Plant & Animal Genomes XIX Conference

January 15-19, 2011
Town & Country Convention Center
San Diego, CA

Accessing Information In Plant Metabolic Pathway Databases At The Plant Metabolic Network, Gramene, And The SOL Genomics Network

Kate A. Dreher¹ , Lukas A. Mueller² , Palitha Dharmawardhana³ , Pankaj Jaiswal³ , Peter D. Karp⁴ , Peifen Zhang¹ , Seung Y. Rhee¹

¹  Carnegie Institution for Science, 260 Panama Street, Stanford, CA, 94305, USA

²  Boyce Thompson Institute for Plant Research, Tower Road, Ithaca, New York 14853, USA

³  Oregon State University, Cordley Hall 2082, Corvallis, Oregon, 97331, USA

⁴  SRI International, 333 Ravenswood Avenue Menlo Park, CA, 94025, USA

Plant metabolic pathway databases built using the Pathway Tools software exist for a number of different model plants and crops including AraCyc, for Arabidopsis thaliana, hosted at the Plant Metabolic Network (PMN) (www.plantcyc.org), RiceCyc for Oryza sativa hosted at Gramene (www.gramene.org/pathway), and LycoCyc for Solanum lycopersicum hosted at the SOL Genomics Network (solcyc.solgenomics.net). Information about the pathways, enzymes, reactions, and compounds from these species and many other plants have also been captured in the comprehensive PlantCyc database from the PMN. This demonstration will provide an overview of the data content present in these resources and demonstrate basic and advanced search strategies that can be used to obtain information that can help to enhance plant metabolic research. Efforts to predict the set of metabolic pathways present in other plant species with sequenced genomes will also be described. Users will also learn how to share their research results with the plant metabolism community through data submissions to these resources.