Tomato Genome Browser

Tomato Genome Browser provides integrated genomic and transcriptomic data for the Solanum lycopersicum cultivar Heinz 1706 (version 2.50) to support functional and structural genome annotation by combining RNAseq tags, Expressed Sequence Tags (ESTs), and Tentative Consensus sequences.

Key Features:

• Genome draft sequences: Incorporates draft sequences of Solanum lycopersicum (Heinz 1706, version 2.50) produced by the International Tomato Genome Sequencing Consortium.
• Expression data integration: Integrates RNAseq tags, Expressed Sequence Tags (ESTs), and Tentative Consensus sequences across Solanaceae transcriptomes.
• Functional and structural annotation: Provides in-depth functional and structural annotation of the tomato genome using integrated sequence and transcript evidence.
• Comparative genomics: Employs comparative methodologies to analyze organization, function, and evolutionary aspects within the Solanaceae family.
• Data convergence and quality enhancement: Implements data convergence and quality-enhancement tools to combine genome-level and expression-level datasets into value-added biological knowledge.
• Systems biology and multi-omics integration: Preserves and integrates multiple '-omics' data types to support systems biology–level analyses.

Scientific Applications:

• Functional annotation: Uses RNAseq tags, ESTs, and Tentative Consensus sequences to annotate gene models and infer gene function in tomato.
• Structural genomics: Enables analyses of genomic architecture and variation using Solanum lycopersicum draft sequences (Heinz 1706 v2.50).
• Comparative genomics: Facilitates comparison across Solanaceae species to assess evolutionary conservation and divergence of genes and genomic regions.
• Systems biology research: Supports multi-level investigations that integrate genomic and transcriptomic data for systems-level studies.

Methodology:

Part of the ISOLA (Italian SOLAnaceae genomics resource) initiative, it operates as a trial platform within a multi-level computational environment emphasizing data convergence and quality-enhancement tools.