Collection HAL

[hal-04520388] Equilibrium bids for reverse auctions when the budget is announced - Some preliminary results

We consider a budget-constrained reverse auction: offers are accepted until some predefined budget is exhausted. Payments are discriminatory: bidders receive their own bid as payment when they win the bid. Bidders have a private value for their item which is uniformly distributed between 0 and 1; they are risk-neutral and items are indivisible. For small budget and an arbitrary number of bidders, as well as in the case of two bidders, we find an equilibrium bidding function. When possible, we compare with the equilibrium bidding function of target-constrained reverse auctions.

ano.nymous@ccsd.cnrs.fr.invalid (Alain Jean-Marie) 26 Mar 2024

https://inria.hal.science/hal-04520388v1

[hal-05249655] Promotion of Translational Research in Plants by the Development of a Knowledge Graph Framework: A case Study on Grain Legumes

With global population growth, climate change and evolving regulations on the use of pesticides herbicides, researchers and breeders must adapt and accelerate crop improvement to meet the challenges ahead. Major crops have benefited from genomic efforts, which have enabled the identification of key genetic drivers that can be rapidly implemented to ensure food security. Thanks to translational research, less studied crops, including some legumes, can benefit from both the wealth of research and, in particular, the knowledge available from closely related crops or species. This requires the correct identification of functional orthologs, the retrieval of available data and knowledge, and the linking of diverse heterogeneous data, which becomes more difficult as the number of species increases. To facilitate this process of translational research, we have developed two pipelines, namely the structural and the functional pipeline, to create a framework for a NoSQL graph database (Neo4j) to integrate and query heterogeneous data from multiple species. The structural pipeline identifies orthologous genes and syntenic chromosomal regions to highlight functional orthologs that serve as bridges between species for knowledge transfer. The functional pipeline integrates published and unpublished biological information, including quantitative trait loci (QTL) and RNA-seq datasets, and uses the backbone from the structural pipeline to connect orthologs in the database. The constructed graph, called Ortho_KB and its instance for legumes OrthoLegKB, can be queried to make quasi-instantaneous use of the included datasets. This platform can be useful, for example, for comparing current knowledge on complex genetic traits, checking the conservation of genes of interest within QTL intervals, crossing information on gene expression profiles or suggesting pleiotropy.

ano.nymous@ccsd.cnrs.fr.invalid (Baptiste Imbert) 11 Sep 2025

https://hal.inrae.fr/hal-05249655v1

[hal-04145269] A workflow for processing global datasets: application to intercropping

Field experiments are a key source of data and knowledge in agricultural research. An emerging practice is to compile the measurements and results of these experiments (rather than the results of publications, as in meta-analysis) into global datasets. Our aim in the present study was to provide several methodological paths related to the design of global datasets. We considered 37 field experiments as the use case for designing a global dataset and illustrated how tidying and disseminating the data are the first steps towards open science practices. We developed a method to identify complete factorial designs within global datasets using tools from graph theory. We discuss the position of global datasets in the continuum between data and knowledge, compared to other approaches such as meta-analysis. We advocate using global datasets more widely in agricultural research.

ano.nymous@ccsd.cnrs.fr.invalid (Rémi Mahmoud) 27 Mar 2024

https://hal.inrae.fr/hal-04145269v4

[hal-05652738] Spatio-temporal field, landscape and meteorological datasets describing bruchid beetle populations, grain damage and parasitism in faba bean and lentil fields in France

This dataset provides a multi-scale and multi-year characterization of population, grain damage and larval parasitism of bruchid beetle populations (Coleoptera: Chrysomelidae: Bruchinae) populations, i.e. Bruchus rufimanus Boheman, 1833 and Bruchus signaticornis Gyllenhal, 1833. This dataset covers 45 faba bean (Vicia faba Linnaeus, 1753) and 60 lentil (Lens culinaris Medikus, 1787) fields across four major production regions in France. Data were collected over three consecutive growing seasons (2019-2020 to 2021-2022) across three phenological crop stages (vegetative, flowering, and young pods) and at five distances from field edge to capture spatio-temporal dynamics. Datasets include bruchid counts, grain damage as well as parasitism rates by micro-hymenoptera (mainly Triaspis cf.<p>thoracica Curtis, 1860). Field observations are integrated with environmental variables, including GISbased landscape metrics (land use, semi-natural habitats, and hedgerow length) calculated at 500, 1000, and 2000 m buffer radii from field observation plots. Additionally, daily meteorological data from the SAFRAN platform (https://agroclim.inrae.fr/siclima/) at a resolution of 8-km grid and then aggregated per crop stage, covering temperature thresholds, precipitation, and wind speed.Agricultural management information, such as crop sowing dates, varieties, tillage and pest management, is also provided for each of the 105 fields. This integrated dataset allows for crossdisciplinary reuse in agronomy, ecology, and entomology to explore pest-enemy interactions, edge effects, and the influence of landscape and climate on crop-pest dynamics.</p>

ano.nymous@ccsd.cnrs.fr.invalid (Cayetano Herrera) 12 Jun 2026

https://hal.inrae.fr/hal-05652738v2

[hal-05627550] Intercropping chickpea with a competitive service plant and mowing the inter-rows controls weeds and ascochyta blight while mitigating interspecific competition

Chickpea (Cicer arietinum L.) is a promising crop for adapting to climate change and reducing the reliance of cropping systems on synthetic N fertilizers. However, its yield is highly variable, mainly due to weed competition and ascochyta blight (Ascochyta rabiei). Hence, this study investigated the effects of intercropping chickpea with a mowed service plant to control both weeds and ascochyta blight, while mitigating competition to minimise yield reductions. In a two-year field experiment in Western France, chickpea was grown as sole crop and intercropped with four single service plants (Egyptian clover, faba bean, oat, and Sudan grass) in alternate rows. These species were chosen for their contrasted traits, allowing to create different levels of interspecific competition. Chickpea’s inter-rows were either mowed at the beginning of flowering or left without mechanical regulation. Introducing oat decreased weed biomass in both years. Under high weed and disease pressures, adding unmowed oat reduced both weed biomass and ascochyta blight severity by 66% and 56% compared to the unmowed sole chickpea, respectively. No differences were found between the sole chickpea and the other intercrops. Unlike the other species, oat had a high biomass production early in the crop cycle, which partly explains its weed-suppression effect. However, adding oat reduced chickpea grain yield in 2023 by 72%, although mowing limited this reduction to 48%. This study highlights that intercropping chickpea with a mowed competitive service plant that generates an aerated canopy, like oat, can help to control both weeds and ascochyta blight, while mitigating interspecific competition.

ano.nymous@ccsd.cnrs.fr.invalid (Margaux Guy) 20 May 2026

https://hal.science/hal-05627550v1

[hal-04263759] Comparing input interfaces to elicit belief distributions

This paper introduces a new software interface to elicit belief distributions of any shape: Click-and-Drag . The interface was tested against the state of the art in the experimental literature—a text-based interface and multiple sliders—and in the online forecasting industry—a distribution-manipulation interface similar to the one used by the most popular crowd-forecasting website. By means of a pre-registered experiment on Amazon Mechanical Turk, quantitative data on the accuracy of reported beliefs in a series of induced-value scenarios varying by granularity, shape, and time constraints, as well as subjective data on user experience were collected. Click-and-Drag outperformed all other interfaces by accuracy and speed, and was self-reported as being more intuitive and less frustrating, confirming the pre-registered hypothesis. Aside of the pre-registered results, Click-and-Drag generated the least drop-out rate from the task, and scored best in a sentiment analysis of an open-ended general question. Further, the interface was used to collect homegrown predictions on temperature in New York City in 2022 and 2042. Click-and-Drag elicited distributions were smoother with less idiosyncratic spikes. Free and open source, ready to use oTree, Qualtrics and Limesurvey plugins for Click-and-Drag, and all other tested interfaces are available at https://beliefelicitation.github.io/ .

ano.nymous@ccsd.cnrs.fr.invalid (Paolo Crosetto) 11 Oct 2024

https://hal.science/hal-04263759v1

[hal-05671803] Social Learning to Reduce Pesticides: Evidence from a French Agricultural Extension Programme

Social learning is likely to play a crucial role in disseminating new agricultural technologies and driving the agroecological transition in European countries. We evaluated a French pesticide reduction programme designed to train farmers and promote practices through demonstration days on participating farms. Using pseudo-panel data from surveys conducted before and after the programme’s launch, we found evidence of decreased pesticide use among cohorts linked to farms attending demonstration days. Our analysis, supported by a placebo test and various robustness checks, suggests that peer-sharing in training programmes can scale up effectively at no additional cost.

ano.nymous@ccsd.cnrs.fr.invalid (Rose Deperrois) 27 Jun 2026

https://hal.science/hal-05671803v1

[hal-05671801] Early Adopters and the Diffusion of Agroecological Knowledge in Peer Groups

Peer-to-peer knowledge diffusion is increasingly recognized as a key mechanism in various economic contexts and may play a crucial role in fostering the adoption of agroecological practices among farmers. However, the conditions for effective peer learning remain poorly understood, particularly regarding the role of the injection point -- the first individual to receive information -- within a peer group. This study examines whether the profile of the injection point affects the diffusion of agroecological knowledge. We conduct a randomized controlled trial (RCT) with roughly 850 voluntary French farmers, randomly assigned to peer groups on a digital communication platform. Over an 18-month period, only one farmer per treated group receives information on agroecology, serving as the injection point for diffusion. Treatment varies according to whether the injection point is an early adopter of agroecology or an ordinary peer. A benchmark group receives direct broadcasting of the information to all members. The experiment began in January 2025 and will run until June 2026, with data collection ongoing.

ano.nymous@ccsd.cnrs.fr.invalid (Rose Deperrois) 27 Jun 2026

https://hal.science/hal-05671801v1

[hal-04848563] Tailored policies for perennial woody crops are crucial to advance sustainable development

Perennial woody crops, which are crucial to our diets and global economies, have the potential to play a major role in achieving multiple UN Sustainable Development Goals pertaining to biodiversity conservation, socio-economic development and climate change mitigation. However, this potential is hindered by insufficient scientific and policy attention on perennial woody crops, and by the intensification of perennial crop cultivation in the form of monocropping with high external inputs. In this Perspective, we highlight the potential of properly managed and incentivized perennial woody crops to support holistic sustainable development and urge scientists and policymakers to develop an effective agenda to better harness their benefits.

