Plant, Animal & Microbe Genomes X Conference Plant, Animal & Microbe Genomes X ConferenceJanuary 12-16, 2002
Town & Country Convention Center
San Diego, CA
Bioinformatics: Databases
The Compositae genome database, Compositdb, has been developed to archive and provide access to genetic, phenotypic and molecular data for agriculturally important species in the Compositae family, with initial emphasis on lettuce and sunflower. Compositdb currently comprises of four individual databases: Lettdb, Sundb, Lettcv and Sungen. Lettdb and Sundb are ACEDB-type databases developed in parallel for lettuce and sunflower data respectively. These databases include information about mapping populations, segregation data, genetic maps, genetic markers, probes, marker images and sequences of markers as well as contact information for researchers interested in these species. Web interfaces have been developed to access analytical tools such as graphical genotyping and for data submission. The Lettcv database incorporates comprehensive phenotypic and genetic data of over 3,300 lettuce cultivars in a searchable relational database architecture. It includes genetic and phenotypic data from scientific sources, pedigree information and historical data as well as information from current seed catalogs and the USDA GRIN and CGN databases. Sungen is a relational database, dedicated to sunflower genetic marker data such as SSRs; this database permits rapid retrieval of genotypic data in customized tables. Two more databases, Lettseq and Sunseq, are under development and should be on line early in 2002. These will provide access to and analysis of ca. 80,000 ESTs generated for lettuce and sunflower by the Compositae Genome Project. The Compositdb can be accessed at http://compositdb.ucdavis.edu.