Microbiomes in food production systems

National, EU and global food systems are facing sustainability challenges, from primary production to consumption, that could jeopardise food and nutrition security. The farm to fork strategy, which is key to the success of the European Green Deal and achievement of the UN sustainable development goals (SDGs), aims to address these challenges and to deliver co-benefits for environment, health, society and the economy, ensuring that actions leading to recovery from the COVID-19 crisis also put us onto a sustainable path going forward. Research and innovation (R&I) are key drivers steering and accelerating the transition to sustainable, safe, healthy and inclusive food systems, from farm to fork, thereby ensuring food and nutrition security for all.

Sustainable farming systems provide a number of economic, environmental, social and health benefits, and are the main prerequisite for food and nutrition security. For farmers, who are the backbone of food systems and the immediate managers of natural resources, the Green Deal sets ambitious targets with respect to the sustainability and safety of feed and food production. These targets are included in the core Green Deal policy initiatives, in particular the farm to fork strategy, the biodiversity strategy, zero pollution efforts and climate action. R&I in line with the strategic approach to EU agricultural research and innovation^[1] will be key enablers if these challenging targets are to be achieved. They will speed up the transition to sustainable and competitive agriculture by unlocking the potential of agroecology^[2], including improving organic farming as part of the agroecological transition, boosting production of EU-grown plant proteins and advancing digital and data technologies (Destination ‘Innovative governance, environmental observations and digital solutions in support of the Green Deal’). R&I will support farmers to manage land, soil, water and nutrients in new, sustainable ways, in particular through the Horizon Europe mission in the area of ‘soil health and food’. New knowledge and innovative solutions will improve plant and animal health and welfare, prevent interspecies disease transmission through food production and trade systems, and reduce farmers’ dependency on pesticides, antimicrobials and other external inputs. Thanks to R&I, farming systems will maximise provision of a wide range of ecosystem services from more sustainably managed EU agro‑ecosystems and landscapes, and help to reverse the loss of biodiversity and soil fertility while ensuring resilient primary production (Destination ‘Biodiversity and ecosystem services’). Farmers will be better equipped to make a significant contribution to climate neutrality and become more resilient to climate change (Destination ‘Land, ocean and water for climate action’). Also, R&I will support the development of policy (in particular the common agricultural policy (CAP)), business models and market conditions enabling transition to sustainable food and farming systems. Effective agricultural knowledge and innovation systems (AKISs) will speed up innovation and the uptake of R&I results from farm to fork (Destination ‘Innovative governance, environmental observations and digital solutions in support of the Green Deal’). As a result, farmers will be able to transform their production methods and move to climate- and environment‑friendly, and resilient farming systems, thereby contributing to sustainable food value chains that provide producers with fair economic returns and consumers with affordable, safe, healthy and sustainable food (Destinations ‘Biodiversity and ecosystem services’ and ‘Land, ocean and water for climate action’).

Sustainable fisheries and aquaculture contribute directly to environment‑friendly, inclusive, safe and healthy food production by providing highly nutritional proteins, lipids and micronutrients for a healthy diet. Sustainably produced food from marine and freshwater bodies can and should account for a much bigger proportion of our overall food consumption. The farm to fork strategy seeks to help fishers and aquaculture producers to achieve better climate and environmental results and to strengthen their position in the supply chain. R&I will directly support the common fisheries policy (CFP) and deliver inclusive, diversified approaches to allow fisheries management to adapt to different realities, including in the international context. Sustainable and resilient aquaculture systems, including the use of low trophic species (e.g. algae and herbivores), high animal welfare standards and alternative sources of protein for food and feed, will increase seafood production and reduce its environmental impact while adding economic value to the chain. Seafood security will benefit from a drastic reduction in the current massive pre- and post-harvest losses in seafood biomass. Producers’ and consumers’ awareness, trust and behaviour with respect to the responsible production, consumption and disposal of seafood will contribute directly to the competitiveness and sustainability of the sector. An overarching partnership for a climate‑neutral, sustainable and productive blue economy will contribute to food security, added value, blue growth and jobs in Europe through a jointly supported R&I programme in the European seas, coastal and inland waters.

