Arabidopsis thaliana
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PROVIDER: PRJNA290646 | ENA |
REPOSITORIES: ENA
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Project description:Comparison of low water potential (drought)-regulated gene expression in wild type (Col-0) and the hai1-2 (At5g59220) mutant
| PRJNA152829 | ENA
Project description:Comparison of low water potential (drought)-regulated gene expression in wild type (Col-0) and the hai1-2 (At5g59220) mutant
2015-06-01 | E-GEOD-35258 | ExpressionAtlas
Project description:Transcriptional profiling of rossette leaves comparing wild type (Col-0) and the mutant (hsi2-5) under no drought or simulated drought stress.
2014-01-24 | GSE39347 | GEO
Project description:I-Traq based quantitative phosphoproteomics was used to examine changes in phosphopeptide abundance over longer term drought (low water potential) treatments. Samples were analyzed from unstressed seedlings grown on agar plates and from seedlings of the same age that had been transferred to low water potential (-1.2 MPa) for 96 h on PEG-infused agar plates. The genotypes analyzed were wild type Col-0 and two phosphatases mutants. One was a double mutant of two Clade E protein phosphatase 2Cs (Salk_011589 which lacks activity of AT3G05640 and Salk_048861 which lacks activity of AT5G27930). The other was a mutant (hai1-2) of the Clade A protein phosphatase 2C Highly ABA-Induced 1 (HAI1): Salk_108282 which lacks activity of AT5G59220). Our characterization of hai1-2 as well as detailed description of growth conditions and stress treatments has been reported in Bhaskara et al. (Plant Physiology 160:379-395, 2012). Characterization of the Clade E protein phosphatase 2Cs have not been previously reported and we have designated these as Clade E Growth Regulating PP2Cs (EGRs) based on characterization in our laboratory. The double mutant used for phosphoproteomic analysis has been designated egr1-1egr2-1. Three biological replicates were performed and microarray analysis of gene expression was performed on samples collected from the same experiments. The gene expression data sets have been deposited in Gene Expression Onmibus (GEO) under accession numbers GSE35258 (hai1-2 data) and GSE71237 (egr1-1egr2-1 data).
2017-01-17 | PXD004869 | Pride
Project description:Two Clade E Growth Regulating PP2Cs EGR1 and EGR2 (EGR1, At3g05640; EGR2, At5g27930) are strongly up regulated by low water but much less affected by ABA. EGR mutants maintained higher seedling root elongation and dry weight at low water potential and higher levels of stress protective metabolite proline. Phosphoproteomics of egr1egr2 double mutant showed an increased phosphopeptide abundance of several cytoskeleton and plasma membrane-associated proteins, and consistent to this, egr mutants had more extensive microtubules recovery during low water potential acclimation. Microarray experiments were used to identify genes differentially expressed in egr1-1egr1-2 (SALK_011589/salk_048861) versus wild type under both unstress control conditions and after low water potential (ie: drought, water deficit). A relatively long term (96 h) low water potential treatment was used as phenotypes of egr1-1egr2-1 were most apparent after this longer term low water potential treatment.
2015-10-08 | GSE71237 | GEO
Project description:Purpose: In this study we investigated the role of JASMONATE RESISTANT 1 (JAR1) and JAR1 mediated JA-Ile formation in drought stress tolerance in Arabidopsis thaliana. Methods: Global transcriptional changes in a newly generated over-expression line (JAR1-OE; 35S::JAR1-1-YFP)), a T-DNA insertion line in the JAR1 locus (jar1-11;SALK_034543), and wild-type Col-0 were investigated by RNA-seq analyses of rosette leaves from 32 day-old plant that were either well-watered (control) or not watered after day 18 (drought). Plants were grown on soil under long-day conditions Results: Under control conditions, using a stringent cut-off (DESeq, adjusted to FDR < 0.01 and LogFC ≥ 1), we found only four differentially expressed genes (DEGs) between jar1-11 and Col-0, all of them downregulated. By contrast, we found 339 DEGs between JAR1-OE and Col-0, of which 134 were downregulated and 205 were upregulated. A comparison of the RNA-seq data from Col-0 between control and drought conditions revealed 3401 DEGs, of which 2023 were down- and 1378 upregulated. By comparison, jar1-11 plants, which were most heavily affected by drought stress, showed a much higher number (6139 in total; 2616 up- and 3523 down-regulated) of DEGs, while the more drought-tolerant JAR1-OE line displayed a lower number (2025 in total; 971 up- and 1054 down-regulated) of DEGs. 2411 DEGs were found between Col-0 and jar1-11 under drought among which 966 genes showed a higher and 1445 genes a lower expression level in jar1-11. On the other hand, out of 998 DEGs found between Col-0 and JAR1-OE under drought, 737 genes showed a higher and 261 genes a lower expression level in JAR1-OE. Moreover, we found 391 DEGs counter-regulated between jar1-11 and JAR1-OE. Conclusion:RNA-seq analysis and additional experiments of plants under control and drought stress conditions provided insight into the molecular reprogramming caused by the alteration in JA-Ile content.
