Genome-Wide Reprogramming of Primary and Secondary Metabolism, Protein Synthesis, Cellular Growth Processes, and the Regulatory Infrastructure of Arabidopsis in Response to Nitrogen1[w]
By W. Scheible, R. Morcuende, Tomasz Czechowski, C. Fritz, D. Osuna, N. Palacios-Rojas, Dana Schindelasch, O. Thimm, Michael K. Udvardi, Mark Stitt. Plant Physiology, 2004
1,034 citations recorded by the source corpus.
Transcriptome analysis, using Affymetrix ATH1 arrays and a real-time reverse transcription-PCR platform for >1,400 transcription factors, was performed to identify processes affected by long-term nitrogen-deprivation or short-term nitrate nutrition in Arabidopsis. Two days of nitrogen deprivation led to coordinate repression of the majority of the genes assigned to photosynthesis, chlorophyll synthesis, plastid protein synthesis, induction of many genes for secondary metabolism, and reprogramming of mitochondrial electron transport. Nitrate readdition led to rapid, widespread, and coordinated changes. Multiple genes for the uptake and reduction of nitrate, the generation of reducing equivalents, and organic acid skeletons were induced within 30 min, before primary metabolites changed significantly. By 3 h, most genes assigned to amino acid and nucleotide biosynthesis and scavenging were induced, while most genes assigned to amino acid and nucleotide breakdown were repressed. There was coordinate induction of many genes assigned to RNA synthesis and processing and most of the genes assigned to amino acid activation and protein synthesis. Although amino acids involved in central metabolism increased, minor amino acids decreased, providing independent evidence for the activation of protein synthesis. Specific genes encoding expansin and tonoplast intrinsic proteins were induced, indicating activation of cell expansion and growth in response to nitrate nutrition. There were rapid responses in the expression of many genes potentially involved in regulation, including genes for trehalose metabolism and hormone metabolism, protein kinases and phosphatases, receptor kinases, and transcription factors.
Subfields: Plant Science
View Paper: https://www.semanticscholar.org/paper/24e4dc5361056164c4473510a38383944756634e
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Citations in the corpus
- Effects of nitrogen deficiency on leaf photosynthesis, carbohydrate status and biomass production in two olive cultivars 'Meski' and 'Koroneiki' (2010, background): “N deficiency therefore affects, to various extents, primary photosynthesis, sugar metabolism and/or carbohydrate partitioning between source and sink tissues (Paul and Driscoll, 1997; de Groot et al., 2003; Scheible et al., 2004).”
- Sugars and Circadian Regulation Make Major Contributions to the Global Regulation of Diurnal Gene Expression in Arabidopsis[W][OA] (2005, methodology): “Two sets of nitrogen-responsive genes were identified from experiments in which 3 mM nitrate was provided to 9-d-old seedlings that had been depleted of nitrogen for 2 d (Scheible et al., 2004; see Supplemental Table 6 online for lists of the genes).”
- Physiological and Molecular Responses of Nitrogen-starved Rice Plants to Re-supply of Different Nitrogen Sources (2006, background): “Nitrate induces the expression of hundreds of genes that contain nitrate absorption and its assimilatory enzymes by microarray experiments, within hours of the treatment with nitrate in Arabidopsis roots (Wang et al. 2000, 2003, 2004; Scheible et al. 2004) and in tomato (Wang et al. 2001).”
- Metabolomics for functional genomics, systems biology, and biotechnology. (2010, methodology): “The effects of nitrogen starvation and readdition on gene expression and cellular metabolism were suggested by omics analysis in a similar way (79, 83, 171).”
- Extension of the Visualization Tool MapMan to Allow Statistical Analysis of Arrays, Display of Coresponding Genes, and Comparison with Known Responses1 (2005, background): “Changes of transcripts need to be combined with information about changes of proteins, enzyme activities, metabolites, and fluxes to allow their physiological significance to be evaluated (see e.g. Gibon et al., 2004; Scheible et al., 2004).”
- MicroRNA399 is a long-distance signal for the regulation of plant phosphate homeostasis (2008, methodology): “5 mM or no Pi (Scheible et al., 2004), and grown for another 3 weeks before harvesting of leaf and root material into liquid nitrogen.”
- Effect of nitrogen starvation on the phenolic metabolism and antioxidant properties of yarrow (Achillea collina Becker ex Rchb.) (2009, background): “As previously reported by Scheible et al. (2004), our results show that the photosynthetic apparatus and the primary metabolism in yarrow plants were severely limited by low nitrogen availability.”