EVENT : C3BI Seminars
Main speaker : Rémy Zallot, from University of Illinois Date : 20-06-2019 at 02:00 pm Location : Duclaux room down groundfloor – DUCLAUX (01), Institut Pasteur, Paris
Protein databases contain an exponentially growing number of sequences as a result of the decrease of cost and difficulty of genome sequencing. The rate of data accumulation far exceeds the rate of functional studies, producing an increase in genomic ‘dark matter’, sequences for which no precise and validated function is defined. Strategies to leverage the protein and genome databases for discovery of the functions of novel enzymes belonging to the dark matter are needed. “Genomic enzymology” is the integration of relationships among sequence-function space in protein families and the genome context of their bacterial, archaeal, and fungal members to propose function. The Enzyme Function Initiative suite of webtools (https://efi.igb.illinois.edu) include the EFI-Enzyme Similarity Tool (EFI-EST) for generating sequence similarity networks (SSNs) for protein families and the EFI-Genome Neighborhood Tool (EFI-GNT) producing Genome Neighborhood Networks (GNNs) and Genome Neighborhood Diagrams (GND) for analyzing and visualizing genome context of SSNs clusters. Together, these tools facilitate the “Genomic enzymology” application to the ‘dark matter’ problem. A detailed overview of the principle of SSNs, GNNs and GNDs generation will be presented. The identification of an unexpected reaction in the Queuosine biosynthesis pathway will illustrate the approach.
Due to security policy in Institut Pasteur, please register before if you plan to come to this meeting