Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Expression data in an Arabidopsis cytokinin-deficient mutant, ipt1,3,5,7 and its wild type plant (Col-0) under high salinity and control conditions.

ABSTRACT: To understand the role of cytokinins (CKs) in salt stress response, we have employed transcriptional profiling of the CK-deficient mutant, ipt1,3,5,7 and wild type plant, Col-0 under high salinity and control conditions to identify genes differentially expressed in ipt1,3,5,7 under salt stress and control conditions. Agilent's Whole Arabidopsis Gene Expression Microarray (G2519F, V4, 4x44K) was used. 10-d-old plants grown on GM medium (22ºC, 16-h-light/8-h-dark) were transfered onto 1/2 MS agar plates without sucrose containing either 0 or 200 mM NaCl. Independent biological samples, 10 plants/each biological replicate, were collected after 24 hours. Total RNA was prepared and used for the microarray hybridization. Three replicative hybridization experiments were carried out for each independent biological sample.

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Rie Nishiyama

PROVIDER: E-GEOD-32087 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Project description:Arabidopsis ecotypes of Sha and Ler showed differences in tolerance to salinity stress. A previous study indicated that a premature stop codon resulting in a truncated Response to ABA and Salt 1 (RAS1) protein in Sha contributes to the increased salt tolerance relative to Ler ecotype. Sha exhibited higher germination rates and longer roots on MS plate, presumably due to the decreased ABA sensitivity in Sha. More Sha plants also survived in soil after salt treatment with relatively lower electrolyte leakage when compared to Ler. Transcriptome analysis revealed that expression levels of many genes were changed between Sha and Ler ecotypes and by salt treatments. About 500 transcripts were commonly changed by at least one salinity effect and one ecotype effect, and 171 of them were co-regulated by all four comparisons. Transcripts involved in redox, secondary metabolism, auxin metabolism, photosynthesis, cell wall, and protein synthesis were mainly down-regulated by salinity effects, while transposable element genes, microRNA and antisense sequences, histone superfamily genes, and biotic stress related genes were significantly changed by Sha ecotype effects and only slightly by salinity. Several metabolic pathways such as stress, TCA, hormone/lipid/secondary metabolism, redox, development, and GO terms involved in stress, oxidation, and defense response were enriched by both salinity and ecotype effects. Ninety-five highly inducible genes were identified as candidates of RAS1 target genes and the functions involved hormone metabolism, biotic stress, RNA, DNA synthesis, protein metabolism, cell, and microRNA metabolism. All these results indicated that the Sha ecotype was possibly preconditioned to abiotic stress relative to Ler through regulation of signaling pathways and stress responsive gene expression. These comparative transcriptomic and analytical results also confirm the complexity of ABA responses and salt stress tolerance mechanisms, and they suggest additional targets for improving tolerance. Ten days old seedlings of two Arabidopsis ecotypes, Sha and Ler, were treated with 100 mM NaCl on MS plate. Plant materials were collected for RNA extraction at 4th days after treatments.

Dataset Information

Expression data in an Arabidopsis cytokinin-deficient mutant, ipt1,3,5,7 and its wild type plant (Col-0) under high salinity and control conditions.

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