Transcriptome profiling of RHD6-regulated genes under Al stress
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ABSTRACT:
ORGANISM(S): Arabidopsis thaliana
PROVIDER: GSE205141 | GEO | 2025/05/31
REPOSITORIES: GEO
Similar Datasets
Project description:Transcriptome profiling of RHD6-regulated genes under Al stress
| PRJNA843998 | ENA
Project description:Gene expression profiling in soybean under aluminum stress: genes differentially expressed between Al-tolerant and Al-sensitive genotypes. Aluminum toxicity is the most important constraint of crop production on acid soils. Understanding the molecular and genetic mechanisms of tolerance is crucial for developing efficient breeding programs to improve Al tolerance. This research was undertaken to identify candidate Al-tolerance genes in soybean. Two soybean genotypes PI 416937 (Al-tolerant) and Young (Al-sensitive) seedlings were exposed to zero or 10 µM Al in a growth chamber under hydroponic conditions for four time spans of 2, 12, 48 or 72 hrs. Microarray analysis was made on mRNA isolated from 1 cm long tap root tips using an Affymetrix soybean genome array. Both novel and previously reported aluminum-responsive genes were identified. The differentially expressed genes were enriched for metabolism, stress response and transporters. Multiple putative Al-tolerance genes uniquely induced in the tolerant genotype includes the up-regulation of previously identified transcription factors auxin down regulated-like protein (ADR6-like) and basic leucine zipper (bZIP 94), sulfur transmembrane transport protein and lipid transfer protein (Sec 14 ) and novel genes that include rare cold inducible protein (RCI2B ), GPI-transamidase, malonyl-COA: Isoflavone 7-O-glucoside-6˝-O-malontransferase, a cell proliferation protein (WPP2), Oleosin protein, pectinestrease inhibitor, and impaired sucrose induction1. The genes identified in this study will be utilized as important genetic resources for future improvement of Al tolerance in soybean. Key words: Soybean, Al tolerance, gene expression, microarray
2011-10-07 | GSE18517 | GEO
Project description:Gene expression profiling in soybean under aluminum stress: genes differentially expressed between Al-tolerant and Al-sensitive genotypes. Aluminum toxicity is the most important constraint of crop production on acid soils. Understanding the molecular and genetic mechanisms of tolerance is crucial for developing efficient breeding programs to improve Al tolerance. This research was undertaken to identify candidate Al-tolerance genes in soybean. Two soybean genotypes PI 416937 (Al-tolerant) and Young (Al-sensitive) seedlings were exposed to zero or 10 µM Al in a growth chamber under hydroponic conditions for four time spans of 2, 12, 48 or 72 hrs. Microarray analysis was made on mRNA isolated from 1 cm long tap root tips using an Affymetrix soybean genome array. Both novel and previously reported aluminum-responsive genes were identified. The differentially expressed genes were enriched for metabolism, stress response and transporters. Multiple putative Al-tolerance genes uniquely induced in the tolerant genotype includes the up-regulation of previously identified transcription factors auxin down regulated-like protein (ADR6-like) and basic leucine zipper (bZIP 94), sulfur transmembrane transport protein and lipid transfer protein (Sec 14 ) and novel genes that include rare cold inducible protein (RCI2B ), GPI-transamidase, malonyl-COA: Isoflavone 7-O-glucoside-6˝-O-malontransferase, a cell proliferation protein (WPP2), Oleosin protein, pectinestrease inhibitor, and impaired sucrose induction1. The genes identified in this study will be utilized as important genetic resources for future improvement of Al tolerance in soybean. Key words: Soybean, Al tolerance, gene expression, microarray Two genotypes: PI 416937 (p) and Young (y); two treatments: aluminum or untreated; four time points: 2, 12, 48, and 72 hrs; 2 or 3 replicates.
2011-10-06 | E-GEOD-18517 | biostudies-arrayexpress
Project description:Aluminum (Al) is the most common metal in the Earth’s crust and Al toxicity is considered to be the most harmful abiotic stress in acidic soils that today comprise more than 50% of the world’s arable lands. The first symptom of Al toxicity is the reduction of root growth, resulting in decreased water and nutrients uptake, plant growth retardation, and finally, yield reduction. Barley (Hordeum vulgare L.), which is the fourth cereal crop in regards to cultivation area and production tonnage, belongs to crops most sensitive to toxic aluminum ions in low pH soils. We present the RNA-seq transcriptome analysis of root meristems of barley seedlings grown in hydroponics at optimal pH (6.0), low pH (4.0), and low pH with Al (10 µM of bioavailable Al3+ ions). Two independent experiments were conducted: with short-term (24 h) and long-term (7 days) Al treatment. Interestingly, in the short-term experiment, more genes were differentially expressed between root meristems grown at pH=6.0 and pH=4.0, than between those grown at pH=4.0 with and without Al treatment. The upregulated genes that were overrepresented at conditions of low pH, compared to optimal pH, were associated with response to oxidative stress, cell wall organization, and iron ion binding. Among genes downregulated by low pH were mainly those related to chromatin organization. These results show that low pH itself is a severe stress for barley plants. Among genes upregulated by short Al treatment, overrepresented were those related to response to stress condition and calcium ion binding. After 7 days of hydroponics, the number of DEGs between hydroponics at pH=4.0 and 6.0 were still high but lower than in the short-term experiment, which suggests that plants partially adapted to the low pH. Interestingly, 7 day Al treatment caused massive changes in the transcriptome profile compared to the condition of low pH alone. Over 4 000 genes were upregulated and almost 2 000 genes were downregulated by long-term Al stress. These DEGs were related to e.g. stress response, cell wall development and metal ion transport. Based on our results we can assume that both, Al3+ ions and low pH are harmful to barley plants.Additionally, we phenotyped in detail the root system of barley seedlings grown in the same hydroponic conditions for 7 days at pH=6.0, pH=4.0, and pH=4.0 with Al. The results correspond to transcriptomic data and show that low pH itself is a stress facor that causes a significant reduction of root growth and the addition of aluminum further increases this reduction. It should be underlined that in the acidic arable lands, plants are exposed simultaneously to both of these stresses (low pH and Al), as Al becomes soluble at pH below 5.5. The presented transcriptome analysis may help to find potential targets for breeding barley plants more tolerant to such conditions.
