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Cell Calcium. 2014 Mar;55(3):155-65. doi: 10.1016/j.ceca.2014.02.011. Epub 2014 Feb 22.

Whole genome transcriptome analysis of rice seedling reveals alterations in Ca(2+) ion signaling and homeostasis in response to Ca(2+) deficiency.

Author information

1
Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, Dhaula Kuan, New Delhi 110021, India. Electronic address: alkashankar06@gmail.com.
2
Nuclear Agriculture and Biotechnology Division, Bhabha Atomic Research Centre, Mumbai 400085, India. Electronic address: ashish@barc.gov.in.
3
Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, Dhaula Kuan, New Delhi 110021, India. Electronic address: akhilesh_du@yahoo.co.in.
4
Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, Dhaula Kuan, New Delhi 110021, India. Electronic address: mannsharma.pmb@gmail.com.
5
Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, Dhaula Kuan, New Delhi 110021, India. Electronic address: amitap04@gmail.com.
6
Radioanalytical Chemistry Division, Bhabha Atomic Research Centre, Mumbai 400085, India. Electronic address: vvraut@barc.gov.in.
7
Radioanalytical Chemistry Division, Bhabha Atomic Research Centre, Mumbai 400085, India. Electronic address: mkdas@barc.gov.in.
8
Nuclear Agriculture and Biotechnology Division, Bhabha Atomic Research Centre, Mumbai 400085, India. Electronic address: prasanna@barc.gov.in.
9
Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, Dhaula Kuan, New Delhi 110021, India. Electronic address: gkpandey@south.du.ac.in.

Abstract

Ca(2+) is an essential inorganic macronutrient, involved in regulating major physiological processes in plants. It has been well established as a second messenger and is predominantly stored in the cell wall, endoplasmic reticulum, mitochondria and vacuoles. In the cytosol, the concentration of this ion is maintained at nano-molar range. Upon requirement, Ca(2+) is released from intra-cellular as well as extracellular compartments such as organelles and cell wall. In this study, we report for the first time, a whole genome transcriptome response to short (5 D) and long (14 D) term Ca(2+) starvation and restoration in rice. Our results manifest that short and long term Ca(2+) starvation involves a very different response in gene expression with respect to both the number and function of genes involved. A larger number of genes were up- or down-regulated after 14 D (5588 genes) than after 5 D (798 genes) of Ca(2+) starvation. The functional classification of these genes indicated their connection with various metabolic pathways, ion transport, signal transduction, transcriptional regulation, and other processes related to growth and development. The results obtained here will enable to understand how changes in Ca(2+) concentration or availability are interpreted into adaptive responses in plants.

KEYWORDS:

Ca(2+) deficiency; Gene expression; Signal transduction; Starvation; Transcriptome analysis

PMID:
24814644
DOI:
10.1016/j.ceca.2014.02.011
[Indexed for MEDLINE]
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