Insights into metabolism obtained from microarray analysis

Current Opinion in Plant Biology

Volumn 6, Issue 3, 2003, Pages 288-296

  Buckhout, Thomas J ^a   Thimm, Oliver ^b  

^a HUMBOLDT UNIVERSITY   (Germany)

^b MAX PLANCK INSTITUTE OF MOLECULAR PLANT PHYSIOLOGY   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ARABIDOPSIS; EMBRYOPHYTA;

EID: 0037795700     PISSN: 13695266     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1369-5266(03)00040-2     Document Type: Review

References (37)

1. Tranbarger T: Plant-arrays: publications. http://www.univ-montp2.fr/~plant_arrays/Plant-Arrays_Publications.html. The website contains a current list of publications describing work using DNA microarrays in plants. It is a valuable source of up-to-date information on all aspects of microarray analysis.
2. Muessig C, Fischer S, Altmann T: Brassinosteroid-regulated gene expression. Plant Physiol 2002, 129:1241-1251. Muessig et al. conducted a meticulous investigation of gene expression in brassinosteroid mutants and both in these mutants and in wildtype plants following brassinosteroid treatment. Their study excels both in its completeness and because they convincing demonstrate the quality of data that can be obtained from gene-specific oligonucleotide-based microarrays.
3. Thimm O, Essigmann B, Kloska S, Altmann T, Buckhout TJ: Response of Arabidopsis to iron deficiency stress as revealed by microarray analysis. Plant Physiol 2001, 127:1030-1043. The metabolic responses of plants to Fe deficiency have been described frequently. However, our knowledge of the regulation of gene expression in Fe-deficient plants is limited to information on a few genes that are involved directly in Fe reduction and transport. This study identifies a large number of genes, particularly genes that are involved in primary metabolism, whose expression changes in response to Fe deficiency.
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34. Klok EJ, Wilson IW, Wilson D, Chapman SC, Ewing RM, Somerville SC, Peacock WJ, Dolferus R, Dennis ES: Expression profile analysis of the low-oxygen response in Arabidopsis root cultures. Plant Cell 2002, 14:2481-2494. Together with the work described in [9••], this study is an exemplary illustration of how to identify genes that are similarly induced by developmental and environmental changes. Similarly regulated genes are grouped on the basis of their induction profiles. The presence and position of motifs in the 5′-untranslated regions of these gene clusters are identified, and a tentative scheme for the coordinate induction of biochemical pathways under hypoxia is proposed. An excellent publication.
35. Negishi T, Nakanishi H, Yazaki J, Kishimoto N, Fujii F, Shimbo K, Yamamoto K, Sakata K, Sasaki T, Kikuchi S et al.: cDNA microarray analysis of gene expression during Fe-deficiency stress in barley suggests that polar transport of vesicles is implicated in phytosiderophore secretion in Fe-deficient barley roots. Plant J 2002, 30:83-94.
36. Schmidt W, Tittel J, Schikora A: Role of hormones in the induction of iron deficiency responses in Arabidopsis roots. Plant Physiol 2000, 122:1109-1118.
37. Wang YH, Garvin DF, Kochian LV: Rapid induction of regulatory and transporter genes in response to phosphorus, potassium, and iron deficiencies in tomato roots. Evidence for cross talk and root/rhizosphere-mediated signals. Plant Physiol 2002, 130:1361-1370. This paper should be read in parallel with [3••]. Wang et al. investigated gene expression at time-points shortly after the removal of nutrients. Their attention was focused on genes that might be involved in early signal transduction processes. Genes previously not known to be associated with P, K and Fe nutrition, such as those encoding a transcription factor, mitogen-activated protein (MAP) kinase, MAP kinase kinase and 14-3-3 proteins were identified.