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Identification of ESTs differentially expressed in green and albino mutant bamboo (Bambusa edulis) by suppressive subtractive hybridization (SSH) and microarray analysis

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Abstract

To gain a better understanding of gene expression in bamboo (Bambusa edulis Murno), we have used a combination of suppressive subtractive hybridization (SSH), microarray hybridization analysis, sequencing, and bioinformatics to identify bamboo genes differentially expressed in a bamboo albino mutant. Ten expressed sequence tags (ESTs) were found to be differentially expressed; these were isolated and sequenced. RT-PCR analysis of these ESTs supported the results of the microarray analysis. Six ESTs that were nucleus-encoded exhibited differential expression patterns in the green wild-type bamboo relative to the albino mutant. These genes (exception being the Rubisco small subunit) were non-photosynthesis-related genes. The development of a specific SSH cDNA library in which most of the chloroplast-encoded or photosynthesis-related genes had been subtracted proved to be useful for studying the function of non-photosynthesis-related genes in the albino bamboo mutants with aberrant chloroplast genome. The combined use of this SSH library with microarray analysis will provide a powerful analytical tool for future studies of the bamboo genome.

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Authors and Affiliations

  1. Department of Biotechnology, China Institute of Technology, Taipei, Taiwan, Republic of China

    Choun-Sea Lin & Nien-Tzu Liu

  2. Institute of Biomedical Sciences, National Chung Hsing University, Taichung, Taiwan, Republic of China

    Yi-Hwa Lai

  3. Department of Life Sciences, National Taiwan Normal University, Taipei, Taiwan, Republic of China

    Chih-Wen Sun

  4. Graduate Institute of Biotechnology, ChaoYang University of Technology, Wufong, Taichung, Taiwan, Republic of China

    Hsing-Shen Tsay

  5. Institute of Botany, Academia Sinica, Taipei, Taiwan, Republic of China

    Wei-Chin Chang

  6. Institute of Biomedical Sciences, National Chung Hsing University, Taichung, Taiwan, Republic of China

    Jeremy J. W. Chen

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  1. Choun-Sea Lin
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  2. Yi-Hwa Lai
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  3. Chih-Wen Sun
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  4. Nien-Tzu Liu
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  5. Hsing-Shen Tsay
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  6. Wei-Chin Chang
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  7. Jeremy J. W. Chen
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Correspondence to Choun-Sea Lin.

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Lin, CS., Lai, YH., Sun, CW. et al. Identification of ESTs differentially expressed in green and albino mutant bamboo (Bambusa edulis) by suppressive subtractive hybridization (SSH) and microarray analysis. Plant Cell Tiss Organ Cult 86, 169–175 (2006). https://doi.org/10.1007/s11240-006-9105-3

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  • DOI: https://doi.org/10.1007/s11240-006-9105-3

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