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Developmental stage-dependent differential gene expression of superoxide dismutase isoenzymes and their localization and physical interaction network in rice (Oryza sativa L.)

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Abstract

Superoxide dismutase (SOD) isoenzymes are essential for scavenging excess reactive oxygen species in living organisms. So far, expression pattern of SOD isoenzymes genes along leaf development plus their sub-cellular localization and physical interaction network have not yet been clearly elucidated. Using multiple bioinformatics tools, we predicted the sub-cellular localizations of SOD isoforms and described their physical interactions in rice. Using in silico approaches, we obtained several evidences for existence of seven SOD genes and a SOD copper chaperone gene. Their transcripts were differentially expressed along with different developmental stage of rice leaf. Finally, we performed quantitative real time-polymerase chain reaction (qRT-PCR) to validate in silico differential expression pattern of SOD genes experimentally. Expression of two cytosolic cCuZn-SODs was high during the whole vegetative stage. Two plastidic Fe-SODs were found and their expression levels were very low and started to increase from the late vegetative stage. Their expression patterns were very similar to each other, indicating the formation of heterodimer. However, their expression patterns are different from those for Arabidopsis Fe-SODs. The expression of pCuZn-SOD was very high in the early developmental stage, but qRT-PCR results were different, which remains for further study. From the results on the differential expression of SOD genes, we can understand the role of each SOD gene and even predict their role under certain circumstances based on in silico analysis.

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Acknowledgments

This work was supported by a 2-year research grant from Pusan National University. The authors are grateful for the diligent and thorough critical reading of the manuscript by Dr. Saman Seneweera, a senior scientist in the Department of Plant Physiology and Biochemistry, University of Melbourne, Australia.

Conflict of interest

The authors declare no conflict of interest.

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Authors and Affiliations

  1. Department of New Biology, DGIST, Daegu, 711-873, Republic of Korea

    Krishna Nath & Rupak Timilsina

  2. Department of Molecular Biology, Pusan National University, Pusan, 609-735, Republic of Korea

    Krishna Nath, Roshan Sharma Poudyal, Young Nam Yang, Jayamati Nath & Choon-Hwan Lee

  3. Center for Plant Molecular Biology, CSIR-National Botanical Research Institute, Lucknow, 226001, India

    Susheel Kumar & Puneet Singh Chauhan

  4. Center for Core Research Facilities, DGIST, Daegu, 711-873, Republic of Korea

    Yu Shin Park

  5. Central Department of Botany, Tribhuvan University, Kathmandu, Nepal

    Bijaya Pant

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  1. Krishna Nath
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  2. Susheel Kumar
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  3. Roshan Sharma Poudyal
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  4. Young Nam Yang
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  5. Rupak Timilsina
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  7. Jayamati Nath
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  8. Puneet Singh Chauhan
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  9. Bijaya Pant
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  10. Choon-Hwan Lee
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Corresponding authors

Correspondence to Krishna Nath or Choon-Hwan Lee.

Additional information

Krishna Nath and Susheel Kumar have equally contributed to this work.

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Nath, K., Kumar, S., Poudyal, R.S. et al. Developmental stage-dependent differential gene expression of superoxide dismutase isoenzymes and their localization and physical interaction network in rice (Oryza sativa L.). Genes Genom 36, 45–55 (2014). https://doi.org/10.1007/s13258-013-0138-9

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  • DOI: https://doi.org/10.1007/s13258-013-0138-9

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