From annotation and analysis of microbial genomes, Genome-Scale Metabolic Networks (GSMN) can be obtained and contain all of the known metabolic reactions in a given organism and the genes that encode each enzyme. Part of our research activities are focused on the curation of GSMN and the development of databases and methods to improve their reconstruction.
Two main bottlenecks limit the understanding of metabolic consequences encoded in a genome: the difficulty in associating correct functions to genes and the lack of experimental characterization of enzyme activities for which proteins are sometimes unknown, i.e. orphan enzymes. In the light of enzymatic screening and metabolomics experiments, we develop bioinformatics methods and perform bioanalysis for the discovery of new enzyme families and the exploration of their functional diversity. Methods are mainly based on sequence analysis, genomic and metabolic context exploration and structural bioinformatics.

ALADIN project: Active Learning to Accelerate biocatalyst Development for INdustrial biotechnology
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MODAMDH project: In silico approach for amine dehydrogenase discovery
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Discovery of the complete catabolic pathway for red algal carrageenans in marine bacteria
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NetSyn – Exploring Syntenies Networks of Genes
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Mining secondary metabolites in cyanobacterial genomes
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