The arf10/16 double mutant has a differential transcriptional program in response to Al stress
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ABSTRACT:
ORGANISM(S): Arabidopsis thaliana
PROVIDER: GSE57487 | GEO | 2016/12/16
SECONDARY ACCESSION(S): PRJNA246543
REPOSITORIES: GEO
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Project description:Aluminum (Al)-induced root tip cell elongation inhibition is a major cause of plant root elongation suppression. Root tip cell elongation inhibition is caused by disruption to cell wall component metabolism, growth signaling, or cellular damage. The aim of this study was to identify the proteins involved in root elongation under Al stress in the tolerant wheat (Triticum aestivum L.) ET8. We investigated wheat root protein profiles using isobaric tags for relative and absolute quantification (iTRAQ). In total, 97 differentially expressed proteins from Al-tolerant wheat roots were screened and 11 of the 97 proteins were root elongation related. The 14-3-3 protein, plasma membrane ATPase, phospholipase D, and peroxidase are involved in cell wall component metabolism. The cellulase activity and callase activity were down-regulated by Al stress, whereas, the PAL, CAD, and POD activities were up-regulated. In addition, the callose, cellulose, lignin, and H2O2 contents varied significantly. Furthermore, Al stress inhibited root elongation in a metabolic enzyme and carbohydrate-dependent manner. The results indicated that the protein involved with growth signaling is elongation factor 1-α. The cellular damage related proteins are glycosyltransferase and sucrose 1-fructosyltransferase. The iTRAQ analysis highlighted candidate proteins associated with root cell elongation and revealed several new aspects of the metabolic processes underlying Al toxicity and tolerance. We propose that Al stress leads to marked variations in metabolic enzyme activity, carbohydrate content, and cellular damage, followed by inhibition of root elongation in wheat roots. This study has provided the most integrated view of the adaptive root responses to Al-toxicity.
2018-01-15 | PXD008684 |
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:Gene expression profiling in soybean under aluminum stress: Transcriptome response to Al stress in roots of Al-tolerant genotype (PI 416937). Aluminum (Al) toxicity is a major constraint of crop production on acid soils. Many commercial soybean cultivars and advanced breeding lines have been evaluated for Al tolerance. Aluminum tolerance is quantitatively inherited trait in soybean making it difficult for genetic improvement. Understanding the molecular and genetic mechanisms of tolerance is crucial for developing efficient and effective programs aimed at improving Al tolerance trait The molecular mechanisms of Al tolerance is poorly understood in soybean. The objective of the research was to identify candidate aluminum tolerance genes in soybean Al-tolerant soybean genotype PI 416937 seedlings were exposed to zero or 10 µM Al in growth chamber under hydroponic conditions for four time span of 2, 12, 48 and 72 hrs in a randomized complete block design with three replications. Microarray analysis was made on mRNA isolated from 1 cm log tap root tips using Affymetrix soybean array with over 68,000 probe sets Glycine max L and wild soybean combined. Both novel and known genes were discovered in response to Al treatment. They include Al tolerance relevant proteins, families of transcription factors, zinc finger, bZIP, WRKY, MYB, ADR6, and NAC domain proteins were induced likely regulating Al tolerance downstream genes. Stress related proteins, cytochrome P450, glutathione-s transferase, glutaredoxin family and ascorbic acid biosynthesis protein were induced as signatures of cellular detoxification mechanisms. An ABC type multidrug resistance protein that could act as citrate transporter or Al exporter was up-regulated, a key Al tolerance mechanisms in several species. A cell wall loosening enzyme endoxylglucan hydrolases were also up-regulated probably reversing the wall rigidification caused by Al and promoting root growth under Al stress. Phytosulfokines growth factor involved in cell division and proliferation was up-regulated likely as a direct counter action to Al toxicity which inhibits root growth by limiting cell division and elongation. In conclusion, the Al tolerance candidate genes identified herein are potential targets for future genetic engineering and molecular breeding work on Al tolerance trait in soybean which in turn would contribute to gain in soybean productivity on acid soils.
