E-GEOD-108730
Ontology highlight
ABSTRACT:
PROVIDER: E-GEOD-108730 | ExpressionAtlas | 2020-04-15
REPOSITORIES: ExpressionAtlas
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| E-GEOD-108730-analysis-methods.tsv | Tabular | |||
| E-GEOD-108730-analytics.tsv | Tabular | |||
| E-GEOD-108730-atlasExperimentSummary.Rdata | Rdata | |||
| E-GEOD-108730-configuration.xml | Xml | |||
| E-GEOD-108730-g2_g1-mvaPlot.png | Other |
Items per page: 5 1 - 5 of 20 |
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Project description:Root Meristem Growth Factor 1 (RGF1) controls root meristem size through reactive oxygen species (ROS) signaling
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Project description:The root meristem size and activity are maintained by the distributions of two reactive oxygen species (ROS) along root developmental zones and the gradient concentrations of a master regulator, PLETHORA 2 (PLT2). The ROOT MERISTEM GROWTH FACTOR 1 (RGF1) peptide modulates these two ROS distributions. The alterations of the ROS distribution by RGF1 result in the extended localizations of PLT2 and the enlarged root meristem. Therefore, deciphering the regulation mechanism of how ROS modulates the PLT2 protein stability is critical to study the root stem cell function.
2025-07-09 | GSE244175 | GEO
Project description:The balance between cell proliferation, differentiation and elongation rates emerges from gene regulatory networks coupled to various signal transduction pathways, including reactive oxygen species (ROS) and transcription factors, to respond to environmental cues. The Arabidopsis thaliana primary root has become a valuable system to unravel such networks and the role of transcription factors mediating the inhibition of primary root growth by ROS is just beginning to be studied. In this study, we demonstrate that the MADS-box transcription factor XAANTAL1 (XAL1) mediates the role of hydrogen peroxide (H2O2) in primary root growth and root stem cell niche identity. Interestingly, our findings suggest that XAL1 acts as a positive regulator of H2O2 concentration in the root meristem by directly regulating genes involved in oxidative stress response, such as PEROXIDASE 28 (PER28). Moreover, we found that XAL1 is necessary for the H2O2-induced inhibition of primary root growth through the negative regulation of peroxidase and catalase activities. Furthermore, we found that XAL1 together with RETINOBLASTOMA-RELATED (RBR), is also necessary to positively regulate the differentiation of columella stem cells triggered by a moderate oxidative stress induced by H2O2 treatment.
2024-07-20 | GSE262756 | GEO
Project description:As a signal molecular in aerobic organism, how reactive oxygen species (ROS) regulates normal life is a fundamental biological question. Locally accumulated ROS have been reported to balance cell division and differentiation in root apical meristem. However, the underlying molecular mechanism is unclear. Here, we reveal that developmentally produced H2O2 in plant root apical meristem (RAM) triggers reversible acetylation modification of proteins which involved in protein synthesis and cell proliferation. WOX11, an essential transcription factor for crown roots (CRs) formation, modulates ROS homeostasis by directly regulating class III peroxidases. HDACs (histone deacetylases) sense cellular redox status to enhance their enzyme activities, which drives protein acetylation level alterations in rice roots. Oxidation-dependent on WOX11 triggered protein acetylation modification leads to a robust root system in rice. Our study revealed a novel regulatory mechanism which cellular redox status via a WOX11-dependent manner regulates protein acetylation during rice crown root development. The molecular link between the redox status and HDACs activities through WOX11-dependent pathway may provide new insight into which plants exploit developmentally produced ROS to direct organogenesis. Additionally, HDACs reversible enzyme activity via redox-regulated endows with the flexibility of protein modification control in dealing with developmental and changing environmental cues.
2022-08-10 | PXD029260 | Pride
Project description:Plants reorganize their root architecture to avoid growth into unfavorable regions of the rhizosphere. In a screen based on chimeric repressor gene-silencing technology, we identified the Arabidopsis thaliana GeBP-LIKE 4 (GPL4) transcription factor as an inhibitor of root growth that is induced rapidly in root tips in response to cadmium (Cd). We tested the hypothesis that GPL4 functions in the root avoidance of Cd by analyzing root proliferation in split medium, in which only half of the medium contained toxic concentrations of Cd. The wild-type (WT) plants exhibited root avoidance by inhibiting root growth in the Cd side but increasing root biomass in the control side. By contrast, GPL4-suppression lines exhibited nearly comparable root growth in the Cd and control sides and accumulated more Cd in the shoots than did the WT. GPL4 suppression also altered the root avoidance of toxic concentrations of other essential metals, modulated the expression of many genes related to oxidative stress, and consistently decreased reactive oxygen species concentrations. We suggest that GPL4 inhibits the growth of roots exposed to toxic metals by modulating reactive oxygen species concentrations, thereby allowing roots to colonize noncontaminated regions of the rhizosphere.thereby re-allocating root biomass toward non-contaminated rhizosphere areas and minimizing root exposure to toxic metals.
