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First published online June 4, 2004; 10.1104/pp.104.040444 Plant Physiology 135:1129-1144 (2004) © 2004 American Society of Plant Biologists Gene Expression Signatures from Three Genetically Separable Resistance Gene Signaling Pathways for Downy Mildew Resistance1,[w]Department of Biology (T.E., V.J.W., J.L.D.), Curriculum in Genetics, Department of Microbiology and Immunology (J.L.D.), Carolina Center for Genome Sciences (V.J.W., J.L.D.), and Graduate Program in Bioinformatics and Computational Biology (V.J.W.), University of North Carolina, Chapel Hill, North Carolina 27599; Torrey Mesa Research Institute, San Diego, California 92121 (H.-S.C., J.G., T.Z.); Department of Plant Pathology, Physiology, and Weed Science, Fralin Biotechnology Center, Virginia Tech, Blacksburg, Virginia 24061–0346 (J.M.M.); and Horticulture Research International, Wellesbourne, Warwick CV35 9EF, United Kingdom (E.B.H.)
Resistance gene-dependent disease resistance to pathogenic microorganisms is mediated by genetically separable regulatory pathways. Using the GeneChip Arabidopsis genome array, we compared the expression profiles of approximately 8,000 Arabidopsis genes following activation of three RPP genes directed against the pathogenic oomycete Peronospora parasitica. Judicious choice of P. parasitica isolates and loss of resistance plant mutants allowed us to compare the responses controlled by three genetically distinct resistance gene-mediated signaling pathways. We found that all three pathways can converge, leading to up-regulation of common sets of target genes. At least two temporal patterns of gene activation are triggered by two of the pathways examined. Many genes defined by their early and transient increases in expression encode proteins that execute defense biochemistry, while genes exhibiting a sustained or delayed expression increase predominantly encode putative signaling proteins. Previously defined and novel sequence motifs were found to be enriched in the promoters of genes coregulated by the local defense-signaling network. These putative promoter elements may operate downstream from signal convergence points.
1 This work was supported by the U.S. Department of Agriculture National Research Initiative (grant no. CSREES 99–35301–7848 to J.L.D.), the Deutsche Forschungsgemeinschaft (EU 51/1) and the Max Planck Society (Otto Hahn Medallion postdoctoral fellowships to T.E.), and the Bioinformatics and Computational Biology Training Program of the Carolina Center for Genome Sciences (V.J.W.). 2 Present address: Center for Plant Cell Biology, Department of Botany and Plant Sciences, University of California, Riverside, CA 92508. 3 Present address: Diversa Corporation, 4955 Directors Place, San Diego, CA 92121. Note: The Torrey Mesa Research Institute has been closed. 4 Present address: Department of Plant Biology, University of Minnesota, St. Paul, MN 55108. 5 Present address: Syngenta Biotechnology, 3054 Cornwallis Road, Research Triangle Park, NC 27709. [w] The online version of this article contains Web-only data. Article, publication date, and citation information can be found at www.plantphysiol.org/cgi/doi/10.1104/pp.104.040444. * Corresponding author; e-mail dangl{at}email.unc.edu; fax 919–962–1625. Received February 2, 2004; returned for revision March 3, 2004; accepted May 3, 2004. This article has been cited by other articles:
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