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"abstractNote": "The European eel (Anguilla anguilla) juvenile stage exhibits facultative estuarine migration. The causes of this behavior are yet unknown but it may have an impact on the population’s fate by altering the sex ratio of the population. Recent studies have highlighted potential stress-related issues in glass eels settling in estuaries but studying stress response in small organisms requires sensitive, accurate and precise analytical methods. The aims of the present study are (i) to develop a whole-body Liquid Chromatography-Mass Spectrometry (LC-MS/MS) method for the simultaneous determination of several stress hormones in low-body mass fish; (ii) to apply this method to glass eels to study their responses to acute stress (iii) to test the effect of anxiolytics (diazepam) on these responses. Our results showed that enhanced LC-MS/MS analysis reduced detection limits and improved accuracy and precision for the quantification at the individual level. Following an acute stress, cortisol concentration significantly increased in glass eels and a 15 h diazepam exposure significantly reduced cortisol levels highlighting a marked anxiolytic effect on this species.",
"publicationTitle": "The Journal of Steroid Biochemistry and Molecular Biology",
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"title": "Phenotypic diversity of brown trout (Salmo trutta L.) during the late Upper Pleistocene and Early Holocene in the glacial refugium of Iberia",
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"firstName": "Ambra",
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"lastName": "Agudo Pérez"
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{
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"firstName": "Lawrence G.",
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"firstName": "Manuel R.",
"lastName": "González Morales"
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{
"creatorType": "author",
"firstName": "Arturo",
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{
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{
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"firstName": "José Luis",
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"firstName": "Pablo",
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"abstractNote": "Human populations have relied on fish for food for thousands of years, as evidenced in numerous Palaeolithic archaeological sites across Europe. In this paper, we investigate past populations of brown trout (Salmo trutta L.) along the Bay of Biscay coast before, during, and after the Last Glacial Maximum and compare their phenotypic diversity with modern populations. A total of 270 salmonid vertebrae from 11 archaeological sites in Spain and France were analysed, which span c. 30 to 9 kyr cal B.P. Species identification, combining ZooMS analyses with vertebral body size, confirmed 219 specimens as brown trout, and we present a model for salmonid species identification based on vertebral size. Stable isotope analyses of carbon and nitrogen reveal a continuum of habitat use patterns. After testing multiple published regression models for body length estimation in brown trout, we develop a novel linear regression model alongside a protocol for age estimation. Overall, the analysis of body size, age and migratory ecotype demonstrates that the phenotypic diversity of brown trout populations during the Pleistocene-Holocene transition is comparable to that of modern populations, reinforcing the role of the Iberian glacial refugium in maintaining diversity during the Last Glacial Maximum. The finding of large freshwater trout alongside sea trout in human-occupied archaeological sites further suggests the exploitation of both riverine and marine fish resources by human populations.",
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"title": "Changes, interactions and drivers of soil chemical, physical and biological properties after repeated application of organic waste products in two contrasted long-term field experiments in France",
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"firstName": "Haotian",
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"firstName": "Camille",
"lastName": "Chauvin"
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"lastName": "Cheviron"
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{
"creatorType": "author",
"firstName": "Christian",
"lastName": "Mougin"
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"firstName": "Amicie",
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"abstractNote": "Recycling organic waste products (OWPs) is known to influence soil physical, chemical, and biological properties, yet few studies have compared the long-term effects of different OWP type across multiple sites. This study examined the impacts of repeated OWP application on soil properties in two French long-term field experiments: QualiAgro and PROspective (20 and 18 years, respectively). The OWP included dehydrated urban sewage sludge (SLU), green waste and SLU compost, biowaste compost from source-separated municipal organic waste co-composted with green waste, municipal solid waste compost, farmyard manure from a dairy cow farm (FYM), and composted FYM from open-air composting on a concrete platform. The application of OWP led to increased soil nutrient levels and trace element availability, and stimulated microbial biomass and enzyme activities, while the response of nematode varied depending on site and OWP type. Biological properties were less affected than physico-chemical properties, though the OWP application enhanced soil microbial biomass and specific enzyme activities. The impact on soil nematode communities varied depending on OWP type and site. Strong correlations were observed among soil property changes, with exogenous carbon and nutrient inputs from OWP identified as key drivers. Larger changes were noted in QualiAgro, where OWP application rates were higher and initial soil quality lower. These findings highlight that OWP applications, depending on their type, rate, and initial soil conditions, can significantly alter soil properties.",
