S rRNA gene covering the V3 and 4 sections was ampli ed by PCR (iCycler; Biorad) using bacterial-speci c primers 515F and 806R (Caporaso et al. 2011). PCR reactions were performed in 50 μL volumes with the reaction mixture containing; 45 μL of Platinu PCR SuperMix High Fidelity (Life Technologies, USA), 10 μM of each primer, and 10–20 ng of template DNA. The reaction mix- ture was held at 94◦C for 2 min followed by 27 cycles of 94◦C for 30 s, 54◦C for 30 s, 68◦C for 45 s, with a nal extension step at 68◦C for 5 min. PCR products were puri ed (Agencour AMPur XP Kit; Beckman Coulter, USA), quanti ed (Qubit 20 Fluorometer, Life Technologies, USA), diluted to 1 ng μL−1 and submitted to New Zealand Genomics Limited (Auckland, New Zealand) for library preparation. Libraries were sequenced on a MiSeq Illumina platform (2 × 250 reads).

Referencias bibliográficas

  1. Webster-Brown, J. G., Hawes, I., Jungblut, A. D., Wood, S. A., & Christenson, H. K. (2015). The effects of entombment on water chemistry and bacterial assemblages in closed cryoconite holes on Antarctic glaciers. FEMS microbiology ecology, 91(12). https://doi.org/10.1093/femsec/fiv144

Metadatos adicionales

Identificadores alternativos f03a9318-a568-433a-9c5d-db0b88b7e2a4
https://ipt.biodiversity.aq/resource?r=bacteria_in_closed_cryoconite_holes_antarctica