Ontology highlight
ABSTRACT:
PROVIDER: PRJNA702598 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Iron is an essential element for almost all organisms, catalyzing numerous essential redox reactions by virtue of its unique electrochemical properties. Iron levels in cells need to be carefully balanced. Rglg1/2 is an Arabidopsis mutant which display a pleiotropic phenotype partly resembling iron-deficient plants.To dissect global transcriptional regulation of gene expression in iron-deficient plants, we conducted genome-wide proteomic and transcriptomic surveys of leaves and roots from iron-sufficient and iron-deficient Col-0 wild-type plants and rglg1 rglg2 double mutants.
2016-10-30 | GSE63946 | GEO
Project description:This study was designed to identify candidate genes associated with iron efficiency in soybeans. Two genotypes, Clark (PI548553) and IsoClark (PI547430), were grown in both iron sufficient (100uM Fe(NO3)3) and iron deficient (50uM Fe(NO3)3) hydroponics conditions. The second trifoliate was harvested for RNA extraction for the microarray experiment. Candidate genes were identified by comparing gene expression profiles within genotypes between the two iron growth conditions. Experiment Overall Design: This experiment was designed to compare expression profiles of Clark grown in iron sufficient and deficient iron conditions and of IsoClark grown in the same conditions. Plants grown in iron sufficient conditions were used as controls and plants grown in iron deficient conditions were considered experimental. For the Clark genotype, There were two biological replicates of iron deficient plants, and three biological replicates of iron sufficient plants. The IsoClark genotype had three biological replicates for both iron sufficient and deficient conditions.
2009-09-12 | E-GEOD-10730 | biostudies-arrayexpress
Project description:Iron (Fe) plays a pivotal role in several metabolic and biosynthetic pathways essential for plant growth. Fe deficiency in plants severely affects the overall crop yield. Despite several studies on iron deficiency responses in different plant species, these mechanisms remain unclear in the allohexaploid wheat, which is the most widely cultivated commercial crop. In order to gain a comprehensive insight into molecular responses of bread wheat when exposed to iron deficiency, we studied transcriptomic changes in the roots and flag leaves of wheat plants subjected to iron-deficient and iron-sufficient conditions during early grain filling.
2020-11-24 | GSE162027 | GEO
Project description:Maintaining iron homeostasis requires a precise orchestration of cellular uptake, trafficking through mesophyll cells, translocation via xylem and phloem, and uptake of iron by roots adjusted to the demand of sink organs by systemic signals. Plants defective in the iron transporter OPT3 in the leaves behave as if they were constitutively iron deficient and accumulate toxic iron levels in their leaves. IRONMAN (IMA) genes encode peptides that trigger iron remobilization and uptake by inhibiting the ubiquitin ligase BRUTUS. Ectopic expression of IMA genes also causes iron accumulation. This study aims at bridging the knowledge gap of the mechanisms operating between OPT3-transported iron and the activation of IMA genes, and between phloem-localized IMAs and the activation of iron uptake genes in the epidermis. A small subset of genes was found to be shared among the three iron-accumulating genotypes and iron-deficient control plants. Root expression profiles were more strongly correlated that those of shoots, confirming a predominant function in the regulation of root processes by IMAs and OPT3. The largest overlap was observed between opt3-2 and wild-type plants. IMA1 Ox and IMA3 Ox lined showed a surprisingly small overlap except for the iron-related genes, suggesting distinct physiological functions. A small subset of genes was consistently differentially expressed in all the genotypes, including genes involved in root iron uptake and ROS detoxification. The small suite of differentially expressed genes common to all genotypes under investigation constitute potential novel regulators of cellular iron homeostasis.
