Bacteria and Archaea biodiversity in terrestrial ecosystems of Chilean Patagonia

Versão mais recente publicado por SCAR - Microbial Antarctic Resource System em 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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Versões

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Como citar

Pesquisadores deveriam citar esta obra da seguinte maneira:

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

Direitos

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O editor e o detentor dos direitos deste trabalho é SCAR - Microbial Antarctic Resource System. This work is licensed under a Creative Commons Attribution Non Commercial (CC-BY-NC) 4.0 License.

GBIF Registration

Este recurso foi registrado no GBIF e atribuído ao seguinte GBIF UUID: d98b5000-4d67-4580-a90c-c818452cedcb.  SCAR - Microbial Antarctic Resource System publica este recurso, e está registrado no GBIF como um publicador de dados aprovado por Scientific Committee on Antarctic Research.

Palavras-chave

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

Contatos

Quem criou esse recurso:

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

Quem pode responder a perguntas sobre o recurso:

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

Quem preencher os metadados:

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

Quem mais foi associado com o recurso:

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

Cobertura Geográfica

Chilean Patagonia

Coordenadas delimitadoras Sul Oeste [-54.065, -72.038], Norte Leste [-52.073, -68.85]

Cobertura Taxonômica

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).

Domínio  Bacteria (Bacteria),  Archaea (Archaea)

Cobertura Temporal

Data Inicial 2016-01-13

Dados Sobre o Projeto

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

Título Methanobase
Identificador METHANOBASE ELAC2014-DCC092
Financiamento ERANET-LAC joint call 2014
Descrição da Área de Estudo Patagonia [-54.94925011 to -52.0728575, -72.03831167 to -67.33177633] Lakes (water, sediments), peatlands (hollows, edges, hummocks) and mineral soils
Descrição do 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.

O pessoal envolvido no projeto:

Pesquisador Principal
Maialen Barret
Pesquisador Principal
Léa Cabrol
Provedor dos Metadados
Frederic Thalasso
Provedor dos Metadados
Karla Martinez Cruz
Provedor dos Metadados
Armando Sepulveda Jaureguy
Provedor dos Metadados
Laure Gandois
Autor
Roman Teisserenc
Alison Murray
Anton Van de Putte

Métodos de Amostragem

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 Estudo 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.

Descrição dos passos do método:

  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.

Metadados Adicionais

Identificadores alternativos https://ipt.biodiversity.aq/resource?r=methanobasepatagonia