Harmonized Datasets of microbiological analyses from a French national-scale soil monitoring survey

Microbiological datasets from the French Soil Quality monitoring network (2200 soils) offer an opportunity for large-scale soil quality monitoring. Previous studies (molecular microbial biomass, quantitative PCR, amplicon sequencing of 16S rDNA) were harmonized to facilitate their reusability.
Harmonized Datasets of microbiological analyses from a French national-scale soil monitoring survey
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Soils support many ecosystem services (eg fertility, carbon storage or waste decomposition). All these services are mainly supported by the huge reservoir of soil microbial biodiversity. However, soil microbiota is constantly subjected to various natural and/or anthropogenic stresses (eg deforestation, land-use intensification and global warming). These disturbances have a significant influence on these soil microbial communities and lead to an overall impact on soil functions. For the past 15 years, the French Soil Quality Monitoring Network (RMQS) has been meeting these goals of long-term assessment and monitoring of soil quality in France.

The RMQS is based on the monitoring of 2,240 sites distributed across the whole French territory along a systematic square grid of 16 km x 16 km cells, to be representative of the different types of soils and their land uses. Soil sampling, characterization and observations are made every 15 years at the center of each cell. The RMQS is probably one of the most intensive and extensive sampling strategy at a national scale in Europe.

Thanks to the use of various molecular tools, a substantial body of scientific knowledge has been produced on the RMQS soil microbiota.

Schematic overview of the RMQS1 microbial datasets.

Interestingly, each produced dataset (e.g. measures of 16S and 18S gene abundances, the F:B ratio, or the diversity data) exhibited different and specific biogeographical patterns compared to each other taken separately, reflecting each one a complementary snapshot of soil microbial communities. To improve the reuse of these datasets, we harmonized and reorganized all available microbiological in a Dataverse collection, with a focus on linking datasets with other RMQS environmental parameters more easily. 

This collection will provide information on the ecology of microbial communities at a territorial scale and describe the different microbial groups observed in French soils, their spatial distribution, their ecological requirements and their interactions. Altogether, this collection will help researchers to have a better understanding of soil microbial communities organization and dynamics across space at a national scale.

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Agroecology
Life Sciences > Biological Sciences > Ecology > Agroecology
Soil Microbiology
Life Sciences > Biological Sciences > Microbiology > Environmental Microbiology > Soil Microbiology
Soil Science
Physical Sciences > Earth and Environmental Sciences > Environmental Sciences > Soil Science
Bioinformatics
Life Sciences > Biological Sciences > Biological Techniques > Computational and Systems Biology > Bioinformatics
Microbial Ecology
Life Sciences > Biological Sciences > Ecology > Microbial Ecology
Restoration Ecology
Life Sciences > Biological Sciences > Ecology > Restoration Ecology

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