Phenotype Management in the SGN Platform

The SGN platform (http://solgenomics.net/) for genome and phenome databases that has been applied to the Solanaceae and other species. The incorporation of genotypic and phenotypic information in the database enabled tools that link phenotypes to genotypes, and therefore functionality that can inform the breeding process. Currently implemented in the platform are extensive web-based phenotype and trait data management tools, pedigree data tools, and the solQTL tool, which uses QTL analysis to link genome regions to traits of interest. The underlying database structure, which is based on the Chado Natural Diversity schema, will be discussed in detail and how it is applied to the management of phenotypes; the interactive web interfaces created for the data management functionality will also be discussed. Under development are features that accommodate new breeding paradigms such as Genomic Selection, and simple interfaces for the management of breeding programs. The software can be applied to any other species or clade and is available in an open source format.