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

Versão mais recente published by SCAR - Microbial Antarctic Resource System on mar 19, 2019 SCAR - Microbial Antarctic Resource System
Publication date:
19 de Março de 2019
Licença:
CC-BY 4.0

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Descrição

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).

Versões

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Como citar

Pesquisadores deveriam citar esta obra da seguinte maneira:

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

Direitos

Pesquisadores devem respeitar a seguinte declaração de direitos:

O editor e o detentor dos direitos deste trabalho é SCAR - Microbial Antarctic Resource System. This work is licensed under a Creative Commons Attribution (CC-BY 4.0) License.

GBIF Registration

Este recurso foi registrado no GBIF e atribuído ao seguinte GBIF UUID: f03a9318-a568-433a-9c5d-db0b88b7e2a4.  SCAR - Microbial Antarctic Resource System publica este recurso, e está registrado no GBIF como um publicador de dados aprovado por Scientific Committee on Antarctic Research.

Palavras-chave

Metadata

Contatos

Jenny Webster-Brown
  • Originador
  • Ponto De Contato
University of Canterbury
Christchurch
NZ
Ian Hawes
  • Originador
University of Canterbury
Christchurch
NZ
Anne Jungblut
  • Originador
Natural History Museum
London
GB
Susanna Wood
  • Originador
University of Waikato
Hamilton
NZ
Hannah Christenson
  • Originador
University of Canterbury
Christchurch
NZ
Maxime Sweetlove
  • Provedor Dos Metadados
Research assistent
Royal Belgian Institute of Natural Sciences
Rue Vautier 29
1000 Brussels
BE

Cobertura Geográfica

Diamind and Koettliz Glaciers (Southern Victoria Land, Antarctica)

Coordenadas delimitadoras Sul Oeste [-79,5, 159], Norte Leste [-78,08, 165,03]

Cobertura Taxonômica

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

Domínio Bacteria (Bacteria)

Métodos de Amostragem

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 Estudo 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.

Descrição dos passos do método:

  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).

Citações 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

Metadados Adicionais

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