No treatment / nitrate starvation / nitrate induction-Study of the primary nitrate response (PNR) in nlp2 mutant and WT
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ABSTRACT:
ORGANISM(S): Arabidopsis thaliana
PROVIDER: GSE142628 | GEO | 2023/02/08
REPOSITORIES: GEO
Similar Datasets
Project description:bra-inra09-02_bioen_nitrogen - nitrate induction - nlp mutants - Short term nitrate induction kinetics in wildtype, nlp7-1, nlp7-3 and nlp6nlp7 - 10 days old seedling grown in liquid culture on 3mM nitrate wer starvec for N for 3 days and the kinetic for the resupply of nitrate was studied during a short kinetic (0,5, 10,20 minutes).
2012-12-01 | GSE39261 | GEO
Project description:bra-inra09-02_bioen_nitrogen - nitrate induction - nlp mutants - Short term nitrate induction kinetics in wildtype, nlp7-1, nlp7-3 and nlp6nlp7 - 10 days old seedling grown in liquid culture on 3mM nitrate wer starvec for N for 3 days and the kinetic for the resupply of nitrate was studied during a short kinetic (0,5, 10,20 minutes). 26 dye-swap - gene knock out,time course
2012-12-01 | E-GEOD-39261 | biostudies-arrayexpress
Project description:NLP1-9 are plant unique transcrition facotrs. To identify NLP1-9 target genes, we transiently expressed NLP1-9 in Arabidopsis mesophyll protoplasts and performed RNA-seq analysis. NLP1-9 individually induced specific gene expression and co-activated nitrate responsive genes expression. To study genome-wide transcriptional landscape modulated by NLP, we performed transcriptome analysis at 20 min after nitrate induction in wild type and nlp2,4,5,6,7,8,9. All nitrate responsive genes were significant reduced in nlp2,4,5,6,7,8,9 indicated that NLP transcription factors are central regulators in PNR.
2022-11-17 | GSE198475 | GEO
Project description:Transciptome profileing analysis of wt, nlp6, nlp7 and nlp6nlp7 before nitrate treatment and after 35 minutes of 25mM nitrate induction. NLP7 (NIN-LIKE-PROTEIN 7) (NLP7) is the major transcriptional factor responsible for the primary nitrate response (PNR), but the role of its closest homologue , NLP6, in nitrogen signaling and the interplay between NLP6 and NLP7 remain to be elucidated. In this study, we show that, like NLP7, nuclear localization of NLP6 via a nuclear retention mechanism is nitrate-dependent, but nucleocytosolic shuttling of both NLP6 and NLP7 is independent of each other. Compared to single mutants, the nlp6 nlp7 double mutant displays a synergistic growth retardation phenotype in response to nitrate. The transcriptome analysis of primary nitrate response (the PNR) showed that NLP6 and NLP7 govern ~50% of nitrate-induced genes, with cluster analysis highlighting two distinct patterns. In the A1 cluster, NLP7 plays the major role, whereas in the A2 cluster, NLP6 and NLP7 are partially functionally redundant. Interestingly, comparing the growth phenotype and PNR under high and low nitrate conditions demonstrated that NLP6 and NLP7 exert a more dominant role in the response to high nitrate. Apart from nitrate signaling, NLP6 and NLP7 also participated in ammonium conditions . Growth phenotypes and transcriptome data uncovered revealed that NLP6 and NLP7 are completely functionally redundant, and may acting as repressors in response to ammonium. Other NLP family members also participated in the PNR, with NLP2 and NLP7 acting as broader regulators and NLP4, -5, -6, and -8 regulating PNR in a gene-dependent manner. Thus, our findings indicate that multiple modes of interplay exist between NLP6 and NLP7 that, which differ depending on nitrogen sources and gene clusters. To determine the genome-wide contributions of NLP7 and NLP6 to the overall nitrate response, we performed a transcriptomics analysis on nlp6, nlp7 and nlp6nlp7 for comparison to wild-type (Col-0) plants. A similar approach has been applied previously for NLP7 (Marchive et al., 2013), but not for NLP6. We collected root tissue before nitrate induction and 35 min after nitrate induction and assessed alterations in gene expression.
