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Project description
Galaxy-BioProd’s goal is to provide generic and shared tools and resources to design, execute, and monitor projects across the various PEPR B-BEST axes. To this end, a centralized portal is currently being developed, bringing together software tools as well as computing and storage resources. Beyond the PEPR’s needs, Galaxy-BioProd aims to reduce R&D costs and timelines in order to accelerate the development of (bio)catalysts, strain bioengineering, and associated (bio)processes. This unique system could provide lasting benefits to the synthetic biology, biocatalysis, and industrial biotechnology communities.
To standardize approaches that are still largely based on trial and error, the synthetic biology community has adopted the DBTL (Design-Build-Test-Learn) approach. While this framework is now the standard for biofoundries (including those in the global alliance), each organization still maintains its own practices and pipelines. Galaxy-BioProd thus aims to pool and standardize these tools according to the FAIR (Findability, Accessibility, Interoperability, Reusability) principles.
To facilitate this FAIR harmonization, we are using the Galaxy platform, a proven workflow management system (+8,000 tools), accessible via web browser, offering training resources and ensuring the reproducibility of experimental data analyses. Our developments are based on existing resources from the Galaxy ToolShed, covering in particular omics analyses (including metabolomics) and strain engineering. The Galaxy ecosystem is currently being enriched with new tools (TRL1 to TRL4) specific to PEPR B-BEST, including: multi-strain chemical/biochemical retrosynthesis, optimization of enzyme sequences, machine learning for automated experimental design, multi-scale modeling of industrial bioreactors, hybrid models for online piloting and LCA modeling of biosourced products. It is planned to accompany each tool with online training. A first session took place in October 2024.
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