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Published on August 4, 2006; 10.1104/pp.106.086371

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Received July 5, 2006
Accepted July 24, 2006

Whole Genome Analysis of Oryza sativa L. Reveals Similar Architecture of Two-component-signaling-machinery with Arabidopsis

Ashwani Pareek *, Anupama Singh , Manoj Kumar , Hemant R. Kushwaha , Andrew M Lynn , and Sneh L. Singla-Pareek

Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi 110067, INDIA
Centre for Computational Biology and Bioinformatics, Jawaharlal Nehru University, New Delhi 110067, INDIA
Plant Molecular Biology, International Centre for Genetic Engineering and Biotechnology, New Delhi 110 067, INDIA

* Corresponding author; email: ashwanip{at}mail.jnu.ac.in.

The two-component system (TCS), which works on the principle of His-Asp phosphorelay signaling, is known to play an important role in diverse physiological processes in lower organisms and has recently emerged as an important signaling system in plants. Employing the tools of bioinformatics, we have characterized TCS signaling candidate genes in the genome of Oryza sativa L. ssp. japonica. We present a complete overview of TCS gene families in O. sativa including gene structures, conserved motifs, chromosome locations, and phylogeny. Our analysis indicates a total of 51 genes encoding 73 putative TCS proteins. Fourteen genes encode 22 putative histidine kinases (OsHKs) with a conserved His and other typical HK signature sequences, 5 phosphotransfer genes encoding 7 phosphotransfer proteins (OsHpts), and 32 response regulator genes encoding 44 proteins (OsRRs). The variations seen between gene and protein numbers are assumed to result from alternative splicing. These putative proteins have high homology with TCS members that have been shown experimentally to participate in several important physiological phenomena in plants such as ethylene and cytokinin signaling and phytochrome-mediated responses to light. We conclude that the overall architecture of the TCS machinery in O. sativa and A. thaliana is similar and our analysis provides insights into the conservation and divergence of this important signaling machinery in higher plants.




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