https://ipt.biodiversity.aq/resource?r=methanobase
Bacteria and Archaea biodiversity in Arctic terrestrial ecosystems affected by climate change in Northern Siberia
Maialen
Barret
ECOLAB, Université de Toulouse, CNRS
Associate Professor
Toulouse
FR
Léa
Cabrol
Mediterranean Institute of Oceanology
Researcher
Marseille
FR
Frederic
Thalasso
CINVESTAV
Professor
Mexico
MX
Laure
Gandois
ECOLAB, Université de Toulouse, CNRS
Researcher
Toulouse
FR
Céline
Lavergne
Pontificia Universidad Catholica de Valparaiso
Postdoc
Valparaiso
CL
Karla
Martinez Cruz
Universidad de Magallanes
Associate professor
Punta Arenas
CL
Armando
Sepulveda Jaureguy
Universidad de Magallanes
Associate professor
Punta Arenas
CL
Roman
Teisserenc
ECOLAB, Université de Toulouse, CNRS
Associate professor
Toulouse
FR
Nikita
Tananaev
Melnikov Permafrost Institute
Researcher
Igarka
RU
Maialen
Barret
ECOLAB, Université de Toulouse
Associate professor
Toulouse
FR
maialen.barret@ensat.Fr
Léa
Cabrol
Institut Méditerranéen d'Océanologie
Researcher
Marseille
FR
maialen.barret@ensat.Fr
Maialen
Barret
EcoLab, Université de Toulouse, CNRS
Associate professor
Toulouse
FR
maialen.barret@ensat.fr
author
Léa
Cabrol
Pontificia Universidad Catolica de Valparaiso
Researcher
Valparaiso
CL
author
2019-03-19
eng
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.
methane
greenhouse gas
bacteria
archaea
procaryote
peatland
wetland
soil
lake
sediment
metabarcoding
16S rRNA
MiSeq
permafrost
palsa
n/a
Metadata
GBIF Dataset Type Vocabulary: http://rs.gbif.org/vocabulary/gbif/dataset_type.xml
This work is licensed under a Creative Commons Attribution Non Commercial (CC-BY-NC) 4.0 License.
North Siberia
86.59
86.71
67.53
67.44
2016-07-22
2016-07-22
kingdom
Bacteria
kingdom
Arcaea
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.
unkown
Maialen
Barret
ECOLAB, Université de Toulouse
Associate professor
FR
maialen.barret@ensat.Fr
Léa
Cabrol
Institut méditerranéen d'Océanologie
Researcher
Marseille
FR
lea.cabrol@mio.osupytheas.fr
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.
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.
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.
Methanobase
Maialen
Barret
principalInvestigator
Léa
Cabrol
principalInvestigator
Céline
Lavergne
metadataProvider
Frederic
Thalasso
metadataProvider
Karla
Martinez Cruz
metadataProvider
Armando
Sepulveda Jaureguy
metadataProvider
Laure
Gandois
metadataProvider
Roman
Teisserenc
author
Nikita
Tananaev
Alison
Murray
Anton
Van de Putte
METHANOgenic Biodiversity and activity in Arctic, subarctic and Subantarctic Ecosystems affected by climate change
ERANET-LAC joint call 2014
Siberia [67.444346 to 67.53515, 86.707043 to 86.591957]
Lakes (water, sediments), peatlands (hollows, edges, hummocks) and mineral soils
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.
2017-05-19T03:56:26.195+02:00
dataset
Barret M, Cabrol L, Thalasso F, Gandois L, Lavergne C, Martinez Cruz K, Sepulveda Jaureguy A, Teisserenc R, Tananaev N (2017): Bacteria and Archaea biodiversity in Arctic terrestrial ecosystems affected by climate change in Northern Siberia. v1.2. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=methanobase&v=1.2
http://ipt.biodiversity.aq/logo.do?r=methanobase
https://ipt.biodiversity.aq/resource?id=methanobase/v1.2.xml