ano.nymous@ccsd.cnrs.fr.invalid (Carlos Martinez-Nuñez) 19 Dec 2024

https://hal.science/hal-04848563v1

[hal-04982331] Biology-Informed inverse problems for insect pests detection using pheromone sensors

Most insects have the ability to modify the odor landscape in order to communicate with their conspecies during key phases of their life cycle such as reproduction. They release pheromones in their nearby environment, volatile compounds that are detected by insects of the same species with exceptional specificity and sensitivity. Efficient pheromone detection is then an interesting lever for insect pest management in a precision agroecological culture context. A precise and early detection of pests using pheromone sensors offers a strategy for pest management before infestation. In this paper, we develop a biology-informed inverse problem framework that leverages temporal signals from a pheromone sensor network to build insect presence maps. Prior biological knowledge is introduced in the inverse problem by the mean of a specific penalty, using population dynamics PDE residuals. We benchmark the biological-informed penalty with other regularization terms such as Tikhonov, LASSO or composite penalties in a simplified toy model. We use classical comparison criteria, such as target reconstruction error, or Jaccard distance on pest presence-absence. But we also use more task-specific criteria such as the number of informative sensors during inference. Finally, the inverse problem is solved in a realistic context of pest infestation in an agricultural landscape by the fall armyworm (Spodoptera frugiperda).

ano.nymous@ccsd.cnrs.fr.invalid (Thibault Malou) 07 Mar 2025

https://hal.science/hal-04982331v1

[hal-04481765] Pest detection from a biology-informed inverse problem and pheromone sensors

One third of the annual world's crop production is directly or indirectly damaged by insects. Early detection of invasive insect pests is key for optimal treatment before infestation. Existing detection devices are based on pheromone traps: attracting pheromones are released to lure insects into the traps, with the number of captures indicating the population levels. Promising new sensors are on development to directly detect heromones produced by the pests themselves and dispersed in the environment. Inferring the pheromone emission would allow locating the pest's habitat, before infestation. This early detection enables to perform pesticide-free elimination treatments, in a precision agriculture framework. In order to identify the sources of pheromone emission from signals produced by sensors spatially positioned in the landscape, the inference of the pheromone emission (inverse problem) is performed. Classical inference is conducted by combining the data and the so-called direct model [1]. In the present case, this entails combining the data from the pheromone sensors and the pheromone concentration dispersion that is a 2D reaction-diffusion-convection model [2]. In the proposed method, the inference involves not only the coupling of the pheromone dispersion model with the pheromone sensors data but also incorporates a priori biological knowledge on pest behaviour (favourite habitat, insect clustering for reproduction, population dynamic behaviour...). This information is introduced to constrain the inverse problem towards biologically relevant solutions. Different biology-informed constraints are tested, and the accuracy of the solutions of the inverse problems is assessed on simulated noisy data. [1] Bocquet, M. (2014). Introduction to the Principles and Methods of Data Assimilation in the Geosciences. Lectures note. [2] Stockie, J.M. (2011). The Mathematics of Atmospheric Dispersion Modeling. SIAM Review.

ano.nymous@ccsd.cnrs.fr.invalid (Thibault Malou) 28 Feb 2024

https://hal.science/hal-04481765v1

[hal-03834661] Single seed microbiota: assembly and transmission from parent plant to seedling

The seed acts as the primary inoculum source for the plant microbiota. Understanding the processes involved in its assembly and dynamics during germination and seedling emergence has the potential to allow for the improvement of crop establishment. Changes in the bacterial community structure were tracked in 1,000 individual seeds that were collected throughout seed developments of beans and radishes. Seeds were associated with a dominant bacterial taxon that represented more than 75% of all reads. The identity of this taxon was highly variable between the plants and within the seeds of the same plant. We identified selection as the main ecological process governing the succession of dominant taxa during seed filling and maturation. In a second step, we evaluated the seedling transmission of seed-borne taxa in 160 individual plants. While the initial bacterial abundance on seeds was not a good predictor of seedling transmission, the identities of the seed-borne taxa modified the phenotypes of seedlings. Overall, this work revealed that individual seeds are colonized by a few bacterial taxa of highly variable identity, which appears to be important for the early stages of plant development.

ano.nymous@ccsd.cnrs.fr.invalid (Guillaume Chesneau) 05 Sep 2024

https://hal.inrae.fr/hal-03834661v1

[hal-05613501] From Concept to Perspective: Digital Twins of Microbial Systems

Digital twins (DTs) are increasingly recognized across diverse sectors for their capacity to enhance the control, efficiency, and comprehension of the physical or biological systems they represent. For microbial systems, DTs could allow model-guided improvements of the services provided by the microbial communities in the agrifood chain. While DTs definitions are generally built on the same core idea of bi-directional exchanges between digital and physical counterparts, where realtime data feeds digital models and model-driven insights guide the real system, a wide variety of definitions of what is a DT still co-exist across domains. This variability underscores the need for a clear, system-specific definition of DTs for microbial ecosystems. In this perspective paper, we propose a conceptual framework for microbial system digital twins (MSDTs), defined as a collection of models dynamically linked to the microbiological system through in-line, at-line or off-line data and control flows. We illustrate this framework with examples spanning environmental, bioprocess, plant, animal, food, and human microbial systems, in a One Health perspective. For each ecosystem, we explore the potential applications of MSDTs. We also identify the scientific challenges that remain in experiments, bioinformatics, data science, modeling, control and microbial ecosystem engineering to build accurate MSDTs. We advocate for the development of MSDT in laboratory settings, as a catalyst for interdisciplinary sciences, and we stress practical and ethical issues preventing the generalization of MSDT for large-scale applications. However, high-tech MSDTs in laboratory environments may pave the way for low-tech, generalizable microbial solutions for improved ecosystemic microbial services.

ano.nymous@ccsd.cnrs.fr.invalid (Simon Labarthe) 06 May 2026

https://hal.inrae.fr/hal-05613501v1

[hal-04572831] Biology-Informed inverse problems for insect pests detection using pheromone sensors

Most insects have the ability to modify the odor landscape in order to communicate with their conspecies during key phases of their life cycle such as reproduction. They release pheromones in their nearby environment, volatile compounds that are detected by insects of the same species with exceptional specificity and sensitivity. Efficient pheromone detection is then an interesting lever for insect pest management in a precision agroecological culture context. A precise and early detection of pests using pheromone sensors offers a strategy for pest management before infestation. In this paper, we develop a biology-informed inverse problem framework that leverages temporal signals from a pheromone sensor network to build insect presence maps. Prior biological knowledge is introduced in the inverse problem by the mean of a specific penalty, using population dynamics PDE residuals. We benchmark the biological-informed penalty with other regularization terms such as Tikhonov, LASSO or composite penalties in a simplified toy model. We use classical comparison criteria, such as target reconstruction error, or Jaccard distance on pest presence-absence. But we also use more task-specific criteria such as the number of informative sensors during inference. Finally, the inverse problem is solved in a realistic context of pest infestation in an agricultural landscape by the fall armyworm (Spodoptera frugiperda).

ano.nymous@ccsd.cnrs.fr.invalid (Thibault Malou) 28 Jan 2025

https://hal.inrae.fr/hal-04572831v3

[hal-04072544] Logical design of multi-model data warehouses

Multi-model DBMSs, which support different data models with a fully integrated backend, have been shown to be beneficial to data warehouses and OLAP systems. Indeed, they can store data according to the multidimensional model and, at the same time, let each of its elements be represented through the most appropriate model. An open challenge in this context is the lack of methods for logical design. Indeed, in a multi-model context, several alternatives emerge for the logical representation of dimensions and facts. The goal of this paper is to devise a set of guidelines for the logical design of multi-model data warehouses so that the designer can achieve the best trade-off between features such as querying, storage, and ETL. To this end, for each model considered (relational, document-based, and graph-based) and for each type of multidimensional element (e.g., non-strict hierarchy) we propose some solutions and carry out a set of intra-model and inter-model comparisons. The resulting guidelines are then tested on a case study that shows all types of multidimensional elements.

ano.nymous@ccsd.cnrs.fr.invalid (Sandro Bimonte) 07 Aug 2023

https://hal.inrae.fr/hal-04072544v1

[hal-04206539] Be high on emotion: Coping with emotions and emotional intelligence when querying data

Emotional Intelligence (EI) is the capacity to use emotions to properly guide our actions. In this paper, we adopt the EI approach to explore the interplay between data, emotions, and actions, thus lying the foundations for an emotional approach to querying. The framework we propose relies on a four-layer model that describes (i) how emotions are connected to each other, (ii) which data may give rise to emotions, (iii) which emotions will be triggered in each user when seeing each piece of data, and (iv) which actions will be done as a consequence. The application scenario we propose for our framework is that of Business Intelligence, specifically, of a set of KPIs connected to the users' goals. To illustrate our proposal, we introduce a working example in the field of e-commerce and use the Datalog syntax to formalize it.

ano.nymous@ccsd.cnrs.fr.invalid (Sandro Bimonte) 13 Sep 2023

https://hal.inrae.fr/hal-04206539v1

[hal-05633888] Untargeted metabolomic dataset of leaves from twenty-four accessions of wild and cultivated tomato plants

Tomato (Solanum lycopersicum var. lycopersicum), one of the most important crops worldwide, has a complex domestication history that began in Latin America, region hosting also fourteen wild relative species and subspecies. Domestication and subsequent breeding efforts have led to the development of the modern cultivated tomato, prized for its agronomic performance and economic value. However, this process also resulted in a substantial erosion of genetic and metabolic diversity, potentially limiting the plant’s adaptive capacity and resilience to environmental stresses. Previous comparative studies between domesticated tomato cultivars and wild relative species have underscored the evolutionary shifts in various plant traits associated with biotic stress. Yet, most of these studies relied on a limited number of wild accessions, reflecting a general tendency to underestimate their genetic and metabolic diversity. In this study, we sought to characterize both intra- and inter-specific metabolic diversity in tomato and its wild relatives. Using Liquid Chromatography High Resolution Mass Spectrometry (LC-HRMS) analysis, we profiled the chemical composition of hydro-methanolic leaf extracts from twenty-four accessions representing five Solanum species and subspecies, each with distinct natural histories and domestication levels. This dataset provides a comprehensive overview of leaf metabolic diversity across cultivated and wild tomato species, offering insights into the evolutionary and ecological forces shaping specialized metabolism within the tomato clade. It is available at https://doi.org/10.57745/QM0BOR.

