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TranscriptomicsCellular and gene expression patterns associated with root bifurcation in Selaginella
To identify possible molecular mechanisms with a role in root branching initiation in S. moellendorffii, we employed the developmental root branching assay for an RNA-seq experiment and sampled root tips on each day from 0 to 5 d after the first branching (time point 0), in which 300 µm apical parts...
ORGANISM(S): Selaginella moellendorffii 
2022-02-12 | E-MTAB-11402 | biostudies-arrayexpress
TranscriptomicsDynamic transcriptome response of rice roots and shoots after treatment with different forms of nitrogen
Rice seedlings grown on a hydroponic set-up depleted of nitrogen were supplemented with 5mM of nitrate, 5mM of ammonium, 2.5mM of ammonium-nitrate or with a negative control (potassium nitrate). Samples were harvested immediately after treatment and over an 8 points time-course up to 48h after treat...
ORGANISM(S): Oryza sativa Japonica Group 
2023-07-06 | E-MTAB-13146 | biostudies-arrayexpress
ProteomicsThe PXC3 receptor-like kinase constitutively interacts with BAK1 and is involved in vascular development in Arabidopsis.
We designed an experiment to identify BAK1 interactors considering that it could be a coreceptor for the GOLVEN6 (GLV6) signaling peptide involved in lateral root organogenesis in Arabidopsis thaliana. A BAK1pro:BAK1-GFP/bak1-4 line crossed to an estradiol-inducible GLV6 overexpression line (BAK1pro...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2022-02-17 | PXD026487 | Pride
Bak1 Arabidopsis Interactors Lrr-rlk Receptors 
TranscriptomicsRice Lateral Root Inducible System timeseries
To transcriptionally characterize lateral root development in rice, we subjected the rice LRIS to genome-wide transcript profiling via RNA-sequencing. Taking into account the appearance of the first (stage I primordium) cell divisions starting from 6 hours after NAA treatment, we sampled at 2 hours ...
ORGANISM(S): Oryza sativa Japonica Group 
2023-08-24 | E-MTAB-13094 | biostudies-arrayexpress
TranscriptomicsRNA-seq GLV6 overexpression during lateral root initiation in Arabidopsis thaliana
The goal of this experiment was to identify the downstream targets of the GOLVEN6 peptide signaling pathway in Arabidopsis thaliana, specifically during lateral root initiation. Using an estradiol inducible GLV6 overexpression construct in wildtype and rgi1rgi5 double mutant (mutant in receptors for...
ORGANISM(S): Arabidopsis thaliana 
2022-02-13 | E-MTAB-10891 | biostudies-arrayexpress
TranscriptomicsExpression data from Arabidopsis wild type and ibr1 ibr3 ibr10 triple mutant seedlings root tip segments treated with indole-3-butyric acid (IBA)
The root cap-specific conversion of the auxin precursor indole-3-butyric acid (IBA) into the main auxin indole-3-acetic acid (IAA) generates a local auxin source which subsequently modulates both the periodicity and intensity of auxin response oscillations in the root tip of Arabidopsis, and consequ...
ORGANISM(S): Arabidopsis thaliana 
2015-05-12 | E-GEOD-59426 | biostudies-arrayexpress
ModelsBand2012_DII-Venus_FullModel
This model is from the article: Root gravitropism is regulated by a transient lateral auxin gradient controlled by a tipping-point mechanism. Band LR, Wells DM, Larrieu A, Sun J, Middleton AM, French AP, Brunoud G, Sato EM, Wilson MH, Péret B, Oliva M, Swarup R, Sairanen I,...
2024-09-02 | BIOMD0000000413 | BioModels
ModelsBand2012_DII-Venus_ReducedModel
This model is from the article: Root gravitropism is regulated by a transient lateral auxin gradient controlled by a tipping-point mechanism. Band LR, Wells DM, Larrieu A, Sun J, Middleton A...
2024-09-02 | BIOMD0000000414 | BioModels
TranscriptomicsTranscription profiling of Arabidopsis slr1 mutant and wild type lateral root segments treated with auxin
Lateral root initiation was used as a model system to study the mechanisms behind auxin-induced cell division. Genome-wide transcriptional changes were monitored during the early steps of lateral root initiation. Inclusion of the dominant auxin signaling mutant solitary root1 (slr1) identified genes...
ORGANISM(S): Arabidopsis thaliana 
2007-07-13 | E-GEOD-3350 | biostudies-arrayexpress
TranscriptomicsIdentity of root peridermis cells undergoing suberization in Arabidopsis
In order to unravel the molecular processes involved in the nature of the root peridermis tissue, as well as in the suberin biosynthesis pathways occurring in this tissue, we have made use of Translating Ribosome Affinity Purification (TRAP) followed by RNA sequencing (TRAP-SEQ) on two marker lines;...
ORGANISM(S): Arabidopsis thaliana 
2020-12-14 | E-MTAB-8949 | biostudies-arrayexpress
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