Expression Profile Matrix of Arabidopsis Transcription Factor Genes Suggests Their Putative Functions in Response to Environmental Stresses[W]
Author:
Chen Wenqiong1, Provart Nicholas J.1, Glazebrook Jane1, Katagiri Fumiaki1, Chang Hur-Song1, Eulgem Thomas2, Mauch Felix3, Luan Sheng4, Zou Guangzhou1, Whitham Steve A.1, Budworth Paul R.1, Tao Yi1, Xie Zhiyi1, Chen Xi5, Lam Steve5, Kreps Joel A.1, Harper Jeffery F.6, Si-Ammour Azzedine3, Mauch-Mani Brigitte3, Heinlein Manfred7, Kobayashi Kappei7, Hohn Thomas7, Dangl Jeffery L.2, Wang Xun1, Zhu Tong1
Affiliation:
1. Torrey Mesa Research Institute, Syngenta Research and Technology, 3115 Merryfield Row, San Diego, California 92121 2. Department of Biology, University of North Carolina, Chapel Hill, North Carolina 27599 3. Department of Biology, University of Fribourg, CH-1700 Fribourg, Switzerland 4. Department of Plant and Microbial Biology, University of California, Berkeley, California 94720 5. Syngenta Biotechnology, Inc., 3054 Cornwallis Road, Research Triangle Park, North Carolina 27709 6. Scripps Research Institute, 3528 General Atomics Court, San Diego, California 92121 7. Friedrich Miescher Institute, Maulbeerstrasse 66, CH-4058 Basel, Switzerland
Abstract
Abstract
Numerous studies have shown that transcription factors are important in regulating plant responses to environmental stress. However, specific functions for most of the genes encoding transcription factors are unclear. In this study, we used mRNA profiles generated from microarray experiments to deduce the functions of genes encoding known and putative Arabidopsis transcription factors. The mRNA levels of 402 distinct transcription factor genes were examined at different developmental stages and under various stress conditions. Transcription factors potentially controlling downstream gene expression in stress signal transduction pathways were identified by observed activation and repression of the genes after certain stress treatments. The mRNA levels of a number of previously characterized transcription factor genes were changed significantly in connection with other regulatory pathways, suggesting their multifunctional nature. The expression of 74 transcription factor genes responsive to bacterial pathogen infection was reduced or abolished in mutants that have defects in salicylic acid, jasmonic acid, or ethylene signaling. This observation indicates that the regulation of these genes is mediated at least partly by these plant hormones and suggests that the transcription factor genes are involved in the regulation of additional downstream responses mediated by these hormones. Among the 43 transcription factor genes that are induced during senescence, 28 of them also are induced by stress treatment, suggesting extensive overlap responses to these stresses. Statistical analysis of the promoter regions of the genes responsive to cold stress indicated unambiguous enrichment of known conserved transcription factor binding sites for the responses. A highly conserved novel promoter motif was identified in genes responding to a broad set of pathogen infection treatments. This observation strongly suggests that the corresponding transcription factors play general and crucial roles in the coordinated regulation of these specific regulons. Although further validation is needed, these correlative results provide a vast amount of information that can guide hypothesis-driven research to elucidate the molecular mechanisms involved in transcriptional regulation and signaling networks in plants.
Publisher
Oxford University Press (OUP)
Subject
Cell Biology,Plant Science
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