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Science 15 December 2000:
Vol. 290. no. 5499, pp. 2110 - 2113
DOI: 10.1126/science.290.5499.2110
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Research Articles

Orchestrated Transcription of Key Pathways in Arabidopsis by the Circadian Clock

Stacey L. Harmer,1 John B. Hogenesch,2 Marty Straume,3 Hur-Song Chang,4 Bin Han,4 Tong Zhu,4 Xun Wang,4 Joel A. Kreps,4 Steve A. Kay12*

Like most organisms, plants have endogenous biological clocks that coordinate internal events with the external environment. We used high-density oligonucleotide microarrays to examine gene expression in Arabidopsis and found that 6% of the more than 8000 genes on the array exhibited circadian changes in steady-state messenger RNA levels. Clusters of circadian-regulated genes were found in pathways involved in plant responses to light and other key metabolic pathways. Computational analysis of cycling genes allowed the identification of a highly conserved promoter motif that we found to be required for circadian control of gene expression. Our study presents a comprehensive view of the temporal compartmentalization of physiological pathways by the circadian clock in a eukaryote.

1 Department of Cell Biology, Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA.
2 Genomics Institute of the Novartis Research Foundation, 3115 Merryfield Row, La Jolla, CA 92121, USA.
3 Center for Biomathematical Technology, NSF Center for Biological Timing, Division of Endocrinology and Metabolism, Department of Internal Medicine, University of Virginia, Charlottesville, VA 22904, USA.
4 Novartis Agricultural Discovery Institute, 3115 Merryfield Row, San Diego, CA 92121, USA.
*   To whom correspondence should be addressed. E-mail: stevek{at}scripps.edu

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Natural Allelic Variation in the Temperature-Compensation Mechanisms of the Arabidopsis thaliana Circadian Clock.
K. D. Edwards, J. R. Lynn, P. Gyula, F. Nagy, and A. J. Millar (2005)
Genetics 170, 387-400
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{alpha}-Amylase Is Not Required for Breakdown of Transitory Starch in Arabidopsis Leaves.
T.-S. Yu, S. C. Zeeman, D. Thorneycroft, D. C. Fulton, H. Dunstan, W.-L. Lue, B. Hegemann, S.-Y. Tung, T. Umemoto, A. Chapple, et al. (2005)
J. Biol. Chem. 280, 9773-9779
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Science. ISSN 0036-8075 (print), 1095-9203 (online)