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Differentially expressed genes in response to gamma-irradiation during the vegetative stage in Arabidopsis thaliana

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Abstract

Biochemical and physiological processes in plants are affected by gamma-irradiation, which causes significant changes in gene transcripts and expression. To identify the differentially expressed Arabidopsis genes in response to gamma-irradiation, we performed a microarray analysis with rosette leaves during the vegetative stage. Arabidopsis plants were exposed to a wide spectrum doses of gamma ray (100, 200, 300, 400, 800, 1200, 1600 or 2000 Gy) for 24 h. At the dose range from 100 to 400 Gy, irradiated plants were found to be shorter than controls after 8 days of irradiation, while doses over 800 Gy caused severe growth retardation. Therefore, 100 and 800 Gy were selected as adequate doses for microarray analysis to identify differentially expressed genes. Among the 20,993 genes used as microarray probes, a total number of 496 and 1,042 genes were up-regulated and down-regulated by gamma-irradiation, respectively (P < 0.05). We identified the characteristics of the genes that were up-and down-regulated fourfold higher genes by gamma irradiation according to The arabidopsis information resource gene ontology. To confirm the microarray results, we performed a northern blot and quantitative real-time PCR with several selected genes that had a large difference in expression after irradiation. In particular, genes associated with lipid transfer proteins, histones and transposons were down-regulated by 100 and/or 800 Gy of gamma irradiation. The expression patterns of selected genes were generally in agreement with the microarray results, although there were quantitative differences in the expression levels.

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Abbreviations

TAIR:

The Arabidopsis Information Resource

GO:

Gene Ontology

qRT-PCR:

Quantitative real-time PCR

ROS:

Reactive oxygen species

SSB:

Single-strand breakage

DSB:

Double-strand breakage

AP:

Apurinic/apyrimidinic

DAS:

Days after seeding

DAI:

Days after irradiation

LTP:

Lipid transfer protein

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Acknowledgments

This work was supported by grants from the Korea Science and Engineering foundation (KOSEF) in the Ministry of Science, ICT and Future Planning (MSIP) and the Korea Atomic Energy Research Institute (KAERI).

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Authors and Affiliations

  1. Advanced Radiation Technology Institute, Korea Atomic Energy Research Institute, 29 Geumgu, Jeongeup, Jeonbuk, 580-185, Republic of Korea

    Jin-Baek Kim, Sang Hoon Kim, Bo-Keun Ha, Si-Yong Kang & Dong Sub Kim

  2. Department of Applied Plant Sciences Technology, Kangwon National University, Chuncheon, 200-701, Republic of Korea

    Cheol Seong Jang

  3. Division of Biotechnology, Korea University, Anam-dong, Seongbuk-gu, Seoul, 136-713, Republic of Korea

    Jin-Baek Kim & Yong Weon Seo

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  1. Jin-Baek Kim
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  2. Sang Hoon Kim
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Correspondence to Yong Weon Seo or Dong Sub Kim.

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Yong Weon Seo and Dong Sub Kim contributed equally to this study.

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Kim, JB., Kim, S.H., Ha, BK. et al. Differentially expressed genes in response to gamma-irradiation during the vegetative stage in Arabidopsis thaliana . Mol Biol Rep 41, 2229–2241 (2014). https://doi.org/10.1007/s11033-014-3074-0

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