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Poster

Session: Session 2 Presenting Authors at Posters (Evens)

P-080 - TomTom: a tomato (Solanum lycopersicum) knowledge graph gathering molecular interactions from public databases in a unique resource, enabling the study of plant-pathogen interactions.

Thursday, July 17, 2025
13:30 - 15:15  
Location: Confex Hall 3
Crop resistance genetics and genomics
The tomato, Solanum lycopersicum, is a model organism of great agro-economic interest. Like other plants, tomato is susceptible to many biotic and abiotic stresses and must defend itself despite its immobility. Many processes are involved in the plant's response to such stresses, including specific molecular interactions and pathways. Omics technologies have become widely used to study the plants' responses. These technologies allow the study of many biological processes at different molecular levels, such as transcriptomics, which studies expressed mRNAs in a given condition. Studying the interactions measured by omics can be challenging because the information is scattered across multiple databases, often with different identifiers for the same molecules, making searches time-consuming and error-prone. Here, we have built TomTom, a knowledge graph for the species S. lycopersicum that collects known molecular interactions from nine databases, including transcription factor and microRNA targets, protein-protein interactions, and functional terms. The graph represents more than 100k objects with more than 2.5 million relationships connecting them. TomTom provides confidence in the corresponding interaction through its construction rules. We demonstrated that TomTom can be used to generate new hypotheses about molecular interactions, and to retrieve networks that can further be analyzed to identify key regulators of tomato-multipathogen interactions.