ano.nymous@ccsd.cnrs.fr.invalid (Komla Exonam Amegan) 27 May 2026

https://hal.science/hal-05633888v1

[hal-03664111] An ecological-economic model of land-use decisions, agricultural production, and biocontrol

The regulation of agricultural pests by their natural enemies is a key step in the agroecological transition. The level of biocontrol seems, however, to highly depend on the agronomic and ecological context. It is thus important to identify the conditions under which this ecosystem service is efficient as well as the magnitude of its effects. An actual reduction of pesticide use depends on a change in farmers decisions, calling for the consideration of economic dimensions. We develop a dynamic agroecological-economic model representing land-use and agricultural intensity decisions as well as the dynamics of a crop pest and a natural enemy. Biocontrol is assessed considering both private benefits (increase in farmers' profit) and public benefits (reduction of pesticide use) with respect to a situation without a natural enemy. We provide a theoretical assessment of the magnitude of biocontrol over a wide range of agronomic contexts (spatially explicit maps of agricultural production potential, with heterogeneous distribution and a control of spatial fragmentation) and ecological contexts, described through various parameter values of a reaction-diffusion model. The contexts in which biocontrol plays a significant role are identified, and the role of key parameters discussed. Our open-access model offers a tool to investigate alternative specifications.

ano.nymous@ccsd.cnrs.fr.invalid (Vincent V. Martinet) 10 May 2022

https://hal.inrae.fr/hal-03664111v1

[hal-05615322] Strategic free-riding in pest control: Theory and evidence in organic-conventional mixed landscapes

Organic and conventional farmers face the same pests but differ in technologies and economic incentives to control them. This paper theoretically and empirically characterizes the strategic interactions for pest control between these two types of farmers within mixed organic-conventional landscapes. Our non-cooperative game model shows that each farmer type is expected to strategically free-ride on the other’s control efforts when managing a sufficiently small share of the landscape, and that the extent of free-riding increases with lower pest pressure, higher relative treatment costs, and lower treatment efficacy. Using exhaustive French postcode-level data on insecticide purchases against the vector of a vine disease (Flavescence dorée), we provide empirical support for all our theoretical propositions. Our preferred estimates indicate that organic farmers free-ride on conventional farmers’ efforts until they reach about 8% of the landscape. Beyond this threshold, organic treatments only partially substitute for reduced conventional treatments, up to a point where conventional farmers may eventually free-ride if the organic landscape share becomes large enough. Consistent with the model’s predictions, high pest pressure substantially reduces the scope for free-riding, while differences in relative treatment costs and treatment efficacy also affect its extent, though to a lesser degree.

ano.nymous@ccsd.cnrs.fr.invalid (François Bareille) 07 May 2026

https://hal.inrae.fr/hal-05615322v1

[hal-04057671] To tax or to ban? A discrete choice experiment to elicit public preferences for phasing out glyphosate use in agriculture

In 2023, the European Union will vote on the reauthorization of glyphosate use, renewed in 2017 despite concern on impacts on the environment and public health. A ban is supported by several Member States but rejected by most farmers. What are citizens’ preferences to phase out glyphosate? To assess whether taxation could be an alternative to a ban, we conducted a discrete choice experiment in five European countries. Our results reveal that the general public is strongly willing to pay for a reduction in glyphosate use. However, while 75.5% of respondents stated to support a ban in the pre-experimental survey, experimental results reveal that in 73.35% of cases, earmarked taxation schemes are preferred when they lead to a strong reduction in glyphosate use for an increase in food price lower than that induced by a ban. When glyphosate reduction is balanced against its costs, a tax may be preferred.

ano.nymous@ccsd.cnrs.fr.invalid (Amalie Bjørnåvold) 14 Sep 2023

https://hal.science/hal-04057671v1

[hal-05031294] Cost vector effects in forced-choice discrete choice experiments: Assessing the acceptability of future glyphosate policies

One way to evaluate future policies that significantly deviate from the status quo is through discrete choice experiments (DCEs) with a reference policy featuring a positive cost and no opt-out option. This study examines how the design of the cost vector, particularly the cost assigned to the reference policy, influences DCE outcomes in this context. Focusing on glyphosate phase-out policies in France, we compare a strict ban (used as the reference policy) with taxation alternatives. Using a split-sample design with two groups of 500 individuals, we analyze how variations in the ban’s cost and the associated cost range affect welfare estimates. Our findings reveal that while overall preference rankings remain consistent across samples, willingness-to-pay for some attributes increases when the reference policy’s cost rises. We explore potential drivers of this effect, including the inability to choke off demand for the ban, strategic biases, attribute non-attendance, relative evaluation, and anchoring bias. The results suggest that relative evaluation and anchoring bias are the most likely explanations for the observed differences. These findings provide methodological insights for addressing cost vector effects in DCEs.

ano.nymous@ccsd.cnrs.fr.invalid (Vincent Martinet) 15 Jun 2026

https://hal.inrae.fr/hal-05031294v1

[hal-05681565] Quantitative resistance to aphanomyces root rot in legumes

Aphanomyces root rot, caused by the soilborne oomycete Aphanomyces euteiches Drechs., is an important threat to legume crop production. In susceptible grain legumes, such as pea (Pisum sativum) and lentil (Lens culinaris), the disease can cause total yield loss under favorable infection conditions. No effective and durable method of disease control is currently available. Therefore, farmers are advised to prevent the spread of the pathogen through crop rotations with non-host or resistant crops, and by monitoring soil inoculum levels using detection tests. Genetic resistance is an essential method to manage crop diseases. Indeed, significant progress has been achieved over the past three decades in identifying quantitative trait loci (QTL) for resistance to A. euteiches mainly in pea, but also in lentil, faba bean (Vicia faba), and the model species Medicago truncatula. These advances in genetics research have led to the recent registration in France of the first partially resistant pea varieties. This feature article provides a review of the research knowledge on A. euteiches x legumes pathosystem, as well as plant sources of resistance, genetic determinants, and molecular mechanisms of quantitative resistance to A. euteiches currently being deciphered in pulse grains and the model legume studied. It also highlights future research directions for the development of effective and durable resistance in legume varieties.

ano.nymous@ccsd.cnrs.fr.invalid (Théo Leprévost) 06 Jul 2026

https://hal.science/hal-05681565v1

[hal-05513491] The Vitis vinifera receptor VvLYK6 negatively regulates chitin-triggered immune responses and promotes fungal infections

Introduction: Botrytis cinerea is recognized as one of the most damaging fungal pathogens affecting grapevine (Vitis vinifera), directly impacting both grape yield and wine quality. Identifying new genes involved in the interaction between V. vinifera and B. cinerea appears to be a promising strategy for enhancing grapevine resistance in future breeding programs. During pathogen infection, plasma membranelocalized pattern recognition receptors (PRRs) are responsible for detecting conserved microbe-associated molecular patterns (MAMPs). Among PRRs, members of the LysM receptor-like kinase family are well known to mediate the recognition of fungal MAMPs and trigger plant immune signaling pathways. Interestingly, a novel member of this receptor family, named VvLYK6, was identified in grapevine as the most highly upregulated during B. cinerea infection. Methods: To investigate the role of VvLYK6 in plant immunity, we conducted overexpression studies in Arabidopsis thaliana and grapevine cell suspensions. Results: Overexpression of VvLYK6 led to a reduction in chitin-induced MAPK activation, decreased expression of defense-related genes, reduced callose deposition, and increased plant susceptibility to fungal pathogens in A. thaliana. Discussion: Based on these findings, we conclude that VvLYK6 acts as a negative regulator of chitin-triggered immune responses, suggesting its potential role as a susceptibility gene during fungal infections.

ano.nymous@ccsd.cnrs.fr.invalid (Jérémy Villette) 16 Feb 2026

https://hal.science/hal-05513491v1

[hal-05559257] Atelier 4 : le matériel agricole pour conduire les systèmes agroécologiques

Le matériel agricole et la thématique de l’agroéquipement tiennent une place importante dans la réflexion sur la conception et la mise en œuvre des systèmes de culture innovants sans pesticides sur CA-SYS. Les choix de matériel sont arbitrés selon les modes de conduite de chacun des systèmes SD et TS. La facilité de mise en œuvre, le dimensionnement, la modularité et la polyvalence constitueront le second niveau. Le coût d’utilisation intégrant le prix d’achat et le coût d’entretien restent des critères de choix importants à considérer mais dans un contexte expérimental ils ne sont pas prépondérants dans la chaine de décision. L’unité expérimentale U2E est équipée d’une borne RTK permettant un radioguidage du matériel à la précision centimétrique et communique par radio ou GSM afin d’être compatible avec la plupart des équipements d’agriculture de précision. Le parc matériel actuellement déployé sur CA-SYS est présenté en fonction des grandes phases d’un cycle cultural et de la gestion des infrastructures agroécologiques. Les objectifs de l’intervention et les cibles visées peuvent être communes pour chacune des périodes, par exemple limiter le développement des adventices. - La gestion de l’interculture Les matériels mis en œuvre pour le travail du sol dans les systèmes TS sont adaptés à nos sols argilo-calcaires : charrue, décompacteur, outils à dents pour un travail profond à superficiel, herse rotative. La gestion des systèmes SD implique de pouvoir détruire un couvert végétal d’interculture, via l’utilisation d’un rouleau hacheur, d’un broyeur et d’une faucheuse frontale. - Le semis Les modalités de semis sont différentes selon les systèmes, les cultures et les stratégies de gestion des adventices. Semoir à céréales en ligne à faible écartement, semoir de précision monograine, semoir de semis direct à disques ou à dents adaptés à des sols plus compacts pour semer dans un couvert végétal ou mulch sont utilisés sur CA-SYS. Les réglages seront définis pour optimiser l’implantation de la culture en tenant compte des états du milieu générés par chaque système mais également pour favoriser le passage des outils de désherbage mécanique aux différents stades de la culture et des adventices. - La gestion des adventices Une grande diversité d’outils de désherbage mécanique est mobilisée pour gérer les adventices en fonction du stade de la culture et des adventices, de l’état du milieu et des modalités de conduite du système (TS vs SD). - La récolte La diversification et l’agencement des cultures sur la plateforme CA-SYS crée des situations de récoltes très variées (cultures pures, associées). Afin de maintenir la qualité des récoltes malgré des cas de mauvaise maitrise des adventices, de nouveaux matériels ont été acquis et sont présentés (coupe andaineuse, pick-up). - La gestion des infrastructures agroécologiques Broyeur et faucheuse frontale sont mobilisés pour la gestion extensive des bandes enherbées pour éviter la grenaison des adventices dans les parcelles. La récente reconception des systèmes SD a conduit à définir des nouvelles cibles aux systèmes et donc des nouveaux besoins en matériel de type strip till sur la ligne de semis combiné à du broyage ou fauchage pour gérer l’inter-rang. Du matériel est disponible sur le marché pour nos grands écartements (45 cm) mais reste à concevoir pour de faibles inter-rangs de 15 cm. Ce travail de développement et prototypage est en cours avec des partenaires dans le cadre de projets de recherche d’innovation couplée agronomie/machinisme. D’autres besoins se font sans cesse sentir et sont questionnés aux regards de leur efficacité et de leur coût. Depuis le lancement de CA-SYS une réflexion est en cours pour la gestion des menues pailles et l’exportation ou la destruction sur place des graines adventices et petits grains de cultures. Certains matériels (scalpeur, désherbage électrique, rouleau hacheur, rouleau ripeur, strip-till etc) sont testés ponctuellement dans nos conditions expérimentales pour évaluer leurs intérêts.

