Description
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.
Versions
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Comment citer
Les chercheurs doivent citer cette ressource comme suit:
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
Droits
Les chercheurs doivent respecter la déclaration de droits suivante:
L’éditeur et détenteur des droits de cette ressource est SCAR - Microbial Antarctic Resource System. Ce travail est sous licence Creative Commons Attribution (CC-BY) 4.0.
Enregistrement GBIF
Cette ressource a été enregistrée sur le portail GBIF, et possède l'UUID GBIF suivante : 3f922dfb-0b72-4130-933a-a2f4beb3eef7. SCAR - Microbial Antarctic Resource System publie cette ressource, et est enregistré dans le GBIF comme éditeur de données avec l'approbation du Scientific Committee on Antarctic Research.
Mots-clé
methane; greenhouse gas; bacteria; archaea; procaryote; peatland; wetland; soil; lake; sediment; metabarcoding; 16S rRNA; MiSeq; permafrost; palsa; Metadata; Metadata
Contacts
- Fournisseur Des Métadonnées ●
- Auteur ●
- Personne De Contact
- Associate Professor
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- Fournisseur Des Métadonnées ●
- Auteur ●
- Personne De Contact
- Associate professor
- Auteur
- Researcher
Couverture géographique
North Siberia
| Enveloppe géographique | Sud Ouest [67,44, 86,59], Nord Est [67,53, 86,71] |
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Couverture taxonomique
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 |
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Couverture temporelle
| Date de début | 2016-07-22 |
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Données sur le projet
METHANOgenic Biodiversity and activity in Arctic, subarctic and Subantarctic Ecosystems affected by climate change
| Titre | Methanobase |
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| Identifiant | METHANOBASE ELAC2014-DCC092 |
| Financement | ERANET-LAC joint call 2014 |
| Description du domaine d'étude / de recherche | Siberia [67.444346 to 67.53515, 86.707043 to 86.591957] Lakes (water, sediments), peatlands (hollows, edges, hummocks) and mineral soils |
| Description du design | 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. |
Les personnes impliquées dans le projet:
- Chercheur Principal
- Chercheur Principal
- Fournisseur Des Métadonnées
- Fournisseur Des Métadonnées
- Fournisseur Des Métadonnées
- Fournisseur Des Métadonnées
- Fournisseur Des Métadonnées
- Auteur
Méthodes d'échantillonnage
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.
| Etendue de l'étude | 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. |
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Description des étapes de la méthode:
- 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.
Métadonnées additionnelles
| Objet | 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. |
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| Identifiants alternatifs | 3f922dfb-0b72-4130-933a-a2f4beb3eef7 |
| https://ipt.biodiversity.aq/resource?r=methanobase |