Bacteria and Archaea biodiversity in Arctic terrestrial ecosystems affected by climate change in Northern Siberia

版本 1.4 published by SCAR - Microbial Antarctic Resource System on 六月 13, 2019 SCAR - Microbial Antarctic Resource System
發布日期:
2019年6月13日
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CC-BY-NC 4.0

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說明

Methane emissions from aquatic and terrestrial ecosystems play a crucial role in global warming, which is particularly affecting high-latitude ecosystems. As major contributors to methane emissions in natural environments, the microbial communities involved in methane production and oxidation deserve a special attention. Microbial diversity and activity are expected to be strongly affected by the already observed (and further predicted) temperature increase in high-latitude ecosystems, eventually resulting in disrupted feedback methane emissions. The METHANOBASE project has been designed to investigate the intricate relations between microbial diversity and methane emissions in Arctic, Subarctic and Subantarctic ecosystems, under natural (baseline) conditions and in response to simulated temperature increments. We report here a small subunit ribosomal RNA (16S rRNA) analysis of lake, peatland and mineral soil ecosystems.

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Barret M, Thalasso F, Gandois L, Martinez Cruz K, Sepulveda Jaureguy A, Lavergne C, Teisserenc R, Aguilar P, Gerardo-Nieto O, Etchebehere C, Martins B, Fochesatto J, Tananaev N, Svenning M, Seppey C, Tveit A, Chamy R, Soledad Astorga-España M, Mansilla A, Van de Putte A, Sweetlove M, Murray A, Cabrol L (2017): Bacteria and Archaea biodiversity in Arctic terrestrial ecosystems affected by climate change in Northern Siberia. v1.4. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=methanobase&v=1.4

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此資源已向GBIF註冊,並指定以下之GBIF UUID: 3f922dfb-0b72-4130-933a-a2f4beb3eef7。  SCAR - Microbial Antarctic Resource System 發佈此資源,並經由Scientific Committee on Antarctic Research同意向GBIF註冊成為資料發佈者。

關鍵字

methane; greenhouse gas; bacteria; archaea; procaryote; peatland; wetland; soil; lake; sediment; metabarcoding; 16S rRNA; MiSeq; permafrost; palsa; Metadata

聯絡資訊

Maialen Barret
  • 元數據提供者
  • 作者
  • 連絡人
Associate Professor
Laboratoire Ecologie Fonctionnelle et Environnement (UMR5245, Université de Toulouse, France)
Toulouse
FR
Frederic Thalasso
  • 出處
Cinvestav
Mexico City
MX
Laure Gandois
  • 出處
Laboratoire Ecologie Fonctionnelle et Environnement (UMR5245, Université de Toulouse, France)
Toulouse
FR
Karla Martinez Cruz
  • 出處
Universidad de Magallanes
Punta Arenas
CL
Armando Sepulveda Jaureguy
  • 出處
Universidad de Magallanes
Punta Arenas
CL
Céline Lavergne
  • 出處
Pontificia Universidad Católica de Valparaíso
Valparaiso
CL
Roman Teisserenc
  • 出處
Laboratoire Ecologie Fonctionnelle et Environnement (UMR5245, Université de Toulouse, France)
Toulouse
FR
Polette Aguilar
  • 出處
Pontificia Universidad Católica de Valparaíso
Valparaíso
CL
Oscar Gerardo-Nieto
  • 出處
Cinvestav
Mexico City
MX
Claudia Etchebehere
  • 出處
Instituto de Investigaciones Biológicas Clemente Estable
Montevideo
UY
Bruna Martins
  • 出處
Instituto de Investigaciones Biológicas Clemente Estable
Montevideo
UY
Javier Fochesatto
  • 出處
University of Alaska Fairbanks
Fairbanks
US
Nikita Tananaev
  • 出處
P.I. Melnikov Permafrost Institute
Igarka
RU
Mette Svenning
  • 出處
UiT The Arctic University of Norway
Tromso
NO
Christophe Seppey
  • 出處
UiT The Arctic University of Norway
Tromso
NO
Alexander Tveit
  • 出處
UiT The Arctic University of Norway
Tromso
NO
Rolando Chamy
  • 出處
Pontificia Universidad Católica de Valparaíso
Valparaiso
CL
María Soledad Astorga-España
  • 出處
Universidad de Magallanes
Punta Arenas
CL
Andrés Mansilla
  • 出處
Universidad de Magallanes
Punta Arenas
CL
Anton Van de Putte
  • 出處
Royal Belgian Institute for Natural Sciences
Brussels
BE
Maxime Sweetlove
  • 出處
Royal Belgian Institute for Natural Sciences
Brussels
BE
Alison Murray
  • 出處
Desert Research Institute
Reno
US
Léa Cabrol
  • 元數據提供者
  • 作者
  • 出處
  • 連絡人
Researcher
Institut Méditerranéen d’Océanologie
Marseille
FR
Maialen Barret
  • 元數據提供者
  • 作者
  • 連絡人
Associate professor
ECOLAB, Université de Toulouse
Toulouse
FR

