A5027775717- Microbial Community Ecology and Physiology
- Soil Carbon and Nitrogen Dynamics
- Genomics and Phylogenetic Studies
- Environmental DNA in Biodiversity Studies
- Mycorrhizal Fungi and Plant Interactions
- Wildlife-Road Interactions and Conservation
- Gut microbiota and health
- Plant Pathogens and Fungal Diseases
- Biofuel production and bioconversion
- Agriculture and Rural Development Research
- Biomedical Text Mining and Ontologies
- Soil Geostatistics and Mapping
- Indigenous Studies and Ecology
- Protist diversity and phylogeny
- African Botany and Ecology Studies
- Bioenergy crop production and management
- Invertebrate Taxonomy and Ecology
- Metal Extraction and Bioleaching
- Smart Materials for Construction
- Gene expression and cancer classification
- Species Distribution and Climate Change
- Anaerobic Digestion and Biogas Production
- Cancer Research and Treatments
- Lichen and fungal ecology
- Sustainable Agricultural Systems Analysis
Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement
2017-2025
Agroécologie
2016-2025
Institut Agro Dijon
2012-2025
Centre National de la Recherche Scientifique
2024
Université de Bourgogne
2009-2024
Centre des Sciences du Goût et de l'Alimentation
2024
Université Bourgogne Franche-Comté
2020-2024
University of New Caledonia
2019-2021
Ministère des Transports
2019
Concordia University
2019
Fungi constitute an important group in soil biological diversity and functioning. However, characterization knowledge of fungal communities is hampered because few primer sets are available to quantify abundance by real-time quantitative PCR (real-time Q-PCR). The aim this study was soils incorporating, into a Q-PCR using the SYBRGreen® method, set already used genetic structure communities. To satisfy requirements enhance accuracy reproducibility detection technique, focused on 18S rRNA...
Aim The spatial organization of soil microbial communities on large scales and the identification environmental factors structuring their distribution have been little investigated. overall objective this study was to determine patterning biomass in soils over a wide extent rank filters most influencing distribution. Location French territory using Soil Quality Monitoring Network. This network covers entire were sampled at 2150 sites along systematic grid. Methods DNA extracted from all...
Over the last two decades, a considerable effort has been made to decipher biogeography of soil microbial communities as whole, from small broad scales. In contrast, few studies have focused on taxonomic groups constituting these communities; thus, our knowledge their ecological attributes and drivers determining composition distribution is limited. We applied pyrosequencing approach targeting 16S ribosomal RNA (rRNA) genes in DNA set 2173 samples France reach comprehensive understanding...
Summary Three soil DNA extraction procedures (homemade protocols and commercial kit) varying in their practicability were applied to contrasting soils evaluate efficiency recovering: (i) (ii) bacterial diversity estimated by 16S rDNA pyrosequencing. Significant differences yield systematically observed between tested procedures. For certain soils, 10 times more was recovered with one protocol than the others. About 15 000 sequences of obtained for each sample which clustered draw rarefaction...
Although numerous studies have demonstrated the key role of bacterial diversity in soil functions and ecosystem services, little is known about variations determinants such on a nationwide scale. The overall objectives this study were i) to describe taxonomic richness across France, ii) identify ecological processes (i.e. selection by environment dispersal limitation) influencing distribution, iii) develop statistical predictive model richness. We used French Soil Quality Monitoring Network...
Soil DNA extraction has become a critical step in describing microbial biodiversity. Historically, ascertaining overarching ecological theories been hindered as independent studies have used numerous custom and commercial procedures. For that reason, standardized soil method (ISO-11063) was previously published. However, although this ISO is suited for molecular tools such quantitative PCR community fingerprinting techniques, it only optimized examining bacteria. Therefore, the aim of study...
Abstract Agricultural practices affect the physical and chemical characteristics of soil, which in turn may influence soil microorganisms with consequences on biological functioning. However, there is little knowledge interactions between agricultural management, physicochemical properties, microbial communities, notably tropical ecosystems few studies conducted strongly weathered acid soils. Here, we investigated early effect tillage crop residues management top physical, chemical,...
