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KMID : 0368420160590060579
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Journal of Plant Biology
2016 Volume.59 No. 6 p.579 ~ p.593
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Analysis of representative organ-specific genes and promoters of rice using a 3’ ORF-oriented long oligomer microarray
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Chae Song-Hwa
Kim Joung-Sug
Jun Kyong-Mi
Pahk Yoon-Mok
Kim Min-Jeong
Lee Sang-Bok
Park Hyang-Mi
Lee Tae-Ho
Nahm Baek-Hie
Kim Yeon-Ki
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Abstract
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Organ-specific transcription factors and promoters are likely to be useful for testing the effects of changes in expression of regulatory genes related to agronomical traits in rice. Here, we analyze the transcriptome of 7 tissues or organs of Oryza sativa L. cv. Dongjin, callus, regenerating callus, germinating seed, leaf, root, and flower (before and after pollination), using a rice 3′ ORF tilling microarray. The ratio of standard deviation to the mean of microarray intensities was used to distinguish between organ-specific and constitutively expressed genes. Accordingly, genes are classified into highly variable, variable, and constitutive groups. To isolate organ-specific promoters, several genes were selected and validated in planta using reporter gene analysis. We found that the Os01g0702500, Os11g0211800, and Os01g0257300 promoters to be active in calli, germinating seeds, and roots, respectively. The Os08g0546300 promoter was able to drive transgene expression in various organs of mature flowers, such as the anther, lemma, and palea, whereas the Os03g0369100 promoter was only active in the anther. Lastly, the Os09g0553100 promoter induced high levels of reporter gene expression in all organs. These gene expression data from representative organs could provide a framework for large dataset collections and subsequent profiling via organ/tissue subdivision might be more efficient for identifying appropriate promoters.
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KEYWORD
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Coefficient of variation, GUS staining, Microarray, Organ/tissue specificity, Rice, RT-PCR
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