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

最新バージョン SCAR - Microbial Antarctic Resource System によって公開 Jun 13, 2019 SCAR - Microbial Antarctic Resource System

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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バージョン

次の表は、公にアクセス可能な公開バージョンのリソースのみ表示しています。

引用方法

研究者はこの研究内容を以下のように引用する必要があります。:

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

権利

研究者は権利に関する下記ステートメントを尊重する必要があります。:

パブリッシャーとライセンス保持者権利者は SCAR - Microbial Antarctic Resource System。 This work is licensed under a Creative Commons Attribution Non Commercial (CC-BY-NC) 4.0 License.

GBIF登録

このリソースをはGBIF と登録されており GBIF UUID: 3f922dfb-0b72-4130-933a-a2f4beb3eef7が割り当てられています。   Scientific Committee on Antarctic Research によって承認されたデータ パブリッシャーとして GBIF に登録されているSCAR - Microbial Antarctic Resource System が、このリソースをパブリッシュしました。

キーワード

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

連絡先

リソースを作成した人:

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

リソースに関する質問に答えることができる人:

Maialen Barret
Associate professor
Laboratoire Ecologie Fonctionnelle et Environnement (UMR5245, Université de Toulouse, France) Toulouse FR
Léa Cabrol
Researcher
Institut méditerranéen d'Océanologie Marseille FR

メタデータを記載した人:

Maialen Barret
Associate professor
ECOLAB, Université de Toulouse Toulouse FR
Léa Cabrol
Researcher
Institut Méditerranéen d'Océanologie Marseille FR

他に、リソースに関連付けられていた人:

論文著者
Maialen Barret
Associate professor
EcoLab, Université de Toulouse, CNRS Toulouse FR
論文著者
Léa Cabrol
Researcher
Pontificia Universidad Catolica de Valparaiso Valparaiso CL

地理的範囲

North Siberia

座標(緯度経度) 南 西 [67.44, 86.59], 北 東 [67.53, 86.71]

生物分類学的範囲

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

時間的範囲

開始日 2016-07-22

プロジェクトデータ

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

タイトル Methanobase
識別子 METHANOBASE ELAC2014-DCC092
ファンデイング ERANET-LAC joint call 2014
Study Area Description Siberia [67.444346 to 67.53515, 86.707043 to 86.591957] Lakes (water, sediments), peatlands (hollows, edges, hummocks) and mineral soils
研究の意図、目的、背景など(デザイン) 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.

プロジェクトに携わる要員:

研究代表者
Maialen Barret
研究代表者
Léa Cabrol
メタデータ提供者
Céline Lavergne
メタデータ提供者
Frederic Thalasso
メタデータ提供者
Karla Martinez Cruz
メタデータ提供者
Armando Sepulveda Jaureguy
メタデータ提供者
Laure Gandois
論文著者
Roman Teisserenc
Nikita Tananaev
Alison Murray
Anton Van de Putte

収集方法

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.

Study Extent 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.

Method step description:

  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.

追加のメタデータ

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.
代替識別子 3f922dfb-0b72-4130-933a-a2f4beb3eef7
https://ipt.biodiversity.aq/resource?r=methanobase