ScRAPdb: an integrated pan-omics database for the Saccharomyces cerevisiae reference assembly panel.

Area of Science:

• Genomics
• Eukaryotic Microbiology
• Population Genetics

Background:

• Saccharomyces cerevisiae is a key model organism balancing complexity and tractability.
• Studying natural genome evolution and functional implications in yeast requires high-quality genomic data.
• Previous work established the ScRAP panel for 142 yeast strains.

Purpose of the Study:

• To expand the telomere-to-telomere (T2T) S. cerevisiae reference assembly panel (ScRAP).
• To create a comprehensive online database (ScRAPdb) for this expanded pangenome collection.
• To integrate population-scale pan-omics data and analysis tools.

Main Methods:

• Exhaustively expanded the ScRAP panel to include 264 S. cerevisiae strains and 33 outgroup strains.
• Developed the ScRAPdb online database to host the pangenome collection.
• Integrated pantranscriptome, panproteome, and panphenome atlases with data exploration toolkits.

Main Results:

• High-quality genome assemblies and annotations for 264 diverse S. cerevisiae strains and 33 outgroup strains.
• ScRAPdb now hosts an expanded pangenome collection.
• Integrated pan-omics atlases and analysis tools are available for intuitive genomics analyses.

Conclusions:

• ScRAPdb provides a valuable platform for the yeast community.
• The database facilitates population-scale pan-omics understanding of yeast genetic and phenotypic diversity.
• This resource supports research into genome evolution and functional implications in Saccharomyces cerevisiae.