Résumé
Metabarcoding has been proven to be a highly effective tool for surveying biodiversity in aquatic ecosystems. Despite the recent explosion of metabarcoding studies, relatively few efforts have focused on freshwater zooplankton communities, even though they form an essential component of freshwater ecosystems. Here, we evaluate some essential aspects of metabarcoding surveys to provide a solid basis for the development of qualitative and quantitative metabarcoding surveys for freshwater zooplankton communities. We developed and validated taxon-specific and universally applicable metabarcoding primers for Cladocera, Copepoda and Rotifera. These primers were subsequently used to assess optimal sample collection, preservation and DNA extraction protocols and gain insights into the key biases that may influence the interpretation of freshwater zooplankton metabarcoding results. The presented primers performed well when applied to both bulk community samples and eDNA samples, although the latter seemed to slightly decrease the performance of metabarcoding analyses. We found significant effects of subsample size, sample preservation, DNA extraction and lysis methods for bulk community samples with inadequate protocols likely to underestimate Cladocera diversity. Primer amplification efficiency was found to be the primary driver of biases in the quantitative interpretation of metabarcoding data, regardless of the taxonomic target or sequencing depth. General correction factors based on primer amplification efficiency may thus be sufficient to enhance the quantitative nature of metabarcoding surveys.
Auteurs, date et publication :
Auteurs Jonas Bylemans , Didier Azam , Anne-Laure Besnard , Simon Blanchet , Cecile Chardon , Gérard Lacroix , Leslie Laine , Stephen Mulero , Carine Puppo , Murielle Richard , Marine Vautier , Isabelle Domaizon
Publication : Environmental DNA
Date : 2026
Volume : 7
Issue : 6
Pages : e70219
Catégorie(s)
#ANR-Citation #INRAE #OLAAuteurs, date et publication :
Auteurs
Date : 1970
Catégorie(s)
#Genosol #INRAEAuteurs, date et publication :
Auteurs Auriane Voyard , Raluca Ciuraru , Florence Lafouge , Benjamin Loubet , Alain Fortineau , Celine Decuq , Michael Staudt , Frédéric Rees
Date : 1970
Catégorie(s)
#INRAE #PT-RMSAuteurs, date et publication :
Auteurs K M Haider , C Focsa , C Decuq , B Esnault , F Lafouge , B Loubet , D Petitprez , R Ciuraru
Date : 1970
Catégorie(s)
#INRAE #PT-RMSAuteurs, date et publication :
Auteurs R. Ciuraru , Y. Liu , K. Haider , C. Decuq , J. Depuydt , A. Feron , C. Focsa , F. Lafouge , F. Levavasseur , B. Loubet
Date : 1970
Catégorie(s)
#INRAE #PT-RMSRésumé
Fin de vie des résidus de polymères (bio)dégradables - BIOMALEG
Auteurs, date et publication :
Auteurs
Date : 1970
Catégorie(s)
#Genosol #INRAERésumé
Among the geophysical tools used in soil science, electrical methods are considered as potentially useful to characterize soil compaction intensity. A laboratory investigation was undertaken on agricultural and forest soils in order to study the impact of compaction on bulk soil electrical resistivity. Samples taken from four different types of loamy soils were compacted at three bulk densities (1.1, 1.3 and 1.6 g cm(-3)). Bulk soil resistivity was measured at each compacted state for gravimetric water contents ranging from 0.10 to 0.50 g g(-1). A specific experimental procedure allowed the control of the water-filling of the intra-aggregate pores and the inter-aggregate pores. Soil resistivity decreased significantly with increase in density and typically for gravimetric water contents less than 0.25 g g(-1). The decrease was more pronounced for the drier soils, indicating the strong impact of the surface conductance, especially in agricultural soils. The experimental data were in good agreement with simulated values given by the petro-physical model of Waxman-Smits (1968), at least for water saturation greater than 0.3. The analysis of the petro-physical parameters derived from the experimental data suggested that: (i) the electrical tortuosity of the loamy agricultural soil was significantly affected by compaction and (ii) the forest soil had a singular microstructure from an electrical point of view and had isolated conductive zones associated with clay embedded in a poorly conductive medium comprised mainly of soil solution and quartz grains. Our results provide the phenomenological basis for assessing, in the field, the relationship between soil electrical resistivity and compaction intensity.
Auteurs, date et publication :
Auteurs S. Seladji , P. Cosenza , A. Tabbagh , J. Ranger , G. Richard
Publication : European Journal of Soil Science
Date : 2010
Volume : 61
Issue : 6
Pages : 1043-1055
Catégorie(s)
#FORET Azerailles-Clermont #INRAEAuteurs, date et publication :
Auteurs E Attard , S Recous , A Chabbi , C De Berranger , N Guillaumaud , J Labreuche , L Philippot , B Schmid , X Le Roux
Publication : Global Change Biology
Date : 2025
Volume : 17
Issue : 5
Pages : 1975–1989
Catégorie(s)
#ACBB #ACBB Lusignan #INRAERésumé
Silicon (Si) released as H4SiO4 by weathering of Si-containing solid phases is partly recycled through vegetation before its land-to-rivers transfer. By accumulating in terrestrial plants to a similar extent as some major macronutrients (0.1-10% Si dry weight), Si becomes largely mobile in the soil-plant system. Litter-fall leads to a substantial reactive biogenic silica pool in soil, which contributes to the release of dissolved Si (DSi) in soil solution. Understanding the biogeochemical cycle of silicon in surface environments and the DSi export from soils into rivers is crucial given that the marine primary bio-productivity depends on the availability of H4SiO4 for phytoplankton that requires Si. Continental fluxes of DSi seem to be deeply influenced by climate (temperature and runoff) as well as soil-vegetation systems. Therefore, continental areas can be characterized by various abilities to transfer DSi from soil-plant systems towards rivers. Here we pay special attention to those processes taking place in soil-plant systems and controlling the Si transfer towards rivers. We aim at identifying relevant geochemical tracers of Si pathways within the soil-plant system to obtain a better understanding of the origin of DSi exported towards rivers. In this review, we compare different soil-plant systems (weathering-unlimited and weathering-limited environments) and the variations of the geochemical tracers (Ge/Si ratios and delta Si-30) in DSi outputs. We recommend the use of biogeochemical tracers in combination with Si mass-balances and detailed physico-chemical characterization of soil-plant systems to allow better insight in the sources and fate of Si in these biogeochemical systems.
Auteurs, date et publication :
Auteurs J. -T. Cornelis , B. Delvaux , R. B. Georg , Y. Lucas , J. Ranger , S. Opfergelt
Publication : Biogeosciences
Date : 2025
Volume : 8
Issue : 1
Pages : 89-112
Catégorie(s)
#FORET Breuil #INRAEAuteurs, date et publication :
Auteurs Rudy Garel
Date : 2025