Typical landscapes of the Jura mountains with meadows dedicated to Montbéliarde cows for milk production.
© CIA25-90
Challenges and needs
The deterioration in river water quality in Franche-Comté over the last few decades is mainly due to excess nutrients resulting from past and ongoing human activity. In the Jura Mountains, the impact of agricultural practices and domestic and industrial waste discharges is compounded by the vulnerability of karst landscapes where water infiltrates easily, but filtration processes in the ground are limited.
International scientific studies on the fate of pollutants in the environment provide little information for karst environments and few references are available on the environmental impact of human activities in Franche-Comté.
Reducing exposure of the population and, more generally, the environment, to diffuse pollution involves considering the combined effects of human activities and climate change on water resources. To tackle the problem of water contamination by nutrients, we need to learn more about the following:
- changes in the quantity and quality of water resources, taking account of changes in hydrological and climate phenomena, land use and nitrogen and phosphorus discharges;
- the hydrogeological functioning of karst aquifers and exchanges between karst formations and rivers;
- nutrient transfers from the soil to the subsurface, springs and watercourses.
This subsequently involves changes across the whole area, with remedial measures to reduce agricultural, domestic or industrial discharges.
There are multiple operational benefits. The aim is to identify areas that contribute to pollution, determine how nutrient inputs into water can be limited, and guide the management and adaptation of the area.
Sampling water for geochemical analysis to provide information on its origin and residence time in karstic aquifers (Sarrazine cave, 2021)
© BRGM
Main results
After six years of work, the results of the NUTRI-Karst project provide a much clearer picture of a concerning environmental issue for the Jura region, against a backdrop of criticisms of Comté cheese production in the media. These results decipher and quantify the multi-factorial origin of the nutrients found in the water, for the various human activities, by highlighting certain risky agricultural practices and wastewater discharges, and the role of climate change.
Agriculture is the main source of the nutrients in the Jura Mountains, accounting for over 90% of inputs, ahead of domestic and industrial waste discharges. Nevertheless, these domestic and industrial discharges are not negligible, depending on the configuration of the basins, since they are usually released near or directly into the aquatic environment.
Most of the nitrogen is taken up by plants through the growth of grass in meadows, used to feed the dairy herds. An analysis of the entire Jura Mountains showed that, depending on the sector, between 10% and 60% (with an average of 20%) of all nitrogen inputs ended up in the main watercourses. This reflects the wide variety of flow patterns within the massif, and the limited ability of certain basins to retain these nutrients. It also shows that permanent grassland with extensive livestock farming (which has occupied 80% of the agricultural land in the Jura Mountains for the last 50 years) helps to significantly limit nitrate leakage into water.
Most of the phosphorus found in the water comes from wastewater discharges, whether from urban areas, cheese dairies or industrial zones.
The cultivation practices posing the greatest risk and with the greatest impact on water are those that involve tillage, the use of mineral fertilisers (temporary grassland and crops) and the spreading of liquid effluents (liquid manure, slurry). A Jura paradox has therefore emerged for this extensive agricultural environment dominated by cattle farming – essentially devoted to milk processing for the production of quality-label Comté, Morbier and Mont d'Or cheeses – because the significant reduction in agricultural inputs over the last few decades has not been sufficient to reverse the trend towards a deterioration in water quality.
This complex situation can be explained firstly by the high vulnerability of karst environments, which are characterised by a very limited water filtration ability (predominantly shallow soil and preferential infiltration) and generally high circulation rates, leading to infiltrated rainwater and leached compounds rapidly returning to the rivers. Secondly, global warming compounds the situation, with droughts intensifying in recent years. These lead to declining water reserves and the mobilisation in autumn of water that was recharged during the spring and summer and is heavily enriched with nitrogen. This comes from the mineralisation of nitrogen in soil when it becomes wet again after a dry period, and the mobilisation of higher nitrogen residues due to lower crop yields.
Three workshops were organised to bring together a wide range of local stakeholders and give them an opportunity to share their knowledge, in order to help build a common understanding of the causes of the deterioration and the associated socio-economic impacts, while collectively identifying certain courses of action.
More than 100 specific actions were proposed at the end of this project, with the aim of improving water quality and supporting local stakeholders in achieving a sustainable reduction in nutrient transfers. These mainly concern adjustments to existing practices rather than more structural and longer-term changes to the agricultural model, with a view to adapting to climate change.
Project deliverables
The NUTRI-Karst project is divided into four tasks :
Task 1: Studying the response of agro-hydro-systems in the Jura Mountains to climate change and human activities
The aim is to assess the effects of climate change on river water quality throughout the Jura Mountains, by tracing changes over the last 50 years in different climatic, agricultural, hydrological and physical-chemical variables.
Task 1 resources
- Summary of Task
- Report on Task 1: response of agricultural hydrological systems in the Jura Mountains to climate change and human activities
- Detailed report on the agricultural part (Chamber of Agriculture 25-90)
- Article published in The Conversation in 2023: In the Jura region, global warming is increasing nitrate pollution in rivers
- Feedback to local stakeholders – 20 September 2023
Task 2: Karst-river exchanges and hydrogeological functioning of aquifers in the Loue basin
The aim is to gain a better understanding of the recharge of karst aquifers and surface/subsurface interactions, by applying a multi-disciplinary approach to the Loue basin (gauging & longitudinal profiles, artificial tracing, hydrogeochemistry), leading to a 3D hydrogeological model and the delimitation of areas contributing to river flow.
Task 2 resources
Task 3: Nutrient transfers in karst hydrosystems in the Loue basin
The aim is to gain a better understanding of the impact of agricultural practices and urban and industrial waste discharges on water quality in soil, springs and rivers, in order to identify which courses of action can be taken to reduce excess nutrients: limiting potentially damaging agricultural practices while taking account of climate change and the vulnerability of karst.
Task 3 resources
Task 4: Participative multi-stakeholder workshops for building a shared vision of the causes of disruption to rivers in Franche-Comté
The aim is to foster a dialogue between those working in the field and scientists in order to share layman's and technical knowledge. This is a prerequisite for discussing the remedial measures to be set up.
Task 4 resources
Final presentation to local decision-makers
Final meeting in Ornans - 12th December 2025.
The NUTRI-Karst project at a glance
- Six years, end of programme in 2025
- Scientific production by agronomists, hydrogeologists, geochemists and technicians
- Methods used: production of data (physical and chemical monitoring of water, hydrogeological and agronomical), development of hydrogeological approaches specifically for karst hydrosystems in cultivated areas (data analysis and modelling)
- A monitoring committee to bring together the various local stakeholders involved in the project, including local authorities (départements, public river basin bodies [EPTB], public water development and management bodies [EPAGE], river basin associations, regional nature parks [PNR], etc.), government departments (Departmental Territories Directorate [DDT], Regional Environment, Planning and Housing Directorate [DREAL], French Biodiversity Office [OFB], Regional Food, Agriculture and Forestry Directorate [DRAAF]), the farming and fishery sectors and civil society (Comté Interprofessional Management Committee [CIGC], fishing federations, etc.)
- Partners:
- BRGM (coordinator)
- Doubs - Belfort Interdepartmental Chamber of Agriculture
- Funding: out of the total funding of 1.3 million euros, 50% was provided by the Rhône-Méditerranée-Corse Water Agency, with the remainder contributed by the partners.