"publicationTitle": "Environmental Research Letters",
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"journalAbbreviation": "Environ. Res. Lett.",
"DOI": "10.1088/1748-9326/ae16bb",
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"title": "Disentangling the effects of applying pig slurry or its digestate to winter wheat or a catch crop on dissolved C fluxes",
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"firstName": "Anne-Flore",
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"abstractNote": "The anaerobic digestion industry, which is still developing, generates biogas from organic waste products. A coproduct of this process, digestate, is increasingly produced and can be recycled on agricultural land as an alternative to mineral fertilizers. Biogas digestate is a recent product whose chemical composition differs from that of its source material, and additional data still need to be acquired on its effects on dissolved carbon fluxes. The objectives of this study were to assess (i) the effects of applying biogas digestate on dissolved organic carbon (DOC) and dissolved inorganic carbon (DIC) fluxes with different winter crops, (ii) the dynamics of DOC and DIC concentrations during the drainage season, and (iii) the annual dynamics of DOC and DIC fluxes along the soil profile. The study examined effects of applying biogas digestate, pig slurry, or a mineral fertilizer to winter wheat and two catch crops (mustard and a multispecies crop) on DOC and DIC fluxes in the soil. Lysimeters at 40 cm (topsoil) and 90 cm (subsoil) depths were monitored from 2014 to 2023, from November to March (i.e., 9 winter drainage seasons). During the drainage season, the DOC concentration was highest with digestate, and its timing depended on development of the cover crop: from the beginning of the drainage season for mustard and the multispecies crop and around February for wheat. Applying digestate increased the topsoil DOC fluxes (mean of 35.7 ± 13.7 kg.ha 1 with digestate vs. 21.0 ± 6.7 kg.ha 1 with the other treatments), particularly under mustard. Topsoil DIC fluxes were highest with pig slurry due to higher mineralization than that with digestate (mean of 59.1 ± 22.8 kg.ha 1 with pig slurry vs. 46.2 ± 16.3 kg.ha 1 with the other treatments). In the subsoil, DOC fluxes were low (6.2 ± 4.1 kg.ha 1) and DIC fluxes were high (80.0 ± 45.7 kg.ha 1), with no difference among treatments.",
"publicationTitle": "Agriculture, Ecosystems & Environment",
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"abstractNote": "Applying organic waste products (OWPs) and sowing cover crops are agronomic practices to improve soil health. OWPs can be used in anaerobic digestion. Because microorganisms consume some of the labile molecules, persistent molecules accumulate in digestate. Few studies have investigated the transfer of dissolved organic matter (DOM) in soil that received digestate. Previously, effects of digestate application on dissolved organic carbon (DOC) were compared to those of the original pig slurry under wheat and a mustard catch crop for nine years at a lysimeter experimental site. DOC concentrations after digestate application were higher in the topsoil every year, due to crop development, but did not differ between treatments in the subsoil. The objectives of this study were to determine whether the observed differences in DOC concentrations caused DOM composition to differ, to identify sources (e.g., digestate, root exudation) that may have contributed to the DOM pool and to assess the DOM composition in the subsoil. The DOM composition of lysimeter samples and water extracts from the OWPs applied were analyzed by thermochemolysis coupled with gas chromatography and mass spectrometry, which identified plant- and microbial-derived biomarkers. Under mustard, the DOM pool seemed to contain mainly persistent molecules from digestate that were desorbed due to the increase in pH caused by nitrate uptake. Under wheat, the DOC pool seemed supplied by both digestate and root exudation. After applying digestate, plant-derived molecules decreased, while microbial-derived molecules increased, as depth increased, and molecules may have been sorbed from the topsoil to subsoil.",
"publicationTitle": "Organic Geochemistry",
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"title": "Does fertilizer type drive soil and litter macroinvertebrate communities in a sugarcane agroecosystem? Evidence from a 10-year field trial",
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"firstName": "Estelle",