2021-02-23 | GSE167271 | GEO
Project description:To investigate how LUH regulates Al binding to cell-wall and thus inhibition of root growth under Al stress, a transcriptional analysis through RNAseq was performed by comparing the luh-4 mutant and WT plants in the presence or absence of Al. In WT plants, 316 and 336 genes, respectively, were up- and down-regulated at least 2-fold, while in luh-4, 239 and 305 genes, respectively, were up- and down-regulated at least 2-fold by Al stress. By comparison with WT seedlings, we found that 103 and 38 genes, respectively, were up- and down-regulated at least 2-fold in the non-stressed luh-4 mutant, while 77 and 33 genes, respectively, were up- and down-regulated at least 2-fold in Al-subjected luh-4 roots.
2019-08-08 | GSE85292 | GEO
Project description:Aluminum (Al) toxicity in plants is one of the primary constraints in crop production. Al³⁺, the most toxic form of Al, is released into soil under acidic conditions and causes extensive damage to plants, especially in the roots. In rice, Al tolerance requires the ASR5 gene, but the molecular function of ASR5 has remained unknown. This data establish a comparative study of miRNAome profiles in ASR5 knockdown rice plants (ssp. Japonica cv. Nipponbare) under Al stress conditions.
2017-11-09 | GSE77046 | GEO
Project description:We explored the genetic regulator at the protein level, which responds to aluminum stress in the presence of ectomycorrhizal fungi, Suillus luteus, in the masson pine. Comparison of different treatments, i.e., SL-04 vs CK-04, SL-04 vs SL-0, and SL-0 vs CK-0 resulted in the identification of Al-stress responsive proteins viz. chlorophyll a-b binding protein, laccase, and heat shock protein. Significant gene expression pattern of differentially up-regulated proteins laccase and putative spermidine synthase provide the evidence and explain the role of these proteins in response to Al-stress. Further, based on top differential proteins from each comparison recognized the two common regulators among the differential proteins viz., putative spermidine synthase, Chlorophyll a-b binding protein. This study provides the theoretical basis and understanding of the role of genetic regulators in response to Al stress in masson pine.
2021-01-27 | PXD023856 |
Project description:Transcriptome analysis of barley root meristem under Al and low pH stress
| PRJNA704034 | ENA
Project description:Transcriptomes of Wild Type tomato and slstop1 under -Al/+Al treatment
| PRJNA707414 | ENA
Project description:To better understand the mechanisms involved in aluminum (Al) toxicity and tolerance in plants, microarray technology was used to evaluate changes in gene expression in Arabidopsis thaliana under Al stress. With the use of Affymetrix Arabidopsis ATH1 Genechip, a comparison of RNA expression profiles was made between control and Al-treated Arabidopsis seedlings. A total of 256 genes were identified as Al-responsive. Ninety-four genes were shown to be up-regulated and 162 were down-regulated; comprising 1.1% of the 24,000 Arabidopsis genes. Real-time RT-PCR was used to confirm the microarray data. RNAs associated with known protein functions were classified into categories. The analysis showed that a large number of transcription factors and several putative signaling components were up-regulated by aluminum. Chloroplast structural and photosynthetic genes were, in general, down-regulated. A number of previously identified Al-responsive genes showed similar expression pattern changes in this study. For example, GST, Auxin-regulated, Peroxidase, and Chitinase, were found to be up-regulated by Al-stress, whereas, genes such as Wali 3 and Wali 4, were down-regulated. We also identified several up-regulated genes involved in vacuolar signaling, sorting and docking. Three genes were also up-regulated by Al-stress, Ras GTP-binding protein, ABC-cassette binding, and the AtELP1 receptor genes, have previously been documented as responsive to drought and/or oxidative stress and may play important roles the detoxification of Al ions by transportation and storage into root vacuoles. Ultrastructural changes in the roots tips cells of Arabidopsis were evaluated using TEM and EDXMA with SEM. Results using combined TEM and SEM-EDXMA showed that Al accumulattion in the root tip of Arabidopsis was detectable. The coupling these techniques can be useful for measuring Al in situ in cellular and sub cellular section of plant roots. Keywords: Stress response
2007-12-31 | GSE7334 | GEO