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

Последняя версия опубликовано SCAR - Microbial Antarctic Resource System мар 19, 2019 SCAR - Microbial Antarctic Resource System
Дата публикации:
19 марта 2019 г.
Опубликовано:
SCAR - Microbial Antarctic Resource System
Лицензия:
CC-BY 4.0

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Описание

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).

Версии

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Как оформить ссылку

Исследователи должны дать ссылку на эту работу следующим образом:

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

Права

Исследователи должны соблюдать следующие права:

Публикующей организацией и владельцем прав на данную работу является SCAR - Microbial Antarctic Resource System. Эта работа находится под лицензией Creative Commons Attribution (CC-BY 4.0).

Регистрация в GBIF

Этот ресурс был зарегистрирован в GBIF, ему был присвоен следующий UUID: f03a9318-a568-433a-9c5d-db0b88b7e2a4.  SCAR - Microbial Antarctic Resource System отвечает за публикацию этого ресурса, и зарегистрирован в GBIF как издатель данных при оподдержке Scientific Committee on Antarctic Research.

Ключевые слова

Metadata

Контакты

Jenny Webster-Brown
  • Originator
  • Point Of Contact
University of Canterbury
Christchurch
NZ
Ian Hawes
  • Originator
University of Canterbury
Christchurch
NZ
Anne Jungblut
  • Originator
Natural History Museum
London
GB
Susanna Wood
  • Originator
University of Waikato
Hamilton
NZ
Hannah Christenson
  • Originator
University of Canterbury
Christchurch
NZ
Maxime Sweetlove
  • Metadata Provider
Research assistent
Royal Belgian Institute of Natural Sciences
Rue Vautier 29
1000 Brussels
BE

Географический охват

Diamind and Koettliz Glaciers (Southern Victoria Land, Antarctica)

Ограничивающие координаты Юг Запад [-79,5, 159], Север Восток [-78,08, 165,03]

Таксономический охват

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

Domain Bacteria (Bacteria)

Методы сбора

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.

Охват исследования 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.

Описание этапа методики:

  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).

Библиографические ссылки

  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

Дополнительные метаданные

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