Antarctic pack ice Bacterial (16S) communities

Последняя версия опубликована SCAR - Microbial Antarctic Resource System 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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Как оформить ссылку

Исследователи должны дать ссылку на эту работу следующим образом:

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

Права

Исследователи должны соблюдать следующие права:

Публикующей организацией и владельцем прав на данную работу является SCAR - Microbial Antarctic Resource System. This work is licensed under a Creative Commons Attribution (CC-BY) 4.0 License.

Регистрация в GBIF

Этот ресурс был зарегистрирован в GBIF, ему был присвоен следующий UUID: bd9de0e6-69c1-4ec6-b49b-fa6f84454163.  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

Кто является создателем ресурса:

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

Кто может ответить на вопросы о ресурсе:

Eeva Eronen-Rasimus
University of Helsink Helsink FI

Кем заполнены метаданные:

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

Кто еще связан с данным ресурсом:

User

Географический охват

Antarctica: Southern Ocean: Wedell Sea

Ограничивающие координаты Юг Запад [-67.949, -0.006], Север Восток [-61.526, 0.122]

Таксономический охват

Bacteria 16S ssu rRNA marker gene, v1-v3

Domain  Bacteria (Bacteria)

Временной охват

Дата начала / Дата окончания 2013-06-21 / 2013-07-26

Данные проекта

Описание отсутсвует

Название Antarctic pack ice Bacterial (16S) communities
Финансирование 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).

Исполнители проекта:

Eeva Eronen-Rasimus

Методы сбора

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.

Охват исследования 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.

Описание этапа методики:

  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.

Библиографические ссылки

  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.

Дополнительные метаданные

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