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"creatorType": "author",
"firstName": "Matthieu N.",
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"abstractNote": "Macroinvertebrates play a central role in processes supporting soil fertility. In the framework of the ecological intensification of agriculture, the choice of management practices should be guided by their ability to support these beneficial organisms supplying ecosystem services. This study aims at investigating the specific effect of partial substitution of synthetic fertilizers by locally produced organic fertilizers at a similar level of major nutrient inputs on macroinvertebrate abundance and diversity in sugarcane agroecosystems, on a Nitisol. Invertebrates visible to the naked eye were sampled in 2013, 2016, 2019 and 2023 using the standardized TSBF method on a long-term experimental field trial in R´eunion island. The individuals were identified and soil samples were analyzed for physico-chemical properties. Despite the low response of macroinvertebrates to the fertilizer type, total macroinvertebrate abundance increased over time, especially isopods and earthworms. The input of organic carbon via the return of litter to the soil surface and the root turnover after each harvest enables soil macroinvertebrates to be more abundant even after replanting tillage. Mulching and root turnover are therefore important levers to consider for promoting macroinvertebrates in sugarcane agroecosystems.",
"publicationTitle": "Agriculture, Ecosystems & Environment",
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"title": "Increase in organic carbon stocks in subsoil layers after two decades of organic amendment application cannot be explained by the estimated contribution of multiple C inputs",
"creators": [
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"firstName": "Florent",
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{
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"abstractNote": "Soil organic carbon (SOC) is important for both soil health and climate change mitigation. Organic amendment (OA) applications are known to increase SOC stocks. However, most existing studies have focused on surface soil layers, whereas the subsoil is an important SOC stock. In this study, we quantified SOC stock accrual over 0–90 cm in the QualiAgro long-term experiment after 24 years of OA application. While surface SOC stocks increased only with OA application, they increased significantly in the subsoil both with and without OA application. Compared to the control, OA application increased subsoil SOC stocks: from 5 % to 10 % and from 3 % to 13 % of the total SOC stocks accrual over the whole soil profile occurred in the 35–50 cm and 50–90 cm soil layers, respectively. C inputs to the subsoil layers were estimated: belowground crop C inputs using crop yields and allometric coefficients, dissolved organic carbon (DOC) leaching by direct measurement (lysimeter), illuviation and bioturbation by image analysis of soil thin sections. Potential C inputs did not fully explain the subsoil SOC stocks accrual. The contribution of belowground crop C ranged from 32 % to 54 % of the SOC stocks accrual. DOC leaching showed a limited contribution (1 to 5 %). The contribution of bioturbation and illuviation was very limited (≤3%). Our study suggests discrepancies in our current understanding of the mechanisms influencing subsoil SOC, and highlights the importance of considering the subsoil when monitoring the effect of OA application on SOC stocks.",
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"abstractNote": "Introduction\n Agriculture is undergoing an agroecological transition characterized by adopting new practices to reduce chemical fertilizer inputs. In this context, digestates are emerging as sustainable substitutes for mineral fertilizers. However, large-scale application of digestates in agricultural fields requires rigorous studies to evaluate their long-term effects on soil microbial communities, which are crucial for ecosystem functioning and resilience.\n \n \n Material and methods\n This study presents provides a comparative analysis in long-term field conditions of fertilization strategies combining annual applications of raw digestate with biennial applications of different organic waste products (OWPs)—biowaste compost (BIO), farmyard manure (FYM), and urban sewage sludge (SLU)—and compares them to combinations of the same OWPs with mineral fertilizers. The cumulative effects of repeated OWP applications, paired with two nitrogen sources—organic (digestate) and chemical (mineral fertilizer)—were assessed through soil physicochemical and microbial analyses. We hypothesized that the combined effect varied according to the N-supply sources and that this effect also depended on the type of OWP applied. Soil microbial communities were characterized using high-throughput sequencing targeting 16S and 18S ribosomal RNA genes, following DNA extraction from soil samples collected in 2022, six years after the initial digestate application.