AI-Optimised Fermentation for Sustainable Protein Production from Food Side Streams
Lead Research Organisation:
University of Leeds
Department Name: School of Food Science and Nutrition
Abstract
This international collaboration will develop AI methods for optimising fermentation processes that use food side streams as substrates to produce sustainable proteins for human consumption. It will be led by the University of Leeds (UoL) and the Commonwealth Scientific and Industrial Research Organisation (CSIRO) and includes four industrial partners from the agri-food sector.
Current alternative protein production often uses high-sugar substrates. This project aims to utilise food side streams as the fermentation substrate to increase sustainability and economic viability of protein production. Given the variability between different food side streams, AI will be used to aid optimisation of fermentation parameters like solids and moisture content, pre-treatment methods, pH levels, yeast strains, and nutrient supplementation.
Approximately one-third of food produced gets wasted. The project addresses this waste, contributes to creating a circular economy, while simultaneously producing protein to enhance food security for a growing world population. The project is aligned with two of the competition's themes on AI in sustainable agriculture and food and AI to advance manufacturing and clean growth.
Each institution has complementary capabilities where the University of Leeds team offers experience in experimental data collection and preliminary model development and CSIRO brings expertise in scaling up these processes to ensure they have a broader, real-world impact. The partnership also addresses regional variations in food side streams enabling the development of adaptable models with greater generalisability. The projects activities are organised into five Work Packages (WPs):
WP1 (UoL): Experimental data collection: Collection of data from fermentation processes using food side streams (short shelf-life soft fruit and Jerusalem artichokes) as substrates to produce protein.
WP2 (UoL & CSIRO): Single side stream models: Leveraging the data from WP1, development of AI models to predict fermentation products (e.g., microbial dynamics, yield, and protein concentration) based on the side stream composition and fermentation parameters.
WP3 (UoL): Adaptive modelling techniques: Using the data from WP1, development of transfer learning and Bayesian optimisation methodologies to significantly reduce the data collection burden for new side streams or equipment.
WP4 (CSIRO): Scale up and out: The methodologies from WP3 will guide data collection from scaled-up fermentation trials at CSIRO using new food side streams aiming to maximise sustainability and economics.
WP5 (UoL & CSIRO): Partnership and impact: Focusing on disseminating findings to the broader scientific community, sharing data, code, models, methodologies, and academic papers; and conducting partnership activities including visits, workshops, and training sessions.
The outcome of the partnership between UoL and CSIRO will be enhanced AI capabilities at each organisation, the career development of project team members and adaptable AI models that can be used by beneficiaries world-wide to efficiently optimise fermentation processes and assess the potential of new food side streams.
Current alternative protein production often uses high-sugar substrates. This project aims to utilise food side streams as the fermentation substrate to increase sustainability and economic viability of protein production. Given the variability between different food side streams, AI will be used to aid optimisation of fermentation parameters like solids and moisture content, pre-treatment methods, pH levels, yeast strains, and nutrient supplementation.
Approximately one-third of food produced gets wasted. The project addresses this waste, contributes to creating a circular economy, while simultaneously producing protein to enhance food security for a growing world population. The project is aligned with two of the competition's themes on AI in sustainable agriculture and food and AI to advance manufacturing and clean growth.
Each institution has complementary capabilities where the University of Leeds team offers experience in experimental data collection and preliminary model development and CSIRO brings expertise in scaling up these processes to ensure they have a broader, real-world impact. The partnership also addresses regional variations in food side streams enabling the development of adaptable models with greater generalisability. The projects activities are organised into five Work Packages (WPs):
WP1 (UoL): Experimental data collection: Collection of data from fermentation processes using food side streams (short shelf-life soft fruit and Jerusalem artichokes) as substrates to produce protein.
WP2 (UoL & CSIRO): Single side stream models: Leveraging the data from WP1, development of AI models to predict fermentation products (e.g., microbial dynamics, yield, and protein concentration) based on the side stream composition and fermentation parameters.