ano.nymous@ccsd.cnrs.fr.invalid (Cordeau, S.) 19 Mar 2026

https://hal.inrae.fr/hal-05559257v1

[hal-05559182] Atelier 1 : les systèmes en semis direct, leurs performances agronomiques, économiques et environnementales, nos apprentissages et les pistes d’adaptation

L’agriculture de conservation des sols (ACS) repose sur trois piliers : non travail du sol, couverture des sols et diversification des successions, contribuant à favoriser différents services écosystémiques. Au-delà de leurs bénéfices, les systèmes en ACS sont généralement confrontés à des problèmes de maîtrise de la flore adventice, qui n’est plus régulée par le travail du sol. Ces systèmes peuvent donc être fortement dépendants des herbicides pour maitriser les communautés adventices sur le long terme. Concevoir des systèmes minimisant ou se passant du travail du sol sans pesticides représente donc un des gros défis de la plateforme CA-SYS. L’arrêt sans transition de l’usage du travail du sol et des pesticides a permis de se confronter rapidement à des situations agronomiques difficiles amenant à des impasses différentes selon les systèmes : - En SD1 (semis-direct permanent) : grosses difficultés pour mettre en place des cultures après 3 ans du fait de la mauvaise maitrise des limaces, campagnols et adventices (principalement graminées), ayant conduit à l’impossibilité de récolter 8 des 10 parcelles lors de la 5ème année d’expérimentation. - En SD2 (semis-direct non permanent) : augmentation très rapide des populations de chardons des champs, ayant conduit à installer de la luzerne pour 3 ans sur 4 des 10 parcelles dès 2021 puis sur 3 autres parcelles plus récemment. Les hypothèses testées dans les systèmes SD ont donc été en échec sur les 5 premières années : - En SD1, miser sur la couverture du sol et la non stimulation du stock semencier s’est avéré inefficace pour limiter l’installation des adventices graminées et astéracées, annuelles et vivaces. Les étés secs n’ont pas permis l’installation de couverts compétitifs, et le recours à l’irrigation des couverts en SD1 ne leur donne pas d’avantage compétitif. - En SD2, miser sur une perturbation minimale superficielle du sol a toujours posé question : le scalpage s’est parfois avéré peu efficace sur les repousses de cultures ou graminées dans le cas d’une faible intensité de la perturbation ; il a aussi engendré la multiplication du chardon ou du chiendent. Les conditions de mise en œuvre sont toujours compliquées : trop humide et non séchant en automne, trop sec et irrégulier au printemps Les alternatives au glyphosate en semis-direct pour la destruction des couverts/adventices/repousses de cultures ne sont pas nombreuses et sont toutes sujettes à critique quant à leur niveau d’efficacité de destruction de la végétation en place, leur impact sur le sol, la diversité biologique des sols (bactéries, champignons, vers de terre, autre mésofaune), leur rentabilité économique, etc… La plateforme CA-SYS permet donc de tester des méthodes alternatives dans des essais analytiques et d’en évaluer les effets intentionnels et non intentionnels afin de produire des connaissances et des références utiles pour l’adaptation des systèmes testés sur CA-SYS et plus largement pour la conception de systèmes de culture sans herbicides, y compris glyphosate. L’atelier présentera : - Les stratégies de gestion mises en œuvre dans les systèmes SD1 et SD2 - Les observations, les facteurs limitants, les rendements de cultures - La multiperformance des systèmes SD1 et SD2 - Les acquis agronomiques et questions soulevées et les évolutions engagées - Les essais analytiques menés pour la destruction des couverts sans pesticides

ano.nymous@ccsd.cnrs.fr.invalid (Cordeau, S.) 19 Mar 2026

https://hal.inrae.fr/hal-05559182v1

[hal-05559270] Atelier 5 : la diversité végétale et la gestion des bioagresseurs

La diversification végétale des parcelles et des paysages agricoles contribue à la régulation naturelle des différents bioagresseurs des cultures. Sur CA-SYS, la diversité végétale est mobilisée pour : - gérer préventivement les bioagresseurs par des effets dilution ou barrière, - alterner les cycles et mobiliser le pouvoir couvrant pour concurrencer les adventices, - favoriser les auxiliaires des cultures pour leur fonction de régulation biologique, - répartir les aléas annuels de pressions biotiques et/ou climatiques. La diversification végétale est pensée à différente échelles. A l’échelle de la parcelle, nous misons sur des mélanges variétaux et des mélanges d’espèces (association). Nous diversifions aussi à l’échelle de la succession culturale avec une grande diversité de cultures principales et la mise en place de cultures dérobées et de couverts végétaux. Enfin la diversification est aussi pensée à l’échelle du petit paysage via l’assolement des cultures et l’introduction d’infrastructures agroécologiques de types haies, bandes enherbées et fleuries mises en place pour fournir un habitat et des ressources trophiques aux auxiliaires des cultures. Cet atelier présente - les modalités de diversification mises en œuvre à l’échelle des 125 ha de la plateforme CA-SYS - des expérimentations analytiques en cours visant à étudier les effets de la diversification intra et interspécifique sur la production (rendement et qualité) et la régulation des ravageurs et des adventices - des études conduites sur les données du réseau DEPHY-Ferme sur le lien entre réduction de l’usage des pesticides et diversification temporelle des cultures.

ano.nymous@ccsd.cnrs.fr.invalid (Cordeau, S.) 19 Mar 2026

https://hal.inrae.fr/hal-05559270v1

[hal-05559243] Atelier 3 : la biodiversité et les services de régulation biologique, les infrastructures agroécologiques mises en place pour favoriser la biodiversité, les suivis biodiversité et les premiers résultats

Lors de la conception de la plateforme expérimentale CA-SYS, un principe important était de mobiliser des leviers de gestion qui favorisent la biodiversité, et notamment les auxiliaires qui contribuent à la régulation naturelle des bioagresseurs de culture. L’arrêt de l’usage de produits phytopharmaceutiques, l’importante diversification des couverts végétaux cultivés, et la réduction importante du travail du sol dans certains systèmes sont des facteurs propices à une évolution favorable de la biodiversité. En complément, près de 10% de la SAU de CA-SYS est aujourd’hui dédiée à des infrastructures agroécologiques (haies, bandes enherbées, bandes fleuries) ; elles forment des corridors écologiques offrant des refuges, des ressources complémentaires et des conditions microclimatiques favorables qui à terme doivent favoriser l’installation puis le maintien de la biodiversité en bordure des parcelles. Pour évaluer les effets de la transition agroécologique sur la biodiversité, un dispositif de suivi annuel a été mis en place dès 2018 sur CA-SYS. Ce suivi cible différents groupes taxonomiques qui sont importants pour la régulation naturelle des bioagresseurs. Il s’agit notamment des carabes, araignées, staphylins et larves de syrphes qui sont des prédateurs ainsi que des micro-hyménoptères qui parasitent des larves de ravageurs. Les abondances des bioagresseurs (pucerons, limaces) et des dégâts causés sont répertoriés en parallèle. Enfin, les taux de prédation exercés par les auxiliaires sur les pucerons et graines d’adventices sont mesurés à l’aide de cartes de prédation (proies exposées). Ces suivis sont réalisés en parallèle sur la plateforme CA-SYS et sur des exploitations voisines en agriculture conventionnelle qui servent de référence. Les suivis sont réalisés à l’automne et au printemps de chaque saison culturale depuis 2018 sur les cultures de blé et de colza. L’analyse des suivis de biodiversité 2018-2023 sur blé montre des variations interannuelles d’abondance de pucerons qui sont comparables entre la plateforme CA-SYS et les parcelles de référence voisines ; ce qui témoigne que l’arrêt de l’utilisation de produits phytopharmaceutiques sur CA-SYS ne s’est pas traduite par une augmentation des infestations. Les limaces sont plus abondantes en système semis-direct (SD) mais leur nombre reste semblable entre le système avec travail du sol (TS) et les parcelles de référence en conventionnel. Pour ce qui concerne les auxiliaires, on observe des variations interannuelles des abondances qui sont comparables entre la plateforme CA-SYS et les parcelles de référence voisines. On note néanmoins des abondances de carabes plus élevées dans les parcelles en système semis-direct (SD). En complément de ces suivis annuels de biodiversité, une étude plus spécifique sur les prédateurs a été menée en 2023 dans le cadre de la thèse de Paul Bannwart, encadré par Sandrine Petit et Antoine Gardarin. L’étude cherchait à évaluer dans quels habitats les carabes et araignées hivernent et ensuite circulent, et notamment dans quelle mesure les bandes fleuries jouent un rôle dans l’hivernation de ces prédateurs. Pour y répondre, un dispositif mobilisant des tentes à émergence (piège hermétique capturant les individus en sortie d’hivernation) et des pots barber (piège à la surface du sol capturant les individus actifs en surface) a été déployé sur 17 parcelles de CA-SYS (10 en système avec travail du sol, 7 en système semis-direct) et leurs bandes fleuries, avec des suivis toutes les 2 semaines entre mars et juillet. Les résultats obtenus indiquent que sur CA-SYS, les bandes fleuries sont pour les araignées des refuges hivernaux aussi intéressants que les parcelles ; elles accueillent une plus grande diversité d’espèces qui ont des stratégies de chasse différentes, ce qui augmente l’efficacité de la régulation biologique (complémentarité). Par contre, nos résultats indiquent que les carabes hivernent plus et sont plus actifs dans les parcelles cultivées (qu’importe le système de culture) que dans les bandes fleuries, ce qui n’est pas forcément conforme à ce qui est trouvé dans la littérature. Il est possible que ce résultat soit lié au fait que les perturbations chimiques et surtout mécaniques sur CA-SYS sont très limitées. On aura en effet une mortalité bien inférieure des larves et des adultes de carabes qui sont dans le sol pendant l’hiver si le travail du sol est restreint ou inexistant. Le fait que les espèces de carabes les plus actives au champ au printemps ont toutes plus hiverné dans le système SD viennent en appui à cette explication. Le système SD apparait comme un habitat source depuis lequel les carabes vont ensuite se redistribuer dans les parcelles adjacentes, qu’elles soient en SD ou en TS.