\n \n \n Results\n The results indicated that combining OWPs rich in stable and recalcitrant organic matter, such as BIO and FYM, with raw digestate, offers an improved fertilization practice. This approach maintains soil organic carbon (SOC) levels, increases soil phosphorus and potassium content, and stimulates microbial communities differently than nitrogen supplied via mineral fertilizers. While microbial biomass showed no significant variation across treatments, microbial diversity indices exhibited differences based on the type of OWP and nitrogen source. The fertilization strategies moderately influenced prokaryotic and fungal community structures, with distinct patterns depending on the OWP and nitrogen source. Notably, fungal communities responded more strongly to treatment variations than prokaryotic communities.\n \n \n Discussion\n This study provides new insights into the cumulative effects of substituting mineral fertilizers with digestates on soil microbial communities and soil physicochemical parameters. The sustainable development of agroecosystems significantly depends on a better understanding of the complex responses of soil microbial communities to different fertilization regimes. Future research should continue to assess the long-term impact of digestate application on soil microbiota in real agronomic field conditions, considering associated agricultural practices.",
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"abstractNote": "Agricultural management practices influence climate through biophysical processes such as surface albedo and energy balance, yet their impacts remain understudied compared to biogeochemical effects. Three critical uncertainties in current assessments of agricultural biophysical impacts arise from: (1) The limited quantification of albedo-mediated radiative forcing induced by management practice; (2) The scarcity of highresolution spatiotemporal data on bare soil albedo dynamics across heterogeneous croplands; and (3) The inadequate representation of crop development and management practices in land surface models. To address these gaps, this thesis integrates machine learning, remote sensing, and process-based modeling to evaluate the albedo-mediated biophysical climate impacts of agricultural practices in European croplands.",
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"abstractNote": "Abstract. The Vegetation Photosynthesis and Respiration Model (VPRM) is a well-established tool to estimate carbon exchange fluxes between the atmosphere and the biosphere. The gross primary production (GPP) and respiration (Reco) of the ecosystem are modelled separately at high spatial and temporal resolution using the satellite-derived Enhanced Vegetation Index (EVI) and Land Surface Water Index (LSWI), as well as meteorological variables for solar irradiance and surface temperature. The net ecosystem exchange (NEE) is calculated as the difference between the gross fluxes GPP and Respiration. VPRM is widely used as a biospheric flux model in atmospheric transport modeling, most often on scales ranging from city to continent, but also in studies of biospheric carbon budgets and their changes with climate extremes. Historically, satellite-based surface reflectances from the 500-m-resolution Moderate Resolution Imaging Spectroradiometer (MODIS) have been used to determine the EVI and LSWI. However, MODIS is reaching the end of its lifetime and will soon be decommissioned. Therefore, we present an updated version of VPRM, pyVPRM, which provides a software framework with a modular structure that can be used with various satellite products, land cover maps, meteorological data sources, and VPRM model parameterizations. Our tool naturally provides an interface to use satellite data from Sentinel-2, MODIS and VIIRS, as well as global high-resolution land cover classification maps from the Copernicus Dynamic Land Cover Collection 3 and ESA World Cover at 100 m and 10 m resolution, respectively. Neither product is static, hence dynamic changes of the land cover from year to year can be represented. Using Sentinel-2, ecosystem fluxes can be calculated at a resolution of up to 20 m, providing more accurate flux estimates in heterogeneous landscapes like croplands and allowing to resolve small-scale vegetation patches as common in urban areas. In contrast, VIIRS data are at the same resolution as MODIS, and thus provide for continuity once MODIS is discontinued, requiring only minor adjustments to the VPRM data preprocessing. In addition, pyVPRM improves the data handling, for example for snow-covered scenes. This paper presents the pyVPRM framework, discusses changes and improvements compared to previous VPRM implementations, and provides VPRM parameters for the European domain based on indices calculated from MODIS, Sentinel-2 and VIIRS using a new, wind-speed-optimized selection of eddy-covariance observations from 97 flux tower sites. Using pyVPRM and the new parameters we observe significant improvements in the estimation of the European carbon budget. The results are well conform with those from inversion studies.",