2024-05-01 | GSE232781 | GEO
Project description:To analyze context-sensitive changes in pre-mRNA splicing pattern and gene expression, we mapped the transcriptome of iron-deficient and iron-sufficient Arabidopsis roots using the RNA-seq technology. RNA-seq data were analyzed with a newly developed software package, RACKJ (Read Analysis & Comparison Kit in Java). Subsets of 460 and 1480 genes were found to be either differentially expressed or affected in their splicing patterns upon iron deficiency. The two groups showed a small, random overlap, indicating that alternative splicing and differential gene expression represent parallel, but potentially interacting regulatory mechanisms. The majority (~95%%) of the context-sensitive alternative splicing events was due to differentially retained introns. Intron retention was mostly repressed in iron-deficient plants, while exon skipping did not show a clear trend in either direction. A comparison with a similar data set for phosphate-deficient plants supported stress-repressed intron retention and revealed nutrient-specific changes of splicing patterns. It is concluded that iron and phosphate deficiency increases splicing fidelity for a subset of transcripts, probably as a means of acclimation to nutrient shortage.
2011-08-19 | E-MTAB-4472 | biostudies-arrayexpress
Project description:Mouse Iron Distribution Dynamics
Dynamic model of iron distribution in mice. This model attempts to fit the radioiron tracer data from Lopes et al. 2010 for mice fed iron deficient and rich diets by adjusting the rate of iron intake (vDiet) and the hepcidin synthesis rate (vhepcidin) independently for each experiment. All other parameters are those that provide the best fit for the adequate diet.
This model includes the radioiron tracer species.
Differences in parameter values between deficient, rich, and adequate diets:
Diet
vDiet
vhepcidin
Adequate
0.00377422
1.7393e-08
Deficient
0
8.54927e-09
Rich
0.00415624
2.30942e-08
2019-10-10 | BIOMD0000000734 | BioModels
Project description:Soilborne fungal pathogens cause devastating yield losses, are highly persistent and difficult to control. To culminate infection, these organisms must cope with limited availability of iron. Here we show that the bZIP protein HapX functions as a key regulator of iron homeostasis and virulence in the vascular wilt fungus Fusarium oxysporum. Deletion of hapX does not affect iron uptake, but causes derepression of genes involved in iron-consuming pathways, leading to impaired growth under iron-depleted conditions. F. oxysporum strains lacking HapX are reduced in their capacity to invade and kill tomato plants and immunodepressed mice. The virulence defect of ΔhapX on tomato plants is exacerbated by coinoculation of roots with a biocontrol strain of Pseudomonas putida, but not with a siderophore-deficient mutant, indicating that HapX contributes to iron competition of F. oxysporum in the tomato rhizosphere. These results establish a conserved role for HapX-mediated iron homeostasis in fungal infection of plants and mammals.
2012-07-14 | GSE39325 | GEO
Project description:au15-05_fit - differential gene expression in a.tha. depending on mutation in fit - Transcriptomical changes in transgenic plants that carry a point mutation in FIT. - Differential gene expression in A. thaliana seedlings depending on the introduction of a point mutation in FIT (FER-LIKE IRON DEFICIENCY-INDUCED TRANSCRIPTION FACTOR) under iron deficient conditions.
2017-04-07 | GSE97401 | GEO
Project description:MicroRNAs (miRNAs) are small non-coding RNAs that function as post-transcriptional regulators of gene expression in eukaryotes. In rice, miR7695 targets an alternatively spliced transcript of natural resistance-associated macrophage protein 6 (OsNramp6) encoding an iron transporter whose expression is regulated by infection with the rice blast fungus Magnaporthe oryzae. Rice plants grown under high iron supply showed blast resistance, which supports that iron is a factor in controlling blast resistance by still unknown mechanisms. Here, iron accumulated near M. oryzae appressoria, the sites of pathogen entry, and in cells surrounding infected regions of the rice leaf. Activation-tagged MIR7695 rice plants (MIR7695-Ac) exhibited enhanced resistance to M. oryzae infection. RNA-seq analysis revealed that blast resistance in MIR7695-Ac plants was associated with strong induction of defense-related genes, including pathogenesis-related and diterpenoid biosynthetic genes. Levels of phytoalexins during pathogen infection were higher in MIR7695-Ac than wild-type plants. Early phytoalexin biosynthetic genes, OsCPS2 and OsCSP4, were highly upregulated in rice plants grown under high iron supply. Our data indicate that miR7695 positively regulates rice immunity while establishing links between defense and iron signaling in rice. MiR7695-mediated regulation of OsNramp6 has great potential for the development of strategies to control rice blast disease.
2020-01-08 | GSE122258 | GEO