Bacteria and Archaea biodiversity in terrestrial ecosystems of Chilean Patagonia

最新版本 由 SCAR - Microbial Antarctic Resource System 發佈於 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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研究者應依照以下指示引用此資源。:

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 (2018): Bacteria and Archaea biodiversity in terrestrial ecosystems of Chilean Patagonia. v1.2. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=methanobasepatagonia&v=1.2

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The publisher and rights holder of this work is SCAR - Microbial Antarctic Resource System. This work is licensed under a Creative Commons Attribution Non Commercial (CC-BY-NC) 4.0 License.

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關鍵字

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

聯絡資訊

資源建立者:

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 Valparaíso 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 Valparaíso CL
Maria Soledad Astorga-España
Universidad de Magallanes Punta Arenas CL
Andres Mansilla
Universidad de Magallanes Pnta 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
Institut Méditerranéen d’Océanologie Marseille FR

可回覆此資源相關問題者:

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

元數據填寫者:

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

與此資源的相關者:

作者
Maialen Barret
Associate professor
ECOLAB, Université de Toulouse Toulouse FR
Léa Cabrol
Researcher
Pontificia Universidad Catolica de Valparaiso Valparaiso CL

地理涵蓋範圍

Chilean Patagonia

界定座標範圍 緯度南界 經度西界 [-54.065, -72.038], 緯度北界 經度東界 [-52.073, -68.85]

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).

Domain  Bacteria (Bacteria),  Archaea (Archaea)

時間涵蓋範圍

起始日期 2016-01-13

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 Patagonia [-54.94925011 to -52.0728575, -72.03831167 to -67.33177633] 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.

The personnel involved in the project:

研究主持人
Maialen Barret
研究主持人
Léa Cabrol
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
作者
Roman Teisserenc
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 2015, without any temporal replication. A total of 19 ecosystems were studied in Alaska, USA. The selected sites are representative of this Subantarctic region: lakes, peatlands, Nothofagus forest, pampa 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.

額外的元數據

替代的識別碼 https://ipt.biodiversity.aq/resource?r=methanobasepatagonia