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"abstractNote": "The exchange of water vapor between soil and atmosphere is a key component of land–atmosphere interactions, especially under dry conditions. Soil water vapor adsorption (SVA) occurs when the atmospheric water vapor pressure is greater than the soil air vapor pressure, which triggers the transport of water vapor from the atmosphere to the soil and its retention on the soil particle surface in liquid form. This process is largely caused by soil hydraulic properties and may play a significant role in dryland hydrology, yet remains understudied due to a lack of continuous, direct observations. In this study, we use globally distributed eddy covariance flux tower data to detect and characterize patterns of soil water vapor adsorption. We verify the consistency between negative latent heat fluxes as an indicator of water vapor movement toward the ground and the theoretical understanding of SVA. Our results reveal a relationship between the direction of the vapor gradient, as indicated by the direction of the latent heat flux, soil moisture, and near-surface relative humidity, which is consistent with the understanding of a phase equilibrium at the pore scale of the soil. Distinguishing between random noise and physically explainable occurrences of negative latent heat fluxes enables the characterization of SVA occurrence in eddy covariance observations. SVA is detected most frequent in arid and semiarid regions, particularly in ecosystems with sparse vegetation such as savannas and dry shrublands. On average, SVA occurs for 4 ± 1.1 h per night, and may last up to 7 h in some locations. In certain sites, SVA occurs on more than 150 nights per year. These findings suggest that the eddy covariance method can help monitor SVA occurrence. Mapping the spatiotemporal patterns of SVA enhances our understanding of dryland land–atmosphere water fluxes and uncovers a previously overlooked component of the terrestrial water cycle.",
"publicationTitle": "Global Change Biology",
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"abstractNote": "Global estimates of the terrestrial land-atmosphere flux of CO2 (NEE) from data-driven models differ widely depending on their underlying data and methodology. Bottom-up models trained on eddy-covariance data are most informative at the ecosystem-level. Top-down models, such as atmospheric inversions, produce regional and global results consistent with the 5 observed atmospheric growth rate, accurately capturing the interannual variability (IAV) of NEE. Both approaches have limitations estimating NEE across scales: Bottom-up models can miss large-scale dynamics of NEE when aggregated globally. Top-down approaches have difficulty relating the large-scale atmospheric signal to biophysical processes at smaller scales. To address these limitations, we create a model that uses a hybrid combination of direct observations and atmospheric dynamics to integrate ecosystem-level eddy-covariance data and atmospheric CO2 mole fraction data into a single coherent ecosystem-level 10 flux model.",
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"numChildren": 1
},
"data": {
"key": "8BC84G2S",
"version": 5668,
"itemType": "journalArticle",
"title": "Reducing the use of plant protection products and greenhouse gas emissions in arable farming systems in northern France (System-Eco+)",
"creators": [
{
"creatorType": "author",
"firstName": "Célestin",
"lastName": "Valentin"
},
{
"creatorType": "author",
"firstName": "Paul",
"lastName": "Belleville"
},
{
"creatorType": "author",
"firstName": "Sébastien",
"lastName": "Darras"
},
{
"creatorType": "author",
"firstName": "Fabien",
"lastName": "Ferchaud"
},
{
"creatorType": "author",
"firstName": "Joël",
"lastName": "Leonard"
},
{
"creatorType": "author",
"firstName": "Laure",
"lastName": "Mamy"
},
{
"creatorType": "author",
"firstName": "Jérôme",
"lastName": "Pernel"
},
{
"creatorType": "author",
"firstName": "Guillaume",
"lastName": "Vitte"
}
],
"abstractNote": "Crop protection and nitrogen fertilizers uses are the mainstays of large-scale cereal and industrial cropping systems in northern France. Biological and climatic effects call to design and evaluate cropping systems that cut the use of plant protection products by implementing counterbalancing agronomic levers aiming to maintain yields. An experimental set-up composed of 7 cropping systems located at the EstréesMons agronomic station (France) was monitored from 2018 to 2024. The experiment combined decrease in the use of plant protection products while improving the greenhouse gas (GHG) balance by reducing synthetic fertilization. The introduction of cropping systems designed to reduce the use of pesticides made it possible to achieve treatment frequency index (TFI) reductions of 70 to 100% without significantly affecting yields and while ensuring weed control. This also resulted in a significant reduction in fungicide and herbicide residues in the soil. The levers used to reduce the use of plant protection products have a neutral effect on greenhouse gas emissions, or even a favourable effect when leguminous crops are introduced into the succession to provide soil cover and balance the nitrogen balance.",
"publicationTitle": "",
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"place": "",
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"volume": "",
"issue": "",
"section": "",
"partNumber": "",
"partTitle": "",
"pages": "",
"series": "",
"seriesTitle": "",
"seriesText": "",
"journalAbbreviation": "",
"DOI": "",
"citationKey": "valentinReducingUsePlanta",
"url": "",
"accessDate": "",
"PMID": "",
"PMCID": "",
"ISSN": "",
"archive": "",
"archiveLocation": "",
"shortTitle": "",
"language": "en",
"libraryCatalog": "Zotero",
"callNumber": "",
"rights": "",
"extra": "",
"tags": [
{
"tag": "ACBB Mons"
},
{
"tag": "INRAE"
}
],
"collections": [
"GGB2WH6C"
],
"relations": {},
"dateAdded": "2026-03-24T15:12:59Z",
"dateModified": "2026-03-28T08:36:32Z"
}
}
]