ano.nymous@ccsd.cnrs.fr.invalid (Cordeau, S.) 19 Mar 2026

https://hal.inrae.fr/hal-05559243v1

[hal-05559229] Atelier 2 : les systèmes avec travail du sol, leurs performances agronomiques, économiques et environnementales, nos apprentissages et les pistes d’adaptation

Deux systèmes de culture avec travail du sol sont testés sur CA-SYS : - TS1 : système sans pesticides en rotation diversifiée avec labour occasionnel et fertilisation azotée minérale - TS2 : système sans pesticides en rotation diversifiée avec labour occasionnel et sans fertilisation azotée minérale Leurs successions culturales de 12 ans sont très diversifiées, en terme de cultures et de couverts d’interculture, pour alterner les périodes de dates de semis et les familles botaniques afin d’éviter la spécialisation de la flore adventice et réduire les inoculum maladies. En TS2, la succession est bien plus riche en légumineuses, cultivées en pur, en association ou en plantes de services (compagne ou couvert), pour palier à l’absence de fertilisation azotée minérale. La stratégie de gestion des adventices repose sur un labour peu fréquent (1 tous les 3 ans), du travail du sol en interculture profond ou superficiel, des faux semis, du désherbage mécanique, et de l’écimage ainsi que sur le choix de cultures ou variétés couvrantes. Pour éviter ou atténuer les effets des bioagresseurs, nous jouons sur les dates et densité de semis, les choix variétaux, le recours à des plantes de services en culture ou en interculture et en TS1 uniquement, le raisonnement de la fertilisation azotée au plus près des besoins des cultures sans viser le potentiel de rendement maximum. Le recours à l’irrigation est autorisé, principalement pour favoriser une bonne implantation des cultures d’été et assurer leur pouvoir concurrentiel vis-à-vis des adventices. Au cours des 5 années sur CA-SYS, nous avons observé sur les deux systèmes que : - Les crucifères (colza et moutarde) sont des cultures très compliquées à conduire sans pesticides et d’autant plus lorsque les conditions sont sèches en début de cycle. Lorsque les cultures sont maintenues jusqu’à la récolte les rendements sont très faibles. - La réussite des cultures d’été (soja, tournesol, sorgho, maïs, etc.) dépend de la possibilité d’irriguer, parfois contrainte par les arrêtés préfectoraux - Les céréales d’hiver (blé, orge) sont des cultures robustes et résilientes et parmi les plus productives - Les légumineuses à graines se comportent bien, même si elles peuvent subir ponctuellement des pertes importantes de productivité dues à des problèmes de maladies fongiques. - Les cultures associées céréales-légumineuses (blé/pois, blé/féverole) se comportent bien. - La gestion des adventices est maitrisée dans ces systèmes à l’exception des populations de chardons qui progressent récemment, ce qui nous a conduit à repenser la gestion de l’interculture. Les rendements réalisés dans les systèmes TS2 sont proches de ceux des agriculteurs en agriculture biologique dans la même région, alors même que les cultures ne sont pas fertilisées sur CA-SYS (pas même avec des engrais organiques). En moyenne, sur les 5 ans, nous obtenons 32 q/ha en blé tendre d’hiver (n=9 ), 7 q/ha en colza (n=4 ; les colzas sont non récoltés 2 ans sur 5), 19 q/ha en féverole (n=5) et 18 q/ha en soja (n=9). Les rendements réalisés dans les systèmes TS1, sur des cultures conduites sans pesticides mais avec fertilisation azotée minérale (sauf sur les légumineuses et associations) sont presque doublés par rapport à TS2, à l’exception des crucifères. Les rendements sont néanmoins 15% inférieur aux rendements en agriculture conventionnelle de la région. En moyenne, sur les 5 ans, nous obtenons 64 q/ha en blé tendre d’hiver (n=14), 5 q/ha en colza (n=5 ; les colzas sont non récoltés 2 ans sur 5), 22 q/ha en féverole (n=5) et 20 q/ha en soja (n=9). Quand bien même les niveaux de productivité sont acceptables, la qualité pour une valorisation en alimentation humaine n’est pas toujours satisfaisante (déclassement des sojas 2 ans /5) ; quelques parcelles avec des défauts de teneur en protéines en céréales, notamment en TS2, et une augmentation du taux d’impuretés pour toutes les récoltes. Les baisses de productivité des systèmes ne sont pas compensées par des baisses de charges. Le poste semences et les charges de mécanisation restent élevés. Ainsi la marge semi-nette des systèmes n’est pas encore satisfaisante, d’autant plus que les productions sont vendues au prix du conventionnel. Les baisses de productivité induisent des efficiences énergétiques peu satisfaisantes pour les 2 systèmes. Les consommations énergétiques en carburant, et les engrais en TS1, sont trop importantes au regard des rendements obtenus. La balance azotée, excédentaire sur le système TS1 (36 kg N/ha) et déficitaire en TS2 (- 21kg N/ha), questionne la gestion de la fertilité azotée dans ces systèmes. Fort de ces premiers enseignements, nous entamons un travail d’adaptation de ces systèmes : choix des cultures et de leur succession dans le temps, gestion de l’interculture avec priorisation du travail du sol ou des couverts d’interculture et de leur composition selon les situations, gestion de la fertilisation azotée minérale en TS1 et meilleure maitrise des bioagresseurs en culture de légumineuses, en TS2 notamment.

ano.nymous@ccsd.cnrs.fr.invalid (Cordeau, S.) 19 Mar 2026

https://hal.inrae.fr/hal-05559229v1

[hal-05559425] Guides des visiteurs des CA-SYS Days 2024 - Résultats de 5 ans d’expérimentations en agroécologie sans pesticides sur la plateforme CA-SYS

Située sur l’unité expérimentale Domaine d’Epoisses du centre INRAE Bourgogne Franche-Comté, CA-SYS est une plateforme de recherche collaborative expérimentant l'agroécologie à différentes échelles. L’objectif ambitieux est de concevoir des systèmes agricoles de grandes cultures sans pesticides en optimisant les services rendus par la biodiversité cultivée et sauvage pour réduire la dépendance aux intrants tout en maintenant/augmentant la durabilité des systèmes. Il s’agit de produire des connaissances pour mettre au point ces systèmes; et d’évaluer la faisabilité et les performances de ces systèmes très innovants. Les principes agroécologiques structurant la plateforme CA-SYS sont : -Accroitre la diversité végétale dans les parcelles (mélanges d’espèces/variétés), dans le temps (succession culturale, couverts végétaux), dans le paysage (assolement des cultures, infrastructures paysagères) -Cultiver sans pesticides en combinant des techniques alternatives et agroécologiques pour gérer les bioagresseurs -Agir à l’échelle du paysage via l’agencement spatial des pratiques agricoles, et d’infrastructures paysagères (haies, bandes fleuries et enherbées) CA-SYS explore une diversité de systèmes agroécologiques sur 125 ha. Quatre systèmes de culture agroécologiques sans pesticides sont testés, représentant deux stratégies agricoles principales susceptibles de favoriser les interactions biotiques : 1) les systèmes TS basés sur le travail du sol (labour occasionnel, faux semis, désherbage mécanique) ; 2) les systèmes SD basés sur la conservation des sols (sans travail du sol ou avec du travail du sol superficiel ponctuel). Ces deux options nécessitent la mobilisation de la diversité des cultures et des plantes de couverture dans le temps (à l'échelle de la succession des cultures) et dans l'espace (par exemple, mélange d'espèces / variétés de cultures, plantes compagnes). Un autre aspect original de la conception de CA-SYS est la réflexion de l'agencement spatial des systèmes de culture et des infrastructures agroécologiques au niveau de l'exploitation ou du paysage. Les parcelles gérées selon une stratégie particulière (TS ou SD) sont soit regroupées dans le paysage, soit situés à proximité d’une stratégie différente afin de tester l'effet du paysage de pratiques agricoles. La plateforme CA-SYS a été développée en collaboration avec les acteurs du monde agricole. Agriculteurs, conseillers, techniciens, ingénieurs, enseignants, chercheurs ont été associés dès la conception de la plateforme, en participant à des réunions et des ateliers de co-conception de systèmes agroécologiques fondés sur la biodiversité qui soient à la fois ambitieux et réalisables. Ils sont encore impliqués dans la vie de la plateforme via des ateliers de réflexion sur des thématiques spécifiques ou des journées d’échanges permettant de bénéficier de leurs expertises et de discuter des conditions d’adoption et de mise en œuvre à grande échelle de l’agroécologie. La mise en œuvre des principes agroécologiques a débuté à l'automne 2018 avec l'objectif d'atteindre une rentabilité et une productivité similaires à celles des agriculteurs conventionnels voisins à un horizon de 10 ans via un déplacement des équilibres écologiques en faveur d’une biodiversité fonctionnelle au service de la production agricole. Ce dispositif est unique en France et en Europe, de par son ampleur, son ambition, ses thèmes de recherche et la contribution active des acteurs du monde agricole. Les apprentissages aux cours des cinq premières années d’expérimentation, nous ont déjà permis d’identifier des réussites et acquis mais aussi des difficultés, voire des impasses, dans la gestion de ces systèmes de culture agroécologiques innovants. Des adaptations des systèmes ont été opérées mais des modifications plus profondes sont d’ores et déjà nécessaires. Nous souhaitons explorer de nouvelles solutions techniques, y compris en agroéquipement, ainsi que repenser nos modalités de travail et de fonctionnement pour favoriser la créativité. Ces changements renouvellent continuellement les questions de recherche en agroécologie qui pourraient être expérimentées sur la plateforme CA-SYS.