Microbiological datasets and associated environmental parameters from the French soil quality monitoring network (RMQS) offer an opportunity for long-term large-scale monitoring. Soils supply important ecosystem services e.g. carbon dynamics/storage or mineral element recycling, supported by microbial diversity (bacteria, archaea fungi). Based on 2,240 sites of 2000–2015 RMQS, molecular tools were applied to characterize microbiota. Soil DNA analysis yielded biomass 2,168 sites, bacterial...
This study provides the first maps of variations in bacterial community structure on a broad scale based genotyping DNA extracts from 593 soils four different regions France (North, Brittany, South-East and Landes). Soils were obtained soil library RMQS ('Réseau de Mesures la Qualité des Sols' = French quality monitoring network). The relevance biogeographic approach for studying communities was demonstrated by great variability specific geographical patterns within between regions. data...
Spatial scaling of microorganisms has been demonstrated over the last decade. However, processes and environmental filters shaping soil microbial community structure on a broad spatial scale still need to be refined ranked. Here, we compared bacterial fungal composition turnovers through biogeographical approach same sampling design at (area range: 13300 31000 km2): i) examine their structuring; ii) investigate relative importance selection autocorrelation in determining turnover; iii)...
Soils are one of the major reservoirs biological diversity on our planet because they host a huge richness microorganisms. The fungal:bacterial (F:B) ratio targets two functional groups organisms in soils and can improve understanding their importance efficiency for soil functioning. To better decipher variability this rank environmental parameters involved, we used French Soil Quality Monitoring Network (RMQS)-one most extensive priori-free sampling surveys, based systematic 16 km × grid...
Abstract Aim Intensive studies since the beginning of 21st century have provided vast amounts knowledge about soil microbial diversity at local and global scales. However, habitats been poorly investigated large scale. This study aims to characterize bacterial across France for first time by integrating description numerous environmental factors human activities. Location We focus on spatial scale mainland using largest spatially explicit sampling set available (2,173 soils, area = 5.5 × 10...
Abstract Background The ability to compare samples or studies easily using metabarcoding so as better interpret microbial ecology results is an upcoming challenge. A growing number of pipelines are available, each with its own benefits and limitations. However, very few have been developed offer the opportunity characterize various communities (e.g., archaea, bacteria, fungi, photosynthetic microeukaryotes) same tool. Results BIOCOM-PIPE a flexible independent suite tools for processing data...
According to biogeography studies, the abundance and richness of soil microorganisms vary across multiple spatial scales according properties farming practices. However, also exhibit poorly understood temporal variations. This study aimed at better understanding how microbial communities respond changes in practices a landscape scale over time. A regular grid 269 sites was set up 1,200 ha landscape, samples were characterized for their molecular biomass bacterial two dates (2011 2016)....
Due to their central role in ecosystems functioning and ability rapidly respond environmental changes, soil microorganisms could potentially be used for monitoring recovery the context of degraded land restoration. However, these belowground organisms have been, date, largely neglected. Here, we investigated fungal bacterial community diversity, composition, structure from ultramafic soils New Caledonia, an archipelago southwest Pacific recognized as a priority conservation The emerging...
The mucosal pellicle (MP) is a biological film protecting the oral mucosa. It composed of bounded salivary proteins and transmembrane mucin MUC1 expressed by epithelial cells. Previous research indicates that expression enhances binding main protein forming MP, MUC5B. This study investigated influence structure on MP formation. A TR146 cell line, which does not express natively, was stably transfected with genes coding for three isoforms differing in two extracellular domains: VNTR domain,...
Abstract. The fungal kingdom is among the most diversified kingdoms on Earth, with estimations of up to 12 million species. However, it remains poorly understood, only 150 000 species currently described. Given major ecological role fungi in ecosystem functioning, these numbers stress importance investigating diversity description across different types. Here, we explored spatial distribution soil a broad geographical scale, using French Soil Quality Monitoring Network that covers whole...