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Transcriptome response to phosphorus starvation in rice

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Abstract

Phosphorus (P) is an essential mineral nutrient required for the plant growth and development. Insufficient P supply triggers extensive physiological and biochemical changes in plants. In this study, we used Affymetrix GeneChip rice genome arrays to analyze the dynamics of rice transcriptome under P starvation. Phosphorus starvation induced or suppressed transcription of 2,317 genes, representing 7.2% of the genes. These changes, mostly transient, affected various cellular metabolic pathways including stress response, primary and secondary metabolism, molecular transport, regulatory process and organismal development. Hundred and thirty (5.6% of 2,317 genes) transcripts were expressed similarly both in root and shoot under P starvation. Comparative analysis between rice and Arabidopsis identified 37 orthologous groups that responded to P starvation demonstrating the existence of conserved P stress coupling mechanism among dicot and monocot plants. Additional analysis of transcription profiles of microRNAs revealed differential expression of miR399 and miR169 under P starvation suggesting their potential roles in plant nutrient homeostasis. Analysis of genome-wide gene expression profiles in P starvation in rice shoot and root, using Affymetrix Rice Genome Chip in this paper, has provided an overview of transcriptional responses to the P starvation condition. This will bring very valuable information and will make a great contribution for investigating the response of rice to P starvation.

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Acknowledgments

This work was supported by grants from the National Basic Research Program of China (2011CB100304), the National High Technology Research and Development Program of China (2010AA101802) and the National Natural Science Foundation of China (31000932).

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Authors and Affiliations

  1. National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, 430070, China

    Hongmei Cai, Weibo Xie & Xingming Lian

  2. Microelement Research Center, College of Resources and Environment, Huazhong Agricultural University, Wuhan, 430070, China

    Hongmei Cai

  3. Syngenta Biotechnology Inc, 3054 Cornwallis Road, Research Triangle Park, NC, 27709, USA

    Tong Zhu

Authors
  1. Hongmei Cai
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  2. Weibo Xie
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  3. Tong Zhu
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  4. Xingming Lian
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Corresponding author

Correspondence to Xingming Lian.

Additional information

Communicated by P. Sowinski.

Hongmei Cai and Weibo Xie contributed equally to the paper.

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Supplementary Fig. S1 Number of significantly changed transcripts between treatment (P starvation) and control (normal nutrient) at each time point (1 h, 24 h, 7d) in root and shoot materials detected from the microarray experiment. (A) The number of specific changed and overlapped transcripts between treatment (P starvation) and control (normal nutrient) in root at 1 h (PR1-CR1), 24 h (PR2-CR2) and 7d (PR3-CR3) after P starvation; (B) The number of specific changed and overlapped transcripts between treatment (P starvation) and control (normal nutrient) in shoot at 1 h (PS1-CS1), 24 h (PS2-CS2) and 7d (PS3-CS3) after P starvation; (C) The number of specific changed and overlapped transcripts in root (Root-P) and shoot (Shoot-P) during P starvation. Purple for upregulated genes and green for downregulated genes in A and B.

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Supplementary material 2 (DOC 59 kb)

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Cai, H., Xie, W., Zhu, T. et al. Transcriptome response to phosphorus starvation in rice. Acta Physiol Plant 34, 327–341 (2012). https://doi.org/10.1007/s11738-011-0832-7

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  • DOI: https://doi.org/10.1007/s11738-011-0832-7

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