Transforming food systems for health, sustainability and inclusion requires robust, system-wide changes at all governance levels (from local to global and vice versa) as food systems are intertwined with all other sectors and are among the key drivers of climate change and environmental degradation. Food systems are to be understood as covering all the sectors, actors, stakeholders, organisations and disciplines relevant to and connecting primary production from land and sea, food processing, food distribution and retailing, food services, food consumption, food safety, nutrition and public health, and food waste streams. The European Green Deal and, in particular, the farm to fork strategy support a shift to more resilient and environmentally, socially and economically sustainable food systems, as required to deliver safe, healthy, accessible and affordable food and diets for all sourced from land and sea, while respecting planetary boundaries. This will involve a better understanding of the multiple interactions between the components of current food systems, to foster solutions that maximise co-benefits with respect to the four priorities of the Commission’s ‘Food 2030’ R&I initiative:

• nutrition and health, including food safety;
• climate and environmental sustainability;
• circularity and resource efficiency; and
• innovation and empowering communities.

R&I will accelerate the transition to sustainable, healthy and inclusive food systems by delivering in various areas: dietary shifts towards sustainable and healthy nutrition; supply of alternative and plant-based proteins; prevention and reduction of food loss and waste; microbiome applications; improving food safety and traceability; fighting food fraud; behavioural change; personalised nutrition; urban food systems (Destination ‘Resilient, inclusive, healthy and green rural, coastal and urban communities’); food systems governance and systems science; and digital and data-driven innovation (Destination ‘Innovative governance, environmental observations and digital solutions in support of the Green Deal’).

R&I activities supporting the partnership for safe and sustainable food systems for people, planet and climate will help identify and deliver innovative solutions providing co-benefits for nutrition, food quality, the climate, circularity and communities.

The EU also aims to promote a global transition to sustainable food systems. Targeted R&I activities, in particular under the EU-Africa Partnership on Food and Nutrition Security and Sustainable Agriculture (FNSSA) and global initiatives involving international research consortia, will contribute to this ambition.

Expected impacts:

Proposals for topics under this destination should set out credible pathways to fair, healthy, safe, climate- and environment‑friendly, resilient food systems from primary production to consumption, ensuring food and nutrition security for all within planetary boundaries in the EU and globally.

More specifically, proposals should contribute to one or more of the following impacts:

• sustainable, productive, climate-neutral and resilient farming systems providing consumers with affordable, safe, traceable healthy and sustainable food, while minimising pressure on ecosystems, restoring and enhancing biodiversity, improving public health and generating fair economic returns for farmers;
• sustainable fisheries and aquaculture increasing aquatic biomass production, diversification and consumption of seafood products for fair, healthy, climate‑resilient and environment‑friendly food systems with low impact on aquatic ecosystems and high animal welfare; and
• sustainable, healthy and inclusive food systems delivering co-benefits for climate mitigation and adaptation, environmental sustainability and circularity, sustainable healthy nutrition, safe food consumption, food poverty reduction, the inclusion of marginalised people, the empowerment of communities, and flourishing businesses.

When considering their impact, proposals also need to assess their compliance with the ‘do no significant harm’ principle^[3], whereby R&I projects should not support or involve activities that significantly undermine any of the six environmental objectives of the EU Taxonomy Regulation.

To unlock the full potential of R&I and maximise impacts, participatory approaches, e.g. multi-actor approach, involving input from industry, technology providers, primary producers, the food, drink and hospitality industry, consumers, citizens, local authorities, etc. should be promoted with a view to co-creating innovative systemic solutions in support of food systems’ sustainability.

Topics under this destination should have impacts in the following impact areas of the Horizon Europe strategic plan for 2021-2024:

• sustainable food systems from farm to fork on land and sea
• climate change mitigation and adaptation;
• enhancing ecosystems and biodiversity on land and in waters;
• good health and high-quality accessible healthcare;
• clean and healthy air, water and soil;
• a resilient EU prepared for emerging threats; and
• inclusive growth and new job opportunities.

[1] https://ec.europa.eu/programmes/horizon2020/en/news/final-paper-strategic-approach-eu-agricultural-research-and-innovation

[2] http://www.fao.org/3/i9037en/i9037en.pdf

[3] See Article 17 of Regulation (EU) No 2020/852 on the establishment of a framework to facilitate sustainable investment (EU Taxonomy Regulation).

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