Arabidopsis thaliana
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA139913 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:We analyzed global transcriptional changes in both shoots and roots of root-flooded Arabidopsis seedlings by microarrays. We also interpreted the significance of the systemic communication between roots and shoots by functional classification of affected genes. We performed genetic analysis with an ethylene signaling mutant, ein2-5, to correlate systemic flooding responses with ethylene signaling. We identified a class of genes that were up- or downregulated in shoots, but not affected in roots, under hypoxic conditions. A comprehensive managing program of carbohydrate metabolism was observed, providing an example of how systemic communications might facilitate the survival of plants under flooding. A proportion of long-distance hypoxic regulation was altered in ein2-5.
2011-10-21 | GSE28885 | GEO
Project description:We analyzed global transcriptional changes in both shoots and roots of root-flooded Arabidopsis seedlings by microarrays. We also interpreted the significance of the systemic communication between roots and shoots by functional classification of affected genes. We performed genetic analysis with an ethylene signaling mutant, ein2-5, to correlate systemic flooding responses with ethylene signaling. We identified a class of genes that were up- or downregulated in shoots, but not affected in roots, under hypoxic conditions. A comprehensive managing program of carbohydrate metabolism was observed, providing an example of how systemic communications might facilitate the survival of plants under flooding. A proportion of long-distance hypoxic regulation was altered in ein2-5. Time course experiments (0.5, 1, 3, 6, and 12h for Columbia; 0.5, 3, and 6h for ein2-5). Tissues from root-flooded seedlings vs. Tissues from un-flooded seedlings. Biological replicates: 4 replicates for each time point, independently grown, treated, and harvested. One replicate per array. 2 of 4 replicates are dye-swapped.
2011-10-20 | E-GEOD-28885 | biostudies-arrayexpress
Project description:It is the study to investigate the growth and transcriptome of Arabidopsis thaliana exposed to submergence or flooding with physical flow.
2024-12-13 | GSE268967 | GEO
Project description:Systemic Regulation of Iron Acquisition in Arabidopsis Under Heterogeneous Iron Distribution
| PRJDB9611 | ENA
Project description:Inter-organellar communication has emerged as a critical factor in maintaining cellular homeostasis under stress conditions. Chloroplasts function not only as central organelles for energy production but are also increasingly recognized as stress sensors and signal integrators. SIGMA FACTOR-BINDING PROTEIN 1 (SIB1), encoded by a nuclear gene, has been identified as a positive regulator of plant immunity, with localization in both chloroplasts and the nucleus. In this study, we identified Arabidopsis SEC23A, a COPII complex component known to mediate membrane trafficking between the endoplasmic reticulum (ER) and the Golgi apparatus, as a novel interactor of SIB1. Our findings reveal that under normal conditions, both SIB1 and SEC23A localize to the ER, while SIB1 is also localized in the nucleus. Upon ER stress and/or treatment with the immunity inducer salicylate, both proteins are relocated from the ER to the chloroplasts. Notably, SEC23A, similar to SIB1, also functions as a positive regulator of disease resistance. In response to pathogen infection, SIB1 and SEC23A downregulate expression of chloroplast- and nucleus-encoded genes associated with photosynthesis while enhancing expression of defense-related genes. Together, our findings reveal a previously uncharacterized pathway of ER–chloroplast communication mediated by SIB1 and SEC23A during plant stress responses and immunity, providing novel insights into the intricate regulatory networks that govern inter-organellar communication under stress in plants.
2026-04-13 | GSE300417 | GEO
Project description:Involvement of microRNA-related regulatory pathways in glucose-mediated control of Arabidopsis early seedling development
| PRJNA186682 | ENA
Project description:Plant volatiles can mediate plant-plant communication in the sense that plants attacked by herbivores can signal their unattacked neighbors of danger by emitting HIPVs. We call this the priming effect. Since the plant defense response is a systematic process involving numerous pathways and genes,to characterize the priming process, a time course study using a genome-wide microarray may provide more accurate information about the priming process. Furthermore, to what extent do the priming process and direct defense share similar gene expression profiles or pathways are also not clear. We used microarray to detect the priming effect of plant volatiles to healthy Arabidopsis thaliana, and the effect of direct leafminer feeding to Arabidopsis thalianas.
2013-09-24 | GSE33505 | GEO
Project description:Survival of plants depends on their ability to adapt to ever-changing environmental conditions. Chloroplasts sense different stimuli and respond to ion fluxes in the cytosol triggering systemic responses under stress conditions. Indeed, changes in calcium and magnesium ion concentration in the chloroplast stroma impact the immune response against pathogens and adapt the photosynthetic machinery under fluctuating light conditions. Here we investigated the link between di-valent cations, calcium, magnesium and manganese and the protein kinase activity in Arabidopsis chloroplasts. Our results show that overall, manganese ions are the strongest activator of kinase activity in chloroplasts followed by magnesium ions, whereas calcium ions have seemingly no effect. Additionally, when comparing the phosphorylation pattern from Arabidopsis wild type and a cmt1 mutant, which is defective in manganese import into chloroplasts, the phosphorylation of specific protein bands is strongly reduced in the mutant chloroplasts supporting the notion that chloroplasts contain manganese-dependent protein kinases. These findings provide insights for the future characterization of chloroplast protein kinases activity regarding in-vitro assays and potential target proteins.
2023-03-11 | PXD037286 | Pride
Project description:This study aims to investigate the transcriptomic differences between wild-type Arabidopsis thaliana Col-0 and the odr1-2 mutant in two experimental groups: imbibed seeds (under normal hydration conditions) and seeds subjected to 12-hour mannitol treatment (a common osmotic stress mimic).Using RNA sequencing to compare global gene expression profiles, we seek to identify differentially expressed genes (DEGs) associated with osmotic stress responses, seed imbibition, and the potential regulatory role of the ODR1 gene. Our analysis will clarify how the ODR1 mutation alters transcriptional dynamics under both normal and osmotic stress conditions, thereby providing insights into the molecular mechanisms underlying stress tolerance and seed physiology in Arabidopsis.
2025-09-30 | GSE306047 | GEO
Project description:Transcriptome Analysis of Wounding-Induced Root to Shoot Communication in Arabidopsis thaliana.
| PRJNA136901 | ENA