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Comparison of early transcriptome responses to copper and cadmium in rice roots

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Abstract

The phytotoxic effects of copper (Cu) and cadmium (Cd) on plant growth are well documented. However, Cu and Cd toxicity targets and the cellular systems contributing to acquisition of tolerance are not fully understood at the molecular level. We aimed to identify genes and pathways that discriminate the actions of Cu and Cd in rice roots (Oryza sativa L. cv. TN67). The transcripts of 1,450 and 1,172 genes were regulated after Cu and Cd treatments, respectively. We identified 882 genes specifically respond to Cu treatment, and 604 unique genes as Cd-responsive by comparison of expression profiles of these two regulated gene groups. Gene ontology analysis for 538 genes involved in primary metabolism, oxidation reduction and response to stimulus was changed in response to both metals. In the individual aspect, Cu specifically altered levels of genes involved in vesicle trafficking transport, fatty acid metabolism and cellular component biogenesis. Cd-regulated genes related to unfolded protein binding and sulfate assimilation. To further characterize the functions of vesicle trafficking transport under Cu stress, interference of excytosis in root tissues was conducted by inhibitors and silencing of Exo70 genes. It was demonstrated that vesicle-trafficking is required for mediation of Cu-induced reactive oxygen species (ROS) production in root tissues. These results may provide new insights into understanding the molecular basis of the early metal stress response in plants.

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Abbreviations

VIGS:

Virus-induced gene silencing

TRV:

Tobacco rattle virus

ROS:

Reactive oxygen species

DAB:

3,3′-Diamninobenzidine

NBT:

Nitroblue tetrazolium

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Acknowledgments

This work was supported by research grants from the National Science Council (NSC 98-2621-B-006-003-MY3) and a grant from the Ministry of Education, Taiwan (Landmark Project Grant for National Cheng Kung University’s Top-University Project, B024). Agilent DNA microarray assays were performed by the DNA Microarray Core Laboratory at the Institute of Plant and Microbial Biology, Academia Sinica. Expression profile and data mining involved the system provided by the Bioinformatics Core for Genomic Medicine and Biotechnology Development at National Cheng Kung University, supported by a National Science Council grant (NSC 97-3112-B-006 -011).

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Authors and Affiliations

  1. Department of Life Sciences, National Cheng Kung University, No.1 University Road 701, Tainan, Taiwan

    Chung-Yi Lin, Ngoc Nam Trinh, Yu-Chyuan Hsiung, Li-Chiao Chia, Chung-Wen Lin & Hao-Jen Huang

  2. Department of Biology, National Chunghua University of Education, No.1, Jin-De Road, 500, Changhua, Taiwan

    Shih-Feng Fu

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  1. Chung-Yi Lin
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  2. Ngoc Nam Trinh
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Correspondence to Hao-Jen Huang.

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Chung-Yi Lin and Ngoc Nam Trinh contributed equally to this work.

The microarray data described in this study have been deposited in the Gene Expression Omnibus under the accession number (GSE: 34895).

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Lin, CY., Trinh, N.N., Fu, SF. et al. Comparison of early transcriptome responses to copper and cadmium in rice roots. Plant Mol Biol 81, 507–522 (2013). https://doi.org/10.1007/s11103-013-0020-9

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