Plant Physiology Preview
Published on December 15, 2006; 10.1104/pp.106.087270
OPEN ACCESS ARTICLE
Received July 24, 2006
Accepted November 17, 2006
The Rice Kinase Database. A Phylogenomic Database for the Rice Kinome
Christopher Dardick , Johann Chen , Todd Richter , Shu Ouyang , and Pamela Ronald *
USDA-ARS, Appalachian Fruit Research Station, Kearneysville, West Virginia, 25430
Department of Plant Pathology, University of California Davis, Davis, California, 95616
The Institute for Genomic Research, Rockville, Maryland, 20853
* Corresponding author; email: pcronald{at}ucdavis.edu.
The Oryza sativa (rice) genome contains 1,429 protein kinases the vast majority of which have unknown functions. We created a phylogenomic database (http://rkd.ucdavis.edu) to facilitate functional analysis of this large gene family. Sequence and genomic data, including gene expression data and protein-protein interaction maps, can be displayed for each selected kinase in the context of a phylogenetic tree allowing for comparative analysis both within and between large kinase subfamilies. Interaction maps are easily accessed through links and displayed using Cytoscape, an open source software platform. Chromosomal distribution of all rice kinases can also be explored via an interactive interface.
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