Ruegeria Pomeroyi: Genome, Transcriptome, and Mutant Library Data

Ruegeria pomeroyi DSS-3 databases consolidate genomic and transcriptomic data for this model marine bacterium. The data includes the complete genome and megaplasmid sequence with curated gene annotations from the Moran Lab, plus transcriptome and metatranscriptome read-mapping data. These resources were assembled by researchers from the University of Georgia and University of Chicago using the anvi'o platform.

Use Cases

• Study gene function and regulation based on curated gene annotations and transcriptome data.
• Analyze mutant phenotypes based on annotations for the TnSeq mutant library.
• Conduct comparative genomics based on the complete genome and megaplasmid sequence.
• Visualize gene expression patterns based on read-mapping data from multiple samples.

Strengths

• Includes the complete genome and megaplasmid sequence of a model organism.
• Gene annotations are highly-curated by a specific research lab and supplemented with annotations from NCBI COGs, KEGG, and Pfams.
• Transcriptome data is derived from multiple samples, some with public SRA accession numbers.

Limitations

• Row count and dataset scale are unknown, which may limit suitability assessment.
• Column-level documentation is absent; field semantics must be inferred after download.
• Last update date is unknown; freshness unverified.

Provenance

Source

Moran Lab at the University of Georgia, with contributions from University of Chicago researchers.

Collection Method

Data generated by the Moran Lab and consolidated using the anvi'o platform.