2011-10-05 | GSE18423 | 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
2011-10-07 | GSE18517 | GEO
Project description:To investigate how JA regulates Al-induced inhibition of root growth, a transcriptional analysis through RNAseq was performed by comparing the coi1-2 mutant and WT plants in the presence or absence of Al. In the absence of Al, 149 and 147 genes were up- and down-regulated, respectively, at least 2-fold in the roots of the coi1-2 mutant and WT plants. In the presence of Al, 1747 and 5838 genes were up- and down-regulated, respectively, in the roots of WT plants, while 1449 and 3773 genes were up- and down-regulated, respectively in the coi1-2 mutant. While the comparison of the Al-exposed coi1-2 mutant and WT plants reveals that totally 1187 genes were up-regulated and only 197 genes were down-regulated at least 2-fold.
2017-03-07 | GSE83361 | GEO
Project description:cDNA microarrays (Tom 1) were used to analyze changes in transcript accumulation in tomato (Solanum lycopersicum cv Money Maker) root cultures under Al-stress (20uM AlK(SO4)2). Out of the 1,362 genes that had significant changes in transcript accumulation (FDR<0.05), 569 were reduced and 793 were induced. The down-regulated genes included those found in the cell cycle (p34cdc2 protein kinase, cyclin, histone), putriscine synthesis, ABC transporter, germin-like protein. Al-induced genes included glutamate synthase, pectin modification, histidine synthesis, proline synthesis, metallothionein-like protein, multidrug efflux proteins (MATE), ethylene biosynthesis and detoxification proteins. Different isoforms in the multiple gene families of V-ATPase, glutathione transferases and others were either induced or repressed. A wide array of genes for regulating transcription and translation activities, and signal transduction were also affected.
2009-06-16 | GSE11816 | GEO
Project description:The root tip of rice before or after Al stress have been used. And some gense were regulated in this stress. We used microarrays to detail the global programme of gene expression underlying Al stress and identified distinct classes of up-regulated genes during this process.
2018-05-10 | GSE107531 | GEO
Project description:Background Ionic aluminum (mainly Al3+) is rhizotoxic and can be present in acid soils at concentrations high enough to inhibit root growth. Many forest tree species grow naturally in acid soils and often tolerate high concentrations of Al. Previously, we have shown that aspen (Populus tremula) releases citrate and oxalate from roots in response to Al exposure. To obtain further insights into the root responses of aspen to Al, we investigated root gene expression at Al conditions that inhibit root growth. Results Treatment of the aspen roots with 500 µM Al induced a strong inhibition of root growth within 6 h of exposure time. The root growth subsequently recovered, reaching growth rates comparable to that of control plants. Changes in gene expression were determined after 6 h, 2 d, and 10 d of Al exposure. Replicated transcriptome analyses using the Affymetrix poplar genome array revealed a total of 175 significantly up-regulated and 69 down-regulated genes, of which 70% could be annotated based on Arabidopsis genome resources. Between 6 h and 2 d, the number of responsive genes strongly decreased from 202 to 26, and then the number of changes remained low. The responses after 6 h were characterized by genes involved in cell wall modification, ion transport, and oxidative stress. Two genes with prolonged induction were closely related to the Arabidopsis Al tolerance genes ALS3 (for Al sensitive 3) and MATE (for multidrug and toxin efflux protein, mediating citrate efflux). Patterns of expression in different plant organs and in response to Al indicated that the two aspen genes are homologs of the Arabidopsis ALS3 and MATE. Conclusion Exposure of aspen roots to Al results in a rapid inhibition of root growth and a large change in root gene expression. The subsequent root growth recovery and the concomitant reduction in the number of responsive genes presumably reflect the success of the roots in activating Al tolerance mechanisms. The aspen genes ALS3 and MATE may be important components of these mechanisms.
2010-08-24 | GSE19297 | 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:Canonical auxin signalling starts with auxin binding to the receptor complex, followed by modulation of gene transcription and protein abundance (Tan et al., 2007; Chapman and Estelle, 2009; Slade et al., 2017). However, recent studies also showed an alternative mechanism in roots involving intra-cellular auxin perception, but not transcriptional reprogramming (Fendrych et al., 2018). Despite knowledge on effects of auxin on Arabidopsis root growth at the protein and phosphorylation level is increasing (Zhang et al., 2013; Mattei et al., 2013; Slade et al., 2017), it still remains incomplete. To address this gap in our knowledge, we explored the impact of auxin on the root tip proteome and phosphoproteome.
2021-09-09 | PXD021267 | Pride