2016-12-01 | GSE90701 | GEO
Project description:Phosphate is an essential macronutrient required for plant growth and development. However, it is present at suboptimal levels in many terrestrial ecosystems. To ameliorate this limitation, plants have evolved developmental and physiological mechanisms known as phosphate starvation responses (PSR). One of the main PSR in Arabidopsis thaliana is a deep restructuration of the root system architecture, which includes a reduction in primary root growth resulting in a shallower root system better adapted to explore the nutrient-rich topsoil. Intense research over the last years has shown that this developmental change is dependent on the accumulation and redistribution of iron (Fe) at the root tip, which in turn, participates in Fenton reactions and generates reactive oxygen species that affect meristem function and cell elongation. We have recently identified and characterized a cytochrome-containing protein in A. thaliana, named CRR, which is involved in the primary root growth response to phosphate starvation. Our results showed that CRR is an ascorbate-dependent ferric-reductase whose expression levels modulates iron distribution pattern in the root, affecting meristem function and cell elongation. Moreover, this activity also has shown to be critical for iron toxicity tolerance since CRR determines the transport rate of iron from root to shoot.
2023-10-01 | GSE215755 | GEO
Project description:Phosphate is an essential macronutrient required for plant growth and development. However, it is present at suboptimal levels in many terrestrial ecosystems. To ameliorate this limitation, plants have evolved developmental and physiological mechanisms known as phosphate starvation responses (PSR). One of the main PSR in Arabidopsis thaliana is a deep restructuration of the root system architecture, which includes a reduction in primary root growth resulting in a shallower root system better adapted to explore the nutrient-rich topsoil. Intense research over the last years has shown that this developmental change is dependent on the accumulation and redistribution of iron (Fe) at the root tip, which in turn, participates in Fenton reactions and generates reactive oxygen species that affect meristem function and cell elongation. We have recently identified and characterized a cytochrome-containing protein in A. thaliana, named CRR, which is involved in the primary root growth response to phosphate starvation. Our results showed that CRR is an ascorbate-dependent ferric-reductase whose expression levels modulates iron distribution pattern in the root, affecting meristem function and cell elongation. Moreover, this activity also has shown to be critical for iron toxicity tolerance since CRR determines the transport rate of iron from root to shoot.
2023-10-25 | GSE235511 | GEO
Project description:Purpose: Although five receptors of RGF1 have recently been identified, the downstream signaling mechanism remains unknown. The goal of this study is to elucidate signaling events following RGF1 action. Methods: mRNA profiles of the root meristematic zone from Arabidopsis seedlings with or without RGF1 treatment were generated by deep sequencing, in triplicate. The sequence reads were analyzed using Tophat and DESeq2. The mutants of selected differentially expressed genes were generated for phenotyping. Results: Our study uncovered a series of signaling events following RGF1 action. The RGF1-receptor pathway controls distribution of reactive oxygen species (ROS) along the developmental zones of the Arabidopsis root. We identify a novel transcription factor, RGF1 INDUCIBLE TRANSCRIPTION FACTOR 1 (RITF1), which plays a central role in mediating RGF1 signaling. Manipulating RITF1 expression leads to redistribution of ROS along the root developmental zones. Changes in ROS distribution, in turn, enhance the stability of the PLETHORA2 (PLT2) protein, a master regulator of root stem cells. Conclusions: Our study clearly depicts a signaling cascade initiated by RGF1 and links the RGF1 peptide to ROS regulatory mechanisms.
2019-10-15 | GSE108730 | GEO
Project description:In the Arabidopsis root meristem, stem cell maintenance relies on the combined activity of transcription factor networks. The transcriptional regulator EMBRYO DEFECTIVE 1579 (EMB1579) controls many aspects of plant growth. The molecular mechanisms underlying its function in root development, and tissue patterning remain elusive. Here, we show that EMB1579 is required for stem cell maintenance and cell division orientation in the root meristem. EMB1579 modulates the function of two root stem cells' regulatory modules, PLETHORAS and SCARECROW-SHORT-ROOT, in a process that involves transcriptional regulation and post-transcriptional modification. We demonstrate that EMB1579 acts as a catalyst for stem cell gene expression, and its activity is fine-tuned through physical association with the RNA splicing factors; importantly, we unveil that the formation of nuclear condensates is essential for regulating the expression of root stem cell genes. Our data unveil a mechanism by which EMB1579 regulates stem cell determinants in the root meristem.
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Project description:Carbon dots (CDs) can affect plant growth and disease resistance and assist siRNA/DNA delivery. Salvia miltiorrhiza-Derived Carbon Dots were recently found to facilitate plants to adapt to environmental stresses through amplifying Ca2+ signaling and scavenging reactive oxygen species (ROS). More importantly, CDs can be degraded into CO2 and H2O within plant cells, thereby having fewer biosafety issues as compared to those undegradable ones and receiving more attentions in the plant community. However, the molecular mechanisms underlying effects of CD priming on plant growth and development have not been well characterized. In this study, we conducted transcriptomic assays and aim to reveal how CD priming affect root development through transcriptional reprogramming in rice.
2025-05-10 | GSE202652 | GEO