2023-04-12 | GSE229228 | GEO
Project description:Nitrogen metabolism in Aspergillus nidulans is subject to regulation by the GATA transcription factor AreA which is required for the utilization of a wide range of nitrogen sources other than glutamine or ammonium. The level of AreA activity is regulated by intracellular glutamine levels that vary in response to nitrogen supplementation. For nitrate assimilation, which involves two transporters (CrnA, CrnB), nitrate reductase (NiaD) and nitrite reductase (NiiA), the respective genes are subject to regulation at the level of transcription, including nitrogen metabolite repression mediated by AreA and induction mediated by nitrite or nitrate, mediated by a second transcription factor, NirA. Both transcription factors act synergistically to regulate the expression of all four structural genes when nitrogen is limiting or either nitrate or nitrite is available. In this study we dissect the nitrogen limitation effect mediated by AreA form the nitrate/nitrite specific effect mediated by NirA on the transcriptome level. Keywords: Nitrate/nitrogen limitation response
2009-01-01 | GSE10475 | GEO
Project description:NRT1.1 is a nitrate transceptor involved in many nitrate responses including the regulation of gene expression through (i) the Primary Nitrate Response (PNR) and (ii) the regulation the NRT2.1 gene under continuous high NH4NO3 conditions. Phosphorylation of NRT1.1’s T101 residue is involved in the modulation of the PNR whereas nitrate transport by NRT1.1 is not. Here we used various NRT1.1 point mutants to study the impact of NRT1.1 on the whole transcriptome under high NH4NO3 supply. Col is the WT control, chl1-5 and chl1-12 are KO mutants, chl1-9 is defective in nitrate transport but not in PNR induction, T101D and T101A mimick the phosphorylated and not phosphorylated forms of NRT1.1 respectively.
2015-01-15 | GSE49437 | GEO
Project description:NRT1.1 is a nitrate transceptor involved in many nitrate responses including the regulation of gene expression through (i) the Primary Nitrate Response (PNR) and (ii) the regulation the NRT2.1 gene under continuous high NH4NO3 conditions. Phosphorylation of NRT1.1’s T101 residue is involved in the modulation of the PNR whereas nitrate transport by NRT1.1 is not. Here we used various NRT1.1 point mutants to study the impact of NRT1.1 on the whole transcriptome under high NH4NO3 supply. Col is the WT control, chl1-5 and chl1-12 are KO mutants, chl1-9 is defective in nitrate transport but not in PNR induction, T101D and T101A mimick the phosphorylated and not phosphorylated forms of NRT1.1 respectively. This work studies the impact of various NRT1.1 mutations on the transcriptome under 10mM NH4N03 supply.
2015-01-15 | E-GEOD-49437 | biostudies-arrayexpress
Project description:We performed a comparative phosphoproteomic analysis of Arabidopsis root membrane proteins of WT and nrt1.1-1 under low nitrate (LN) and high nitrate (HN) availability in order to identify the downstream components that may be involved in NRT1.1-dependent LR growth and signal transduction.
2024-02-22 | PXD048853 | Pride
Project description:Nitrate transporter NRT2.1, which plays a central role in high-affinity nitrate uptake in roots, is activated at the post-translational level in response to nitrogen (N) starvation. However, critical enzymes required for post-translational activation of NRT2.1 remain to be identified. Here, we show that a type 2C protein phosphatase, designated CEPD-induced phosphatase (CEPH), activates high-affinity nitrate uptake by directly dephosphorylating S501 of NRT2.1, a residue that functions as a negative phospho-switch. CEPH is predominantly expressed in epidermal and cortex cells in roots and up-regulated by N starvation via a CEPDL2/CEPD1/2-mediated long-distance signaling from shoots. Loss of CEPH leads to a marked decrease in high-affinity nitrate uptake, tissue nitrate content, and plant biomass. Collectively, our results identify CEPH as a crucial enzyme in N starvation-dependent activation of NRT2.1, providing molecular and mechanistic insights into how plants regulate high-affinity nitrate uptake at the post-translational level in response to the N environment. We prepared total RNA from roots of wild type, CEPD1ox, CEPD2ox and CEPDL2ox plants grown on N-replete vertical plates for 14 d, and used a microarray analysis to identify genes specifically induced by CEPD family peptides.
2020-11-06 | GSE160649 | GEO
Project description:In comparison with provision of either ammonium or nitrate alone, simultaneously supplying both forms of N results in superior growth and yield for the majority of plants including rice. Using a rice 22K oligo-array, we performed transcriptome analysis to identify genes of rice (Oryza sativa L. ssp. japonica) responsive to change of N-supply forms and N-starvation. Using the supply of ammonium nitrate (one to one molar ratio) as control, the total number of root genes that were equal or more than two fold up- or down- regulated was 445, 324, and 781 by upon supply of either ammonium or nitrate or continuous N starvation, respectively for 96 h. In the shoot the equivalent numbers were much smaller only 32, 58, and 165, respectively. Clustering of the rice genes associated with different environmental stresses revealed substantial organ specificity of the root and shoot to N starvation, and also to the N supply form. Genes encoding transporters for ammonium and nitrate, nitrate reductase, glutamate dehydrogenase, and aspartate amino transferase, showed great response to change of the N supply form, especially to N starvation. Some of the genes involved in chlorophyll metabolism, carbon fixation and assimilation, were enhanced by ammonium supply only, but significantly suppressed by N-starvation. In the shoot there was increased expression of more general stress genes under nitrate when compared to ammonium nutrition. In the root the reverse situation was true with more apparent stress under ammonium nutrition. The microarray approach has revealed new levels of complexity in the response of rice to the form of N supply. Keywords: Rice; root; shoot; nitrogen starvation; nitrogen form; ammonium; nitrate; gene expression
2006-12-07 | GSE4409 | GEO