Bacteria and Archaea biodiversity in terrestrial ecosystems of Chilean Patagonia

最新バージョン SCAR - Microbial Antarctic Resource System により出版 4月 15, 2022 SCAR - Microbial Antarctic Resource System
公開日:
2022年4月15日
ライセンス:
CC-BY 4.0

メタデータのみリソース のメタデータの最新版をEML または RTF としてダウンロード:

EML ファイルとしてのメタデータ ダウンロード English で (21 KB)
RTF ファイルとしてのメタデータ ダウンロード English で (14 KB)

説明

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.

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 (2022): Bacteria and Archaea biodiversity in terrestrial ecosystems of Chilean Patagonia. v1.3. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=methanobasepatagonia&v=1.3

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 (CC-BY 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: d98b5000-4d67-4580-a90c-c818452cedcb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; Occurrence; Metadata

連絡先

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

地理的範囲

Chilean Patagonia

座標(緯度経度) 南 西 [-54.065, -72.038], 北 東 [-52.073, -68.85]

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).

Domain Bacteria (Bacteria), Archaea (Archaea)

時間的範囲

開始日 2016-01-13

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

Maialen Barret
  • 研究代表者
Léa Cabrol
  • 研究代表者
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
  • メタデータ提供者
Roman Teisserenc
  • 論文著者
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 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.

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

代替識別子 d98b5000-4d67-4580-a90c-c818452cedcb
https://ipt.biodiversity.aq/resource?r=methanobasepatagonia