ano.nymous@ccsd.cnrs.fr.invalid (Cordeau, S.) 19 Mar 2026

https://hal.inrae.fr/hal-05559425v1

[hal-05384753] L’expérimentation analytique en agroécologie

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ano.nymous@ccsd.cnrs.fr.invalid (S Barbot) 27 Nov 2025

https://hal.inrae.fr/hal-05384753v1

[hal-05384714] La biodiversité cultivée et sauvage pour des systèmes agroécologiques

[...]

ano.nymous@ccsd.cnrs.fr.invalid (S Barbot) 27 Nov 2025

https://hal.inrae.fr/hal-05384714v1

[hal-05384746] La biodiversité cultivée et sauvage pour des systèmes agroécologiques

[...]

ano.nymous@ccsd.cnrs.fr.invalid (S Barbot) 27 Nov 2025

https://hal.inrae.fr/hal-05384746v1

[hal-04254586] Récents progrès sur l’utilisation des images satellitaires pour évaluer la sévérité de la jaunisse au niveau parcellaire

Une approche agroécologique des risques phytosanitaires nécessite la mise en oeuvre d'actions diverses relevant d'abord de dispositifs prophylactiques mais aussi de systèmes assurantiels pour compenser les pertes de rendements liées aux aléas sanitaires. Pour que ces actions soient efficaces et économiquement durables, il est nécessaire d'améliorer le niveau d'information que l'on a sur le pathosystème « jaunisse de la betterave » et le système de production de la betterave sucrière. Les projets du PNRI (Plan National de Recherche et Innovation) « vers des solutions opérationnelles contre la jaunisse de la betterave sucrière » (https://www.itbfr.org/pnri/) et le projet SEPIM en particulier (https://pse.mathnum.inrae.fr/sepim) contribuent à cet objectif. Dans cet article nous décrivons l'une des approches développées dans le cadre du projet SEPIM : l'estimation de la sévérité de la jaunisse au niveau parcellaire à l'aide d'images satellitaires. De telles images offrent la possibilité de considérer un très grand nombre de parcelles à un grand nombre de dates. Elles pourraient ainsi offrir la possibilité de faire un suivi à grande échelle des épidémies de jaunisse. Ce suivi « haut-débit » pourrait notamment permettre d'améliorer notre connaissance des facteurs de risque et de l'état sanitaire des parcelles (et donc optimiser l'application des mesures prophylactiques et traitements tactiques), d'anticiper les pertes au cours de la saison de culture, et d'évaluer a posteriori et à l'échelle de la parcelle les dommages (évaluation possiblement informative dans le cadre de systèmes assurantiel). Les résultats que nous avons obtenus (et qui sont présentés dans cet article) sont encourageants et la méthode proposée pourrait potentiellement être appliquée dans un cadre opérationnel.

ano.nymous@ccsd.cnrs.fr.invalid (Samuel Soubeyrand) 23 Oct 2023

https://hal.inrae.fr/hal-04254586v1

[hal-05328406] Peppermint interplanting and nitrogen fertilisation for green peach aphid management in peach orchards: Field evidence of VOC-mediated effects

A potential strategy for reducing pesticide applications within a cropping system is the use of agroecological practices to alter pest behaviour. Among these practices are the use of companion plant and the management of nitrogen fertilisation. Companion plants (CPs) emit volatile organic compounds (VOCs) that can influence aphid behaviour. Nitrogen fertilisation may affect aphid feeding and, consequently, aphid population growth, as it alters plant composition and development. The objective of this study was to determine whether the combination of nitrogen fertilisation and Mentha × piperita ground cover could modify the incidence of Myzus persicae in a peach orchard. We conducted a factorial experiment quantifying M. persicae incidence, VOC emissions, Prunus persica growth, and agronomic performance under contrasting nitrogen levels, with or without Mentha × piperita cover. This study provides field evidence of peppermint VOC production. We identified specific volatile compounds around peach trees associated with peppermint, including menthone, menthyl acetate, and eucalyptol. A high nitrogen level increased peppermint VOC emissions, reduced M. persicae incidence, and enhanced peach tree growth. The peppermint cover appeared to slightly improve the visual appearance of fruits at harvest. Fruits quality remained within commercial standards in terms of sugar content and overall yield, and fruit size was not significantly reduced despite potential resource competition with peppermint. Further research is needed to better understand the specific factors influencing VOC emissions and their effects on aphids at a finer temporal scale.

ano.nymous@ccsd.cnrs.fr.invalid (Julie Borg) 23 Oct 2025

https://hal.inrae.fr/hal-05328406v1

[hal-05549228] Inducible MdAGG lectins in apple immunity toward fire blight: CRISPR/Cas9 validation and their potential for intragenesis approaches

Fire blight, caused by the bacterium Erwinia amylovora, represents a significant threat to apple (Malus domestica) production. Currently, only a limited number of genes effectively involved in resistance to E. amylovora have been identified. Seeking new resistance candidates, we focused on a multigene family encoding amaranthin-like lectins, which are highly upregulated following chemical elicitation by acibenzolar-S-methyl (ASM). These lectins are believed to contribute to downstream defense by promoting bacterial aggregation, which led to their designation as Malus domestica agglutinins (MdAGGs). When loss-offunction editions were introduced into MdAGG genes, the plant's ability to mount a fully effective defense response against fire blight upon ASM treatment was compromised, confirming the role of MdAGGs in fire blight resistance. Next, we coupled the pPPO16 promoter, endogenous to apple and known to be rapidly induced during E. amylovora infection, with the coding sequence of MdAGG10 to create apple lines with fire blight-inducible MdAGG10 expression. Early MdAGG10 expression in these lines significantly improved resistance to fire blight, and an additional ASM treatment further enhanced this resistance. In summary, we conclude that MdAGGs act as defense genes whose timely expression can provide effective resistance against E. amylovora.

ano.nymous@ccsd.cnrs.fr.invalid (Antoine Bodelot) 12 Mar 2026

https://hal.inrae.fr/hal-05549228v1

[hal-05682255] Towards lucerne varieties used as living mulch for cereal crops in agroecological systems

Lucerne, a perennial legume known for its nitrogen fixation, persistence, and soil-covering capacity, shows strong potential as a living mulch for cereal cropping. However, its vigorous growth often results in excessive competition with cash crops. The selection of lucerne varieties adapted to living mulch could be a solution to reduce this competition. We synthetize the state of the art on this subject. Wheat–lucerne interactions occur from the earliest stages of wheat cycle until its harvest and are mainly driven by lucerne morphological and phenological traits. Autumn dormancy, growth habit, height, and cover state of lucerne determine the trade-off between reducing competition with wheat and maintaining the ecosystem services provided by lucerne. An intermediate dormancy, combined with moderate height and upright cover, appears to provide the most favourable balance. Genetic correlations between traits measured in spaced plants and living mulch conditions reveal that some traits, such as height, remain stable across designs, whereas others are highly design-dependent. This supports a two-step breeding strategy combining early indirect selection in nursery of spaced plants with an indirect selection under living mulch conditions. Finally, molecular markers used for genomic prediction could accelerate the identification of genotypes suited for living mulch systems. This knowledge can be used to create dedicated varieties.

ano.nymous@ccsd.cnrs.fr.invalid (Zineb El Ghazzal) 06 Jul 2026

https://hal.inrae.fr/hal-05682255v1

[hal-05100639] Opportunities and Challenges in Combining Optical Sensing and Epidemiological Modelling

Plant diseases impair yield and quality of crops and threaten the health of natural plant communities. Epidemiological models can predict disease and inform management. However, data are scarce, since traditional methods to measure plant diseases are resource intensive and this often limits model performance. Optical sensing offers a methodology to acquire detailed data on plant diseases across various spatial and temporal scales. Key technologies include multispectral, hyperspectral and thermal imaging, and light detection and ranging; the associated sensors can be installed on ground-based platforms, uncrewed aerial vehicles, aeroplanes and satellites. However, despite enormous potential for synergy, optical sensing and epidemiological modelling have rarely been integrated. To address this gap, we first review the state-of-the-art to develop a common language accessible to both research communities. We then explore the opportunities and challenges in combining optical sensing with epidemiological modelling. We discuss how optical sensing can inform epidemiological modelling by improving model selection and parameterisation and providing accurate maps of host plants. Epidemiological modelling can inform optical sensing by boosting measurement accuracy, improving data interpretation and optimising sensor deployment. We consider outstanding challenges in: A) identifying particular diseases; B) data availability, quality and resolution, C) linking optical sensing and epidemiological modelling, and D) emerging diseases. We conclude with recommendations to motivate and shape research and practice in both fields. Among other suggestions, we propose to standardise methods and protocols for optical sensing of plant health and develop open access databases including both optical sensing data and epidemiological models to foster cross-disciplinary work.

ano.nymous@ccsd.cnrs.fr.invalid (Alexey Mikaberidze) 18 Jun 2025

https://hal.science/hal-05100639v1

[hal-03181560] Pesticides : les enfants empoisonnés, les viticulteurs condamnés

Au terme d’un parcours judiciaire particulièrement difficile, des associations de défense de l’environnement ont obtenu la condamnation pénale de deux domaines viticoles par la Cour d’appel de Bordeaux qui, dans un arrêt du 18 novembre 2020, a retenu à leur encontre l’infraction d’utilisation inappropriée de produits phytopharmaceutiques. La décision est suffisamment rare pour poser la question de l’effectivité du droit répressif quant aux normes censées protéger les populations particulièrement exposées aux pesticides. [CA Bordeaux, 6e ch. corr., 18 nov. 2020, n° 19/00849, Ministère public c/ Gaec Rémy Castel et fils et Société civile villeneuvoise « Château de Barde »]

ano.nymous@ccsd.cnrs.fr.invalid (Benoît Grimonprez) 25 Mar 2021

https://hal.science/hal-03181560v1

[hal-04665509] A stage‐dependent seed defense response to explain efficient seed transmission of Xanthomonas citri pv. fuscans to common bean

