Arabidopsis thaliana
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA151923 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Root nitrate response of Ws plants and afb3-1 mutant plants
| PRJNA152275 | ENA
Project description:nitrate induction - nlp mutants-Nitrate induction - nlp mutants
| PRJNA170614 | ENA
Project description:Auxin is a key phytohormone regulating central processes in plants that include embryo development, lateral root growth and flower maturation among others. Auxin is sensed by a set of F-Box proteins of the TIR1/AFB3 family triggering auxin dependent responses by a pathway that involves an interplay between the Aux/IAA transcription repressors and the ARF transcription factors. We have previously shown that the AFB3 auxin receptor has a specific role in coordinating primary and lateral root growth to external and internal nitrate availability (Vidal et al., 2010). In this work, we used an integrated genomics, bioinformatics and molecular genetics approach to dissect regulatory networks acting downstream AFB3 that are activated by a transient nitrate treatment in Arabidopsis roots. Our systems approach unraveled key components of the AFB3 regulatory network leading to changes in lateral root growth in response to nitrate. Arabidopsis seedlings of the Ws and afb3-1 genotypes were grown on hydroponic medium containing 1X MS salts without Nitrogen, supplemented with 0.5 mM ammonium succinate as Nitrogen source and 3 mM sucrose on a Percival chamber under a photoperiod of 16 hours of light (100 μE/m2/sec) and 8 hours of dark at 22°C for 14 days. The plants were treated at the onset of the light cycle with 5 mM KNO3 or 5 mM KCl as control for 2 hours. Whole roots were cut from seedlings and frozen on liquid Nitrogen. Total RNA was extracted using the TriZol reagent. 3 independent biological replicates were performed.
2012-04-30 | E-GEOD-35544 | biostudies-arrayexpress
Project description:Plants modulate the efficiency of root nitrogen (N) acquisition in response to shoot N demand. However, molecular components directly involved in this shoot-to-root communication remain to be identified. Here, we show that phloem-mobile CEPD-like 2 (CEPDL2) polypeptide is upregulated in the leaf vasculature in response to decreased shoot N status and, after translocation to the roots, promotes high-affinity uptake and root-to-shoot transport of nitrate by activating nitrate transporter genes such as NRT2.1, NRT3.1 and NRT1.5. Loss of CEPDL2 decreases nitrate uptake and root-to-shoot transport activity in roots, leading to a reduction in shoot nitrate content and plant biomass. CEPDL2 contributes to N acquisition cooperatively with CEPD1 and CEPD2 that mediate root N status, and their complete loss severely impairs N homeostasis in plants. Reciprocal grafting analysis provided conclusive evidence that the shoot CEPDL2/CEPD genotype defines the root high-affinity uptake activity of nitrate. Our results indicate that plants integrate shoot N status and root N status in leaves and systemically regulate the efficiency of root N acquisition.
2020-02-10 | GSE140834 | GEO
Project description:Root developmental plasticity enables plants to adapt to nutrient-deficient conditions. Under low nitrate conditions, enhanced exploratory root growth—characterized by increased primary and lateral root elongation—facilitates nutrient foraging. Although nitrate-hormone crosstalk regulates this process, the underlying molecular mechanisms remain poorly understood. Here, we identify a BIN2-GRF5-UBP12/13 module governing root foraging responses to low nitrate in Arabidopsis. We demonstrate that BIN2 phosphorylates GRF5 at Ser-205, reducing its stability and transcriptional activity. Integrative DAP-seq and transcriptome analyses revealed that GRF5 directly regulates key nitrate-responsive genes, including the dual-affinity transporter NRT1.1 and the high-affinity uptake gene NRT2.1. Furthermore, dephosphorylated GRF5 preferentially interacts with UBIQUITIN-SPECIFIC PROTEASES 12 and 13 (UBP12/13), which stabilize GRF5 to promote lateral root elongation under low nitrate conditions. Our work delineates a phosphorylation-dependent regulatory circuit that fine-tunes root foraging adaptation, advancing the mechanistic understanding of nitrate sensing in plants.
2026-03-17 | GSE316090 | GEO
Project description:Mature Arabidopsis leaves: RAP2.6L overexpressing vs wild-type (Ws)
| PRJNA355140 | ENA
Project description:gnp3-b4_nitrogen_starvation - nitrogen starvation and re-supply - What are the transcriptomic short- and long-term plant responses to nitrogen starvation and nitrogen re-supply? - WS Arabidopsis ecotype were grown on 6mM nitrate as sole nitrogen source during 35 days under short days . At T0, plants were then starved for nitrate for 10 days and root and shoot samples were harvested separately 2 and 10 days after treatment (T2, T10). Then, nitrate (6 mM) was re-supplied for 1 and 24 hours (T+1, T+24). Keywords: time course
2007-06-20 | GSE8031 | GEO
Project description:af47_thioredoxins - comparison ws vs de and dy - Knock-out mutants of the ferredoxin-thioredoxin reductase were used to evaluate the impact of the redox perturbation of the plastidial thioredoxins on Arabidopsis transcriptome. - Wild-type (WS) and two T-DNA mutant lines for the variable subunit of ferredoxin:thioredoxin reductase ( DY and DE from INRA of Versailles collection) were compared Keywords: wt vs mutant comparison
2007-06-20 | GSE7978 | GEO
Project description:Most land plants have evolved both a direct root uptake pathway and a symbiotic pathway, via association with arbuscular mycorrhizal (AM) fungi, to facilitate nutrient acquisition, particularly of phosphorus (P) and nitrogen (N), from soil. Recently, we revealed a highly efficient symbiotic pathway for nitrate uptake, mediated by an AM-specific NPF/NRT1 transporter, OsNPF4.5, in rice. However, the regulatory mechanism controlling the AM-specialized expression of OsNPF4.5 remains unclear. Here, we demonstrate that two cis-acting elements, the CArG and GCC-box, are essential for activating the expression of OsNPF4.5 in rice mycorrhizal roots. Deletion of either of the two motifs in its promoter caused almost complete abolition of the promoter activity of OsNPF4.5. An AM-responsive MADS (MCM1, AG, DEFA, and SRF) transcript factor, OsMADS61, could positively regulate OsNPF4.5 and another nitrate transporter gene, OsNRT2.2, involved in direct nitrate uptake. Knockout of OsMADS61 decreased root biomass, N accumulation and mycorrhization efficiency in its mutants. OsMADS61 could be directly regulated by another AM-upregulated OsMADS paralogue, OsMADS26, which itself can also activate OsNPF4.5, OsNRT2.2, and OsNAR2.1, encoding a nitrate transporter activating protein. Together, our results reveal a dual regulatory role for OsMADS61 and OsMADS26 in governing both direct and symbiotic nitrate uptake pathways.
2026-03-07 | GSE322741 | GEO
Project description:comparison ws vs haf2_gcn5-histone acetylation required for gene expression during germination
| PRJNA100741 | ENA