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

Última versión publicado por SCAR - Microbial Antarctic Resource System el abr 15, 2022 SCAR - Microbial Antarctic Resource System
Fecha de publicación:
15 de abril de 2022
Licencia:
CC-BY 4.0

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Descripción

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.

Versiones

La siguiente tabla muestra sólo las versiones publicadas del recurso que son de acceso público.

¿Cómo referenciar?

Los usuarios deben citar este trabajo de la siguiente manera:

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 Arctic terrestrial ecosystems affected by climate change in Northern Siberia. v1.5. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=methanobase&v=1.5

Derechos

Los usuarios deben respetar los siguientes derechos de uso:

El publicador y propietario de los derechos de este trabajo es SCAR - Microbial Antarctic Resource System. Esta obra está bajo una licencia Creative Commons de Atribución/Reconocimiento (CC-BY 4.0).

Registro GBIF

Este recurso ha sido registrado en GBIF con el siguiente UUID: 3f922dfb-0b72-4130-933a-a2f4beb3eef7.  SCAR - Microbial Antarctic Resource System publica este recurso y está registrado en GBIF como un publicador de datos avalado por Scientific Committee on Antarctic Research.

Palabras clave

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

Contactos

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

Cobertura geográfica

North Siberia

Coordenadas límite Latitud Mínima Longitud Mínima [67,44, 86,59], Latitud Máxima Longitud Máxima [67,53, 86,71]

Cobertura taxonómica

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).

Reino Bacteria, Arcaea

Cobertura temporal

Fecha Inicial 2016-07-22

Datos del proyecto

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

Título Methanobase
Identificador METHANOBASE ELAC2014-DCC092
Fuentes de Financiación ERANET-LAC joint call 2014
Descripción del área de estudio Siberia [67.444346 to 67.53515, 86.707043 to 86.591957] Lakes (water, sediments), peatlands (hollows, edges, hummocks) and mineral soils
Descripción del diseño 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.

Personas asociadas al proyecto:

Maialen Barret
  • Investigador Principal
Léa Cabrol
  • Investigador Principal
Céline Lavergne
  • Proveedor De Los Metadatos
Frederic Thalasso
  • Proveedor De Los Metadatos
Karla Martinez Cruz
  • Proveedor De Los Metadatos
Armando Sepulveda Jaureguy
  • Proveedor De Los Metadatos
Laure Gandois
  • Proveedor De Los Metadatos
Roman Teisserenc
  • Autor
Nikita Tananaev
Alison Murray
Anton Van de Putte

Métodos de muestreo

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.

Área de Estudio 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.

Descripción de la metodología paso a paso:

  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.

Metadatos adicionales

Propósito 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.
Identificadores alternativos 3f922dfb-0b72-4130-933a-a2f4beb3eef7
https://ipt.biodiversity.aq/resource?r=methanobase