Although seed represents an important means of plant pathogen dispersion, the seed–pathogen dialogue remains largely unexplored. A multiomic approach was performed at different seed developmental stages of common bean ( Phaseolus vulgaris L.) during asymptomatic colonization by Xanthomonas citri pv. fuscans ( Xcf ), At the early seed developmental stages, we observed high transcriptional changes both in seeds with bacterial recognition and defense signal transduction genes, and in bacteria with up‐regulation of the bacterial type 3 secretion system. This high transcriptional activity of defense genes in Xcf ‐colonized seeds during maturation refutes the widely diffused assumption considering seeds as passive carriers of microbes. At later seed maturation stages, few transcriptome changes indicated a less intense molecular dialogue between the host and the pathogen, but marked by changes in DNA methylation of plant defense genes, in response to Xcf colonization. We showed examples of pathogen‐specific DNA methylations in colonized seeds acting as plant defense silencing to repress plant immune response during the germination process. Finally, we propose a novel plant–pathogen interaction model, specific to the seed tissues, highlighting the existence of distinct phases during seed–pathogen interaction with seeds being actively interacting with colonizing pathogens, then both belligerents switching to more passive mode at later stages.

ano.nymous@ccsd.cnrs.fr.invalid (Armelle Darrasse) 31 Jul 2024

https://hal.inrae.fr/hal-04665509v1

[hal-03612024] Les leviers politiques et organisationnels

Les chapitres précédents ont montré qu’il existe aujourd’hui des connaissances et savoir-faire permettant de transformer les systèmes agricoles afin de développer de nouvelles manières de protéger les cultures contre les bioagresseurs. De nouvelles pistes de recherche visant à aller jusqu’au bout du chemin vers une agriculture sans pesticides ont également été identifiées. Mais les solutions techniques seules ne suffisent pas et, pour être adoptées par le plus grand nombre d’agriculteurs, doivent être accompagnées de solutions à la fois politiques et organisationnelles. Les solutions politiques font référence à l’ensemble des moyens dont disposent les pouvoirs publics pour soutenir l’effort de transition. Les solutions organisationnelles, quant à elles, incluent les initiatives privées qui, sans s’opposer aux initiatives publiques, émanent directement des acteurs de la transition implantés dans les territoires.

ano.nymous@ccsd.cnrs.fr.invalid (Pascale Bazoche) 17 Mar 2022

https://hal.inrae.fr/hal-03612024v1

[hal-05372377] Hijacking host microPEP: pathogens modulate the microRNA-microPEP loop to promote infection

The partners of an ecological association tend to copy the biological system of their hosts. We hypothesized that microorganisms, particularly pathogens, have acquired the ability to express short peptides (pathoPEPs) homologous to host microPEPs (miPEPs) thus modulating the expression of the corresponding host microRNA (miRNA) and the function of miRNAtargeted genes. The pathosystem involving interactions between Brassica napus and its pathogen Plasmodiophora brassicae was studied. Using in silico analysis and ribosomal profiling, we identified three putative pathoPEPs produced by P. brassicae and their targeted plant miRNA genes. A link between the level of infection of B. napus by P. brassicae and the expression of pathoPEPs and their targeted miRNA genes was found, with the expression of the latter two being inversely related. Finally, we identified differential expression and translation of genes predicted to be targets of pathoPEP-regulated miRNAs. These genes, involved in auxin pathway, immune defense, root architecture or carbohydrate metabolism, are thought to enable P. brassicae, through its pathoPEPs, to hijack plant's metabolic pathways (hormonal pathways, sugar synthesis, root morphology), thereby facilitating its invasion. Using computational in silico approaches, the involvement of miPEPs from plant pathogens as a host post-transcriptional regulatory pathway is described herein for the first time.

ano.nymous@ccsd.cnrs.fr.invalid (Emmanuel Clostres) 19 Nov 2025

https://hal.science/hal-05372377v1

[hal-05297752] Microbiote végétal: état de l’art et défis pour une agriculture durable

[...]

ano.nymous@ccsd.cnrs.fr.invalid (Corinne Vacher) 20 Mar 2026

https://hal.science/hal-05297752v1

[hal-03858395] The functional microbiome of grapevine throughout plant evolutionary history and lifetime

European grapevine is a complex holobiont composed of two plant genomes, that of the scion (Vitis vinifera L.) and the rootstock (Vitis spp.), and a multitude of microbial genomes that collectively form the microbiome. The grapevine microbiome has been extensively described over the last decade, primarily using metabarcoding approaches. Unfortunately, metabarcoding data alone provide little information on microbial functions and outcomes of plant-microbe interactions. Here we review knowledge about the microorganisms that have a demonstrated influence, positive or negative, on the performance of the grapevine holobiont. Our review encompasses bacteria, filamentous fungi, yeasts, oomycetes and viruses. It covers aboveground and belowground microorganisms, including arbuscular mycorrhizal and ectomycorrhizal fungi. We focus on taxa and functions that protect the plant against pathogens and pests, promote growth, increase tolerance to abiotic stresses and highlight those involved in disease and decline. As the outcomes of plant-microbe interactions are labile, we examine the dynamics and functions of grapevine-microbiome interactions over both the plant lifetime and the plant evolutionary history, beginning with plant domestication. Based on the knowledge and gaps we identify, we suggest field sampling designs, culture-based experiments, molecular tools and theoretical analysis methods, including shotgun metagenomics and network models, that could be used in future research to uncover and leverage the full functional potential of the grapevine microbiome.

ano.nymous@ccsd.cnrs.fr.invalid (Paola Fournier) 29 Nov 2022

https://hal.inrae.fr/hal-03858395v1

[hal-04732139] Nematicidal plants for root-knot nematode (Meloidogyne spp.) management in vegetable cropping systems

Root-knot nematodes (RKN), Meloidogyne species, are a top global threat associated with economic crop yield losses. They are difficult to detect and control, especially given the recent restrictions on environmentally harmful chemicals. Thus, there is a need for alternative solutions for sustainable RKN management, such as nematicidal plants (non-hosts or poor hosts). Despite the advanced literature, the information for nematicidal plant species, cultivars, and specific RKN species is incomplete or inconsistent. We evaluated the host suitability of 28 nematicidal plant candidates in controlled climate chambers using a susceptible tomato and pepper as controls. The assessment was based on gall and egg mass counts after one RKN cycle. All screened candidates were less infected with M. incognita , M. arenaria , and M. enterolobii than tomatoes, suggesting all the candidates are either non/ poor hosts, except Allium fistulosum . Only Tagetes patula and T. erecta were consistently non-hosts to the three RKN species. Other candidates exhibited RKN species-specificity and varied in their poor host or non-host status depending on the variety. Selected nematicidal plants were further assessed for RKN juvenile penetration and had significantly lower M. incognita penetration than tomato. However, Crotalaria juncea had significantly higher M. incognita penetration than tomato. This suggests that the tested plants inhibit root penetration of most M. incognita juveniles at the rhizosphere level while C. juncea attracts the nematodes and restricts reproduction. There is potential for most of the nematicidal plants to be used in cropping systems for sustainable integrated RKN management.

ano.nymous@ccsd.cnrs.fr.invalid (Cliven Njekete) 11 Oct 2024

https://hal.science/hal-04732139v1

[hal-05674919] Conservation auctions: An online double constraint reverse auction experiment

Conservation auctions are designed to allocate payments for environmental services to voluntary farmers. The auctioneer may announce either the maximum number of contracts (target-constrained auction) or, more commonly, the total budget available (budget-constrained auction). Building on previous work that compared these two formats, we introduce a new double-constraint auction, where both constraints—set at the same levels as in the benchmarks—are simultaneously disclosed to participants. Using the same experimental methodology, we assess performance consistent with a generic policy objective: maximizing environmental benefits while minimizing expenditures. On average, the double-constraint auction outperforms both target- and budget-constrained formats.

ano.nymous@ccsd.cnrs.fr.invalid (Adrien Coiffard) 30 Jun 2026

https://hal.science/hal-05674919v1

[hal-05671228] Predicting disease severity and large-scale spread from coupled severity measurements and imperfect indicators: Application to beet yellows

Whether in human, animal, or plant health, effective disease management requires the ability to characterize disease dynamics across space and time. In this context, integrating indirect indicators with broad spatio-temporal coverage, even when they are noisy, can provide valuable complementary information to direct measurements, which are often sparse because they are more costly or intrusive to collect. In this article, we propose a statistical framework to leverage such indirect indicators to predict disease severity at the individual or local-scale level and reconstruct large-scale disease dynamics. This two-step approach is able to account for the specific characteristics of disease severity observations, including zero inflation and spatio-temporal structure. The first step relies on a stacked hurdle model based on multiple random forests to locally predict disease severity from the available indirect indicators. In the second step a semi-parametric spatio-temporal model is used to reconstruct large-scale epidemiological dynamics over space and time from the indicators-based predictions. The proposed methodology is designed to be both generic and modular, and is illustrated by a case study in plant health. This case study focuses on the monitoring of sugar beet yellows disease in France between 2019 and 2023 by combining sparse field measurements and satellite-based remote sensing data.

ano.nymous@ccsd.cnrs.fr.invalid (Baptiste Oger) 26 Jun 2026

https://hal.inrae.fr/hal-05671228v1

[hal-05673287] Challenges in LAMP-based detection of Fusarium spp. responsible for dry rot in garlic

Fusarium dry rot disease (FDR) is an emerging disease worldwide mainly caused by Fusarium proliferatum (Fp) but also by F. oxysporum (Fox). It renders garlic cloves unfit for consumption. Fp and Fox are often present in cloves as an endophyte making it difficult to evaluate garlic health status and to forecast symptoms appearance. To date, there is no simple, rapid test for the detection of Fp and Fox that can be used in the field and help growers to improve garlic production, especially through the management of asymptomatic cloves. This study assesses the challenge of detecting Fp (the main causal agent of FDR) directly on garlic cloves, with Loop mediated isothermal technology (LAMP), and results visualized using turbidity or Phenol-red. We used primers originally designed for Fp strains of maize, tested them on garlic tissues with DNA and mycelium, with and without a prior DNA isolation step. The LAMP assay combined with a prior DNA isolation step using FTA Card, produced the best results. These results obtained from the previously inoculated garlic were consistent with the observed symptoms on garlic and mycelium growth on agar. Sensitivity was variable among strains, ranging from 1 to 50 μg μL -1 per LAMP for mycelium. The LAMP assay was not entirely specific to Fp as several Fox strains were also amplified. Overall, this study shows that a simple FTA Card DNA extraction step is useful for the field detection of Fusarium spp. strains responsible of FDR on garlic. Methods to improve the specificity of the developed LAMP assay to detect only Fp strains are discussed.