2022-07-25 | GSE196602 | GEO
Project description:ra07-02_aba2 - maternal/embryonic aba-1 - Identification of genes regulated by maternal and embryonic ABA - Comparison of expression in seeds (15 days after pollination) of aba2-2 mutant to wild type (Col-0), aba2 (female) x Col-0 (male) crossing, and aba2-2 sprayed with ABA (100 micro M, twice a week). Keywords: gene knock out,treated vs untreated comparison
2008-05-29 | GSE10674 | GEO
Project description:Transcriptional profiling of rossette leaves comparing wild type (Col-0) and the mutant (hsi2-5) under no drought or simulated drought stress. Two-condition experiment; wild type (col-0) vs. mutant (hsi2-5). Three stages of drought; no drought (or stage 0), mild drought or soil drying but no visible wiliting (or stage 1), visible wilting (stage 2). At stage 0, four biological replicates of the wild type/mutant co-hybridized, at stage 1 and stage 2, three biological replicates of the wild type/mutant co-hybridized.
2014-01-24 | E-GEOD-39347 | biostudies-arrayexpress
Project description:<p>Drought is one of the most severe abiotic stresses. However, there is a lack of genetic evidence regarding whether and how plants coordinate the dynamic assembly of the microbiome in response to drought. Through the use of mutants with enhanced or reduced root hair densities (rsl2 rsl4, hairless mutant; Col-0, wild type; gl2, hairy mutant), we discovered that regulators of root hair development also influence changes in the root microbiome under drought conditions. The abundance of Rhizobiaceae, a specific group of microorganisms, was significantly affected by mutations related to root hair development. Since mutations in root hair-related genes can affect transportation and metabolic functions in the root microbiome, we performed non-targeted metabolomics analysis to investigate potential metabolic cues associated with changes in the root microbiome during drought. Our results revealed significant differences in the composition of root metabolites among these genotypes. The overall abundance of amino acids, flavonoids and indoles or their derivatives gradually increased from the rsl2 rsl4 mutant to the gl2 mutant. Subsequently, we identified differentially abundant metabolites (DMs) based on their variable importance in projection scores (VIP > 1.0) and fold changes (log2FC > 0) in relative abundances. Enrichment analysis was further conducted based on these DMs in the rsl2 rsl4 and gl2 mutants. Consistent with the increased content of flavonoids, the DMs in the roots of the gl2 mutant were enriched in metabolites associated with flavonoid biosynthesis. Flavonoids are well-known for their ability to induce the expression of rhizobia nodulation genes and the attraction of rhizobia towards the roots. In our study, several flavonoid molecules, including tangeretin, glyceollin, quercetin and gallocatechin, were found to be enriched in the roots of the gl2 mutant compared to those of the Col-0 wild type. We will further investigate whether there is a specific association between specific metabolites and microorganisms in the Rhizobiaceae family.</p>
2024-10-28 | MTBLS11360 | MetaboLights
Project description:Untargeted proteomic analysis was conducted to analyze the effect of longer term (4 days) low water potential (drought) stress treatment on proteome content of Arabidospsis thaliana Col-0 wild type and four sets of mutants or transgenic lines. A mutant (nrl5-2) with reduced expression of the NPH3-domain protein NRL5 has an extreme stress sensitive phenotype. A quadruple mutant of four aspartic proteases (aprd4) also has stress sensitive phenotype and possible effect on drought signaling. Transgenic plants having overexpression of one of these proteases were also analyzed. Note that another transgnenic line that was analyzed (NRL5_OX) was later found to have been mis-genotyped and this data is not being used for further analysis in our laboratory.
2024-02-24 | PXD040396 | JPOST Repository