Plant & Animal Genomes XIII Conference

January 15-19, 2005
Town & Country Convention Center
San Diego, CA

A Genome Database For Rosaceae (GDR)

Doreen Main^1,2 , Sook Jung¹ , Christopher Jesudurai¹ , Margaret Staton¹ , Stephen Ficklin¹ , Jeffrey Tomkins^1,2 , Albert Abbott^2,3

¹  Clemson University Genomics Institute, Clemson University, Clemson, SC, 29634, USA

²  Department of Genetics and Biochemistry, Clemson University, Clemson, SC, 29634, USA

³  Department of Biological Sciences, Clemson University, Clemson, SC, 29634, USA

Rosaceae is an economically important family which includes fruits and ornamental plants such as peach, almond, strawberry, apple, pear, blackberry, cherry and rose. The genomic and genetic data of peach, a model organism for Rosaceae, can play a significant role in the gene discovery and the genetic understanding of other related species. The Genome Database for Rosaceae (GDR) is a curated and integrated web-based relational database, initiated for the effective utilization of the Rosaceae genomics and genetics data. GDR contains comprehensive data of the genetically anchored peach physical map, Rosaceae maps and markers and an annotated EST database of peach, almond, strawberry, and all publicly available Rosaceae sequences. Annotations of ESTs include contig assembly, putative function, simple sequence repeats and anchored position to the peach physical map where applicable. Our integrated map viewer provides graphical interface to the genetic, transcriptome and physical mapping information. ESTs, BACs and markers can be queried by various categories and the search result sites are linked to the integrated map viewer or to the WebFPC physical map sites. CMap, the comparative map viewer, has also been incorporated to allow the comparisons of various Rosaceae genetic maps. In addition to browsing and querying the database, users can compare their sequences with the annotated GDR sequences via a dedicated sequence similarity server running either the BLAST or FASTA algorithm. New feature includes the CAP3 assembly server and Rosaceae publication search site. GDR can be accessed at
http://www.genome.clemson.edu/gdr/