WP3 (UoL): Adaptive modelling techniques: Using the data from WP1, development of transfer learning and Bayesian optimisation methodologies to significantly reduce the data collection burden for new side streams or equipment.
WP4 (CSIRO): Scale up and out: The methodologies from WP3 will guide data collection from scaled-up fermentation trials at CSIRO using new food side streams aiming to maximise sustainability and economics.
WP5 (UoL & CSIRO): Partnership and impact: Focusing on disseminating findings to the broader scientific community, sharing data, code, models, methodologies, and academic papers; and conducting partnership activities including visits, workshops, and training sessions.
The outcome of the partnership between UoL and CSIRO will be enhanced AI capabilities at each organisation, the career development of project team members and adaptable AI models that can be used by beneficiaries world-wide to efficiently optimise fermentation processes and assess the potential of new food side streams.
Organisations
Publications
Pennells J
(2025)
Mapping the AI Landscape in Food Science and Engineering: A Bibliometric Analysis Enhanced with Interactive Digital Tools and Company Case Studies.
in Food engineering reviews
| Description | AI Platform for Sustainable Protein from Agri-Food Waste |
| Amount | $1,998,000 (USD) |
| Funding ID | G-2025-00873 |
| Organisation | Bezos Earth Fund |
| Sector | Charity/Non Profit |
| Country | United States |
| Start | 01/2026 |
| End | 12/2027 |
| Description | Fortyeast |
| Amount | £500,000 (GBP) |
| Funding ID | 133100 |
| Organisation | Innovate UK |
| Sector | Public |
| Country | United Kingdom |
| Start | 12/2024 |
| End | 11/2026 |
| Description | Exploitation of yeast biodiversity |
| Organisation | Commonwealth Scientific and Industrial Research Organisation |
| Country | Australia |
| Sector | Public |
| PI Contribution | Dr Carol Hartley, Senior Research Scientist & Engineering Biology Team Leader, CSIRO I shared my work with Carol and we saw the bridges and start exchanging ideas. Carol then kindly provide my group with several yeast strains that they have good results and I have been using these in my work but also on yeast biomass from waste for the present project. |
| Collaborator Contribution | above |
| Impact | yet to come |
| Start Year | 2024 |
| Description | Fermentation benefits |
| Organisation | University of Melbourne |
| Country | Australia |
| Sector | Academic/University |
| PI Contribution | Prof Kate Howell During our visit to Australia we had the opportunity to visit some universities including University of Melbourne and talk with different researchers and professionals. During these talks we could see ideas we could explore together and that is what happened with Prof Kate Howell. she show interest in having PhD students together and I propose the possibility of her entering in the consortia I am elaborating for a Marie currie DN. We just had the first couple of talks. We want to apply for PHD exchange and prepare a Marie curie Doctoral Network for the next call (fall 2025) |
| Collaborator Contribution | above |
| Impact | we just started |
| Start Year | 2025 |
| Description | Conversion of under-resourced crops, bio-waste, and other biomass into high value products using a yeast fermentation |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Industry/Business |
| Results and Impact | Presentation to the Association of Applied Biologists for their crops conference Aberystwyth, September 2024. |
| Year(s) Of Engagement Activity | 2024 |
| Description | Modelling in Food: Machine Learning, Life Cycle Assessment, and Techno-economic Analysis |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Postgraduate students |
| Results and Impact | Project work delivered to students studying the "Digital Tools" module in Food Science and Nutrition at the University of Leeds. Led to increased interest in PhD programs and new directions for the module (e.g., coding, AI). |
| Year(s) Of Engagement Activity | 2025 |
| Description | World submit on Food Science and Nutrition |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Industry/Business |
| Results and Impact | World submit on Food Science and Nutrition, October 2024, Bern Switzerland- invited talk |
| Year(s) Of Engagement Activity | 2024 |
