Expression profiles of 10,422 genes at early stage of low nitrogen stress in rice assayed using a cDNA microarray

Xingming Lian, Shiping Wang, Jianwei - Zhang, Qi Feng, Lida Zhang, Danlin Fan, Xianghua Li, Dejun Yuan, Bin Han, Qifa Zhang

Research output: Contribution to journalArticle

121 Citations (Scopus)

Abstract

Development of crop varieties with high nitrogen use efficiency (NUE) is imperative for sustainable agriculture. Understanding how plant genes respond to low N stress is essential for formulating approaches to manipulating genes for improving NUE. In this study we analyzed the expression profiles of an indica rice cultivar Minghui 63 at seedling stage at 20 min, 1 and 2 h after low N stress with the normal N as the control, using a microarray of 11,494 rice ESTs representing 10,422 unique genes. While no significant difference was detected in the leaf tissue, a total of 471 ESTs were detected as responsive to low N stress in the root tissue with 115 ESTs showing up-regulation and 358 ESTs showing down-regulation. The analysis of expression profiles after low N stress identified following patterns: (1) the genes involved in photosynthesis and energy metabolism were down-regulated rapidly; (2) many of the genes involved in early responses to biotic and abiotic stresses were up-regulated while many other stress responsive genes were down-regulated; (3) regulatory genes including transcription factors and ones involved in signal transduction were both up- and down-regulated; and (4) the genes known to be involved in N uptake and assimilation showed little response to the low N stress. The challenges for future studies are to characterize the functional roles of the low N stress responsive genes in N metabolisms, including the large number of genes presently with unknown functions.

Original languageEnglish (US)
Pages (from-to)617-631
Number of pages15
JournalPlant Molecular Biology
Volume60
Issue number5
DOIs
StatePublished - Mar 2006
Externally publishedYes

Fingerprint

Microarrays
Oligonucleotide Array Sequence Analysis
Nitrogen
Complementary DNA
Genes
rice
Expressed Sequence Tags
nitrogen
genes
nutrient use efficiency
Plant Genes
Oryza
Tissue
Photosynthesis
Regulator Genes
Agriculture
Signal transduction
Seedlings
cultivars
sustainable agriculture

Keywords

  • cDNA chip
  • ESTs
  • Nitrogen use efficiency (NUE)
  • Oryza sativa L.

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Biochemistry

Cite this

Expression profiles of 10,422 genes at early stage of low nitrogen stress in rice assayed using a cDNA microarray. / Lian, Xingming; Wang, Shiping; Zhang, Jianwei -; Feng, Qi; Zhang, Lida; Fan, Danlin; Li, Xianghua; Yuan, Dejun; Han, Bin; Zhang, Qifa.

In: Plant Molecular Biology, Vol. 60, No. 5, 03.2006, p. 617-631.

Research output: Contribution to journalArticle

Lian, Xingming ; Wang, Shiping ; Zhang, Jianwei - ; Feng, Qi ; Zhang, Lida ; Fan, Danlin ; Li, Xianghua ; Yuan, Dejun ; Han, Bin ; Zhang, Qifa. / Expression profiles of 10,422 genes at early stage of low nitrogen stress in rice assayed using a cDNA microarray. In: Plant Molecular Biology. 2006 ; Vol. 60, No. 5. pp. 617-631.
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