ASHS 2024 Conference

The Genome Database for Vaccinium (GDV, www.vaccinium.org) is a community database resource for Vaccinium researchers and breeders. The database contains genomics data for blueberry, cranberry, bilberry, and lingonberry that are integrated with other types of data such as genetic maps, markers, and QTL/GWAS. The genomics data is accessible via a plethora of search interfaces and tools. GDV has over 40 genomes and allows users to view the genomes in JBrowse, query sequences against the genomes in BLAST and view genome synteny via the Synteny Viewer tool. Highly utilized genomes in JBrowse contain tracks of aligned markers, GWAS, and QTL. Standard GDV analyses on the genomes include synteny analysis and functional annotation of predicted genes with InterPro protein domains and GO terms as well as homology to known proteins. The genes and mRNAs of each genome, along with the functional annotations and orthologs/paralogs, are searchable on GDV. Representative genomes are available in the PathwayCyc tool which displays metabolic pathways and allows for transcriptomics or metabolomics data overlays. GDV also has the genomes and structural pangenomes from the Vaccinium Pangenome Project, a product of VacCAP. Expression datasets that are mapped to genomes are also available to explore using the Expression Heatmap tool. Also available in GDV is the Breeding Information Management System (BIMS) that allows breeders to manage and analyze the phenotypic and genotypic data and provides public access to GRIN phenotype data. This presentation will showcase how to access these genomics data through various tools.