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SYSTEMS BIOLOGY, MOLECULAR BIOLOGY, AND GENE REGULATION

cis-Element- and Transcriptome-Based Screening of Root Hair-Specific Genes and Their Functional Characterization in Arabidopsis^{1,[C],[W],[OA]}

School of Biological Sciences, College of Natural Sciences, Seoul National University, Seoul 151–742, Korea (S.-K.W., Y.-J.L., H.-Y.L., Y.-K.H., M.C., H.-T.C.); and Environmental Biotechnology National Core Research Center, Gyeongsang National University, Jinju 660–701, Korea (H.-T.C.)

Understanding the cellular differentiation of multicellular organisms requires the characterization of genes whose expression is modulated in a cell type-specific manner. The Arabidopsis (Arabidopsis thaliana) root hair cell is one model for studying cellular differentiation. In this study, root hair cell-specific genes were screened by a series of in silico and experimental filtration procedures. This process included genome-wide screening for genes with a root hair-specific cis-element in their promoters, filtering root-specific genes from the root hair-specific cis-element-containing genes, further filtering of genes that were suppressed in root hair-defective plant lines, and experimental confirmation by promoter assay. These procedures revealed 19 root hair-specific genes, including many protein kinases and cell wall-related genes, most of which have not been characterized thus far. Functional analyses of these root hair-specific genes with loss-of-function mutants and overexpressing transformants revealed that they play roles in hair growth and morphogenesis. This study demonstrates that a defined cis-element can serve as a filter to screen certain cell type-specific genes and implicates many new root hair-specific genes in root hair development.

The author responsible for distribution of materials integral to the findings presented in this article in accordance with the policy described in the Instructions for Authors (www.plantphysiol.org) is: Hyung-Taeg Cho (htcho{at}snu.ac.kr).

^[C] Some figures in this article are displayed in color online but in black and white in the print edition.

^[W] The online version of this article contains Web-only data.

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www.plantphysiol.org/cgi/doi/10.1104/pp.109.140905

^* Corresponding author; e-mail htcho{at}snu.ac.kr.

Received May 4, 2009; accepted May 11, 2009; published May 15, 2009.

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