地理涵蓋範圍

North Siberia

界定座標範圍 緯度南界 經度西界 [67.44, 86.59], 緯度北界 經度東界 [67.53, 86.71]

分類群涵蓋範圍

Bacterial and Archaea diversity was profiled by targeting the V4-V5 region of the 16S SSU rRNA gene for high throughput metabarcode (amplicon) sequencing, using the Illumia MiSeq platform (2x 250bp).

Kingdom Bacteria, Arcaea

時間涵蓋範圍

起始日期 2016-07-22

計畫資料

METHANOgenic Biodiversity and activity in Arctic, subarctic and Subantarctic Ecosystems affected by climate change

計畫名稱 Methanobase
辨識碼 METHANOBASE ELAC2014-DCC092
經費來源 ERANET-LAC joint call 2014
研究區域描述 Siberia [67.444346 to 67.53515, 86.707043 to 86.591957] Lakes (water, sediments), peatlands (hollows, edges, hummocks) and mineral soils
研究設計描述 The METHANOBASE project has been designed to investigate the intricate relations between microbial diversity and methane emissions in Arctic, Subarctic and Subantarctic ecosystems, under natural (baseline) conditions and in response to simulated temperature increments.

參與計畫的人員:

Maialen Barret
  • 研究主持人
Léa Cabrol
  • 研究主持人
Céline Lavergne
  • 元數據提供者
Frederic Thalasso
  • 元數據提供者
Karla Martinez Cruz
  • 元數據提供者
Armando Sepulveda Jaureguy
  • 元數據提供者
Laure Gandois
  • 元數據提供者
Roman Teisserenc
  • 作者
Nikita Tananaev
Alison Murray
Anton Van de Putte

取樣方法

Water samples were collected with a Van Dorn bottle. Sediments were sampled thanks to a grab-sampler, peat monoliths (approximately 30*30*30cm) were cut with a bread-knife and soil monoliths with a shovel.

研究範圍 Samples were collected in summer 2016, without any temporal replication. A total of 18 ecosystems were studied in Siberia, Russia (around Igarka). The selected sites are representative of this Arctic region: lakes (including glaciar, thermokarst), peatlands (including palsa complexes), taiga forest, tundra, discontinuous permafrost. In each site, various samples were collected to take into account the local heterogeneity: different depths in water column and sediments, soil horizons, hollows/edges/hummocks.

方法步驟描述:

  1. After collection, samples were stored at 4°C prior to further processing. Liquid samples were filtered at 0.45µm until clogging and the filters were stored at -20°C. DNA was extracted from these filters using the PowerWater DNA isolation kit (MOBIO) while DNA was extracted from solid samples using the PowerSoil DNA isolation kit (MOBIO). DNA extracts were kept at -20°C. The V4-V5 region of 16S rRNA gene was amplified in the following conditions: 515F and 928R primers (Wang & Qian, 2009. doi:10.1371/journal.pone.0007401), 2min at 94°C, 30 cycles of 60s at 94°C, 40s at 65°C and 30s at 72°C, and 10 min at 72°C. Amplicon sequencing was carried out with Illumina MiSeq technology (2x250pb, V3). Denoising of the sequences dataset and OTU clustering was carried using the FROGS pipeline (Auer et al., 2017. doi:10.1093/bioinformatics/btx791). BLAST was used for taxonomic affiliation.

額外的詮釋資料

目的 This table reports the GPS coordinates of the ecosystems which were sampled for microbial survey, methane emission rates, potential methanogenic and methanotrophic activities measurement in lab, and physico-chemical characterization.
替代的識別碼 3f922dfb-0b72-4130-933a-a2f4beb3eef7
https://ipt.biodiversity.aq/resource?r=methanobase