ano.nymous@ccsd.cnrs.fr.invalid (Caroline Guilbaud) 29 Jun 2026

https://hal.inrae.fr/hal-05673287v1

[hal-05671807] Impacts of low pesticides practices on farmers' crop production decision: Estimation based on observed French data

Economic analysis of alternatives to pesticide use are generally limited by the lack of accurate data on farmers' production practices, such as detailed information on the frequency and composition of pesticide applications or on tillage practices, which may be used as alternative to pesticides. Our objective in this paper is twofold. First, we propose a procedure to introduce additional information, obtained from a survey on farmers' production practices into the FADN database usually used for micro-level analysis of farmers' behaviours. Second, we use this information to estimate econometric models of crop production choices for different practices in terms of pesticide uses. We especially focus on the role of tillage as an alternative to herbicide uses. These estimated economic models aim at being used to simulate the impacts of a pesticide tax on the reduction of pesticide use, taking into account the change in crop production practices induced by the tax.

ano.nymous@ccsd.cnrs.fr.invalid (Adélaïde Fadhuile) 27 Jun 2026

https://hal.science/hal-05671807v1

[hal-03910768] Water limitation affects weed competitive ability for light. A demonstration using a model‐based approach combined with an automated watering platform

Climate change is driving the need to investigate responses to water limitation of morphological traits involved in competition for light, the main resource for which crops and weeds compete in conventional temperature and tropical cropping systems, to better understand field crop-weed dynamics. Our objective was to develop an innovative approach to quantify weed species responses to water limitation, using three species. This approach combined (1) key morphological traits involved in competition for light (taken from a mechanistic crop-weed model) as criteria to analyse responses to water limitation and (2) a pot/greenhouse platform allowing automated precision-watering and daily quantification of soil water availability in each pot. For all species and growth stages, increased plant height per unit of aboveground biomass and production of smaller/thicker leaves were the most noteable responses. Plants with a strong increase in plant height per unit of aboveground biomass in response to water limitation maintained high levels of specific leaf area, even at low soil water availability. Increases in biomass allocation to roots (vs. aboveground parts) and leaves (vs. stems and reproductive organs) were also observed, but not for all species and growth stages. Overall, these effects of water limitation on morphological traits indicate strong interactions between competition for light and water.

ano.nymous@ccsd.cnrs.fr.invalid (Delphine Moreau) 14 Jun 2023

https://hal.inrae.fr/hal-03910768v1

[tel-05113060] De la génomique des éléments transposables à la génétique quantitative des interactions sociales entre plantes cultivées : contributions et perspectives

Dans la première partie de cette HdR, je décris mon parcours en explicitant les éléments qui m’ont permis de développer mon programme de recherche actuel. En thèse de bioinformatique, je me suis intéressé à la quantification de l’abondance et de la diversité des éléments transposables en annotant des génomes séquencés. En post-doctorat de génétique humaine, j’ai étudié la régulation génétique de l’expression des gènes dans plusieurs tissus avec un modèle statistique multivarié. J’ai ensuite été recruté à INRAE pour mener des recherches sur l’architecture génétique de caractères d’intérêt chez la vigne et sur la prédiction génomique. A l’occasion d’une mobilité géographique, ma thématique a évolué vers la diversification intra-parcelle comme levier pour la transition agroécologique, sur laquelle je souhaite continuer à encadrer des doctorants. Dans le cas du blé, pris comme principale espèce d’étude, les variétés actuelles ont été sélectionnées en monoculture, mais elles sont plastiques lorsqu’elles sont co-cultivées dans des mélanges variétaux ou avec une légumineuse comme le pois. Je cherche à comprendre les bases génétiques de cette plasticité due aux interactions sociales entre plantes. En mobilisant de l’expérimentation au champ avec du phénotypage haut-débit, ainsi que de la modélisation, mes recherches visent à quantifier les (co)variances génétiques (i) du rendement en fin de cycle et (ii) des processus de production et d’allocation de biomasse au cours du cycle. Je propose aussi de coupler ces deux approches dans une perspective évolutive pour évaluer la capacité des schémas de sélection en mélange à explorer efficacement des paysages adaptatifs réalistes.

ano.nymous@ccsd.cnrs.fr.invalid (Timothée Flutre) 14 Jun 2025

https://hal.inrae.fr/tel-05113060v1

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Collection HAL

Consulter les publications scientifiques du PPR Cultiver et Protéger Autrement

HAL : Dernières publications

[hal-04520388] Equilibrium bids for reverse auctions when the budget is announced - Some preliminary results

[hal-05249655] Promotion of Translational Research in Plants by the Development of a Knowledge Graph Framework: A case Study on Grain Legumes

[hal-04145269] A workflow for processing global datasets: application to intercropping

[hal-05652738] Spatio-temporal field, landscape and meteorological datasets describing bruchid beetle populations, grain damage and parasitism in faba bean and lentil fields in France

[hal-05627550] Intercropping chickpea with a competitive service plant and mowing the inter-rows controls weeds and ascochyta blight while mitigating interspecific competition

[hal-04263759] Comparing input interfaces to elicit belief distributions

[hal-05671803] Social Learning to Reduce Pesticides: Evidence from a French Agricultural Extension Programme

[hal-05671801] Early Adopters and the Diffusion of Agroecological Knowledge in Peer Groups

[hal-04848563] Tailored policies for perennial woody crops are crucial to advance sustainable development

[hal-04982331] Biology-Informed inverse problems for insect pests detection using pheromone sensors

[hal-04481765] Pest detection from a biology-informed inverse problem and pheromone sensors

[hal-03834661] Single seed microbiota: assembly and transmission from parent plant to seedling

[hal-05613501] From Concept to Perspective: Digital Twins of Microbial Systems

[hal-04572831] Biology-Informed inverse problems for insect pests detection using pheromone sensors

[hal-04072544] Logical design of multi-model data warehouses

[hal-04206539] Be high on emotion: Coping with emotions and emotional intelligence when querying data

[hal-05633888] Untargeted metabolomic dataset of leaves from twenty-four accessions of wild and cultivated tomato plants

[hal-03664111] An ecological-economic model of land-use decisions, agricultural production, and biocontrol

[hal-05615322] Strategic free-riding in pest control: Theory and evidence in organic-conventional mixed landscapes

[hal-04057671] To tax or to ban? A discrete choice experiment to elicit public preferences for phasing out glyphosate use in agriculture

[hal-05031294] Cost vector effects in forced-choice discrete choice experiments: Assessing the acceptability of future glyphosate policies

[hal-05681565] Quantitative resistance to aphanomyces root rot in legumes

[hal-05513491] The Vitis vinifera receptor VvLYK6 negatively regulates chitin-triggered immune responses and promotes fungal infections

[hal-05559257] Atelier 4 : le matériel agricole pour conduire les systèmes agroécologiques

[hal-05559182] Atelier 1 : les systèmes en semis direct, leurs performances agronomiques, économiques et environnementales, nos apprentissages et les pistes d’adaptation

[hal-05559270] Atelier 5 : la diversité végétale et la gestion des bioagresseurs

[hal-05559243] Atelier 3 : la biodiversité et les services de régulation biologique, les infrastructures agroécologiques mises en place pour favoriser la biodiversité, les suivis biodiversité et les premiers résultats

[hal-05559229] Atelier 2 : les systèmes avec travail du sol, leurs performances agronomiques, économiques et environnementales, nos apprentissages et les pistes d’adaptation

[hal-05559425] Guides des visiteurs des CA-SYS Days 2024 - Résultats de 5 ans d’expérimentations en agroécologie sans pesticides sur la plateforme CA-SYS

[hal-05384753] L’expérimentation analytique en agroécologie

[hal-05384714] La biodiversité cultivée et sauvage pour des systèmes agroécologiques

[hal-05384746] La biodiversité cultivée et sauvage pour des systèmes agroécologiques

[hal-04254586] Récents progrès sur l’utilisation des images satellitaires pour évaluer la sévérité de la jaunisse au niveau parcellaire

[hal-05328406] Peppermint interplanting and nitrogen fertilisation for green peach aphid management in peach orchards: Field evidence of VOC-mediated effects

[hal-05549228] Inducible MdAGG lectins in apple immunity toward fire blight: CRISPR/Cas9 validation and their potential for intragenesis approaches

[hal-05682255] Towards lucerne varieties used as living mulch for cereal crops in agroecological systems

[hal-05100639] Opportunities and Challenges in Combining Optical Sensing and Epidemiological Modelling

[hal-03181560] Pesticides : les enfants empoisonnés, les viticulteurs condamnés

[hal-04665509] A stage‐dependent seed defense response to explain efficient seed transmission of Xanthomonas citri pv. fuscans to common bean

[hal-03612024] Les leviers politiques et organisationnels

[hal-05372377] Hijacking host microPEP: pathogens modulate the microRNA-microPEP loop to promote infection

[hal-05297752] Microbiote végétal: état de l’art et défis pour une agriculture durable

[hal-03858395] The functional microbiome of grapevine throughout plant evolutionary history and lifetime

[hal-04732139] Nematicidal plants for root-knot nematode (Meloidogyne spp.) management in vegetable cropping systems

[hal-05674919] Conservation auctions: An online double constraint reverse auction experiment

[hal-05671228] Predicting disease severity and large-scale spread from coupled severity measurements and imperfect indicators: Application to beet yellows

[hal-05673287] Challenges in LAMP-based detection of Fusarium spp. responsible for dry rot in garlic

[hal-05671807] Impacts of low pesticides practices on farmers' crop production decision: Estimation based on observed French data

[hal-03910768] Water limitation affects weed competitive ability for light. A demonstration using a model‐based approach combined with an automated watering platform

[tel-05113060] De la génomique des éléments transposables à la génétique quantitative des interactions sociales entre plantes cultivées : contributions et perspectives