Time course IAA treatment Arabidopsis seedlings
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ABSTRACT:
ORGANISM(S): Arabidopsis thaliana
PROVIDER: GSE58063 | GEO | 2015/01/02
SECONDARY ACCESSION(S): PRJNA248783
REPOSITORIES: GEO
Similar Datasets
Project description:7-days-old Arabidopsis seedlings of wildtype (Col-0) were treated with 1 μM IAA for 15 minutes or 3 hours and gene expression of whole plant was analyzed using Affymetrix Gene 1.1 ST Array strips. Arabidopsis seedling (Col-0) 25 plants were grown in each plate (1/2 MS medium) under continuous light at 22 °C for 6 or 7 days. Ten seedlings were cultured in 50 ml plastic tube containing liquid medium (1/2 MS medium), and incubated with shaking. After 24 hours, samples were treated with 0.1% DMSO for 15 minutes or 3 hours (Mock treatments) and with 1 μM indole-3-acetic acid dissolved in DMSO for 15 minutes or 3 hours (IAA tretments). The plants were wiped on papertowels and sampled. Immediately after sampling of the plants, these plants were soaked in liquid nitrogen and stored at -80 °C. The experiment was repeated 3 times in 3 different days. Total RNA was extracted from the frozen samples using RNeasy Plant Mini Kit (Qiagen) following the protocol supplied by manufacturer. The quality of RNA was checked by 2100 Bioanalyzer system (Agilent) and 100 ng RNA of each experiment was applied to microarray analysis. The microarray analysis was carried out using Affymetrix gene 1.1 ST array strips and GeneAtlas (Affymetrix) following the protocol supplied manufacturer.
2015-01-02 | E-GEOD-58063 | biostudies-arrayexpress
Project description:Proper control of Auxin localization and accumulation are essential for leaf primordia initiation. Additionally, previous work has shown that the ERECTA family of genes also control leaf initiation. In this study we seek to understand the interaction between Auxin and the er erl2 double mutant in 3 days after germination (DAG) old seedlings. WT and mutant seedlings were either treated with IAA or mock treatments for 30 minutes. RNA was isolated and poly-A enriched strand specific libraries were constructed and paired end sequencing was carried out. The mutant showed mild, yet consistent enrichment of chloroplast and carbohydrate metabolism gene ontology terms in our mutant compared to WT. However, at 30 minutes post IAA treatment, the mutant and WT did not have significantly different responses to auxin. This indicates that the ERECTA family genes do not play a significant role in the immediate and direct response to auxin.
2022-02-25 | GSE197154 | GEO
Project description:The effects of leptin-A morpholino oligonucleotides and recombinant leptin-A on embryonic zebrafish transcriptome content were evaluated using Affymetrix 1.1 ST gene array strips.
2018-04-02 | E-MTAB-6548 | biostudies-arrayexpress
Project description:We investigated the physiological changes induced by indoleacetic acid (IAA) treatment in the totally sequenced Escherichia coli K-12 MG1655. We used DNA macroarrays to measure the mRNA levels for all the 4,290 E. coli protein-coding genes and observed that 50 genes (1.1 %) exhibited significantly different expression profiles. In particular, genes involved in the tricarboxylic acid cycle (TCA), glyoxylate shunt, and amino acid biosynthesis (leucine, isoleucine, valine and proline) were up-regulated, whereas the fermentative adhE gene was down-regulated. To confirm the indications obtained from the macroarray analysis we measured the activity of 33 enzymes involved in the central metabolism and found an activation of the TCA cycle and the glyoxylate shunt. Keywords: treatment
2006-06-01 | GSE4941 | GEO
Project description:Approximately 500 surface sterilized seeds of Arabidopsis seeds (ecotype: Col-0) were sterilely sown on filter disks overlaying solid ½ MS media 1% sucrose, stratified at 4C for 48 h and grown in darkness at 25C for 4 d. Seedlings were gently submerged by application to the plates of the different auxin solutions (made in ethanol carrier; 0.1% final concentration) and at the indicated times (20 min, 40 min, 60 min), the seedlings were lifted from the plate en mass and flash frozen in liquid nitrogen. Keywords: time-course
2003-10-12 | GSE664 | GEO
Project description:Arabidopsis thaliana (Col-0) seedlings were grown on vertically oriented agar plates and subjected to hypoxia (0.2% oxygen, 99.8% nitrogen) for 30 to 240 minutes.
2014-08-07 | GSE60133 | GEO
Project description:To gain more information about the Kyn inhibition of TAA1/TARs, we conducted a RNA-seq analysis to compare the genome-wide gene expression profiles of WT seedlings grown on MS medium or MS plus Kyn, and wei8-/- tar2+/- progeny grown on MS. We report that Kyn treatment largely mimics the loss of TAA1/TAR2 functions. RNA seq of 3 samples: Col-0 on MS medium, Col-0 on MS+Kyn medium, wei8 tar2(+/-) on MS medium.
2014-12-21 | E-GEOD-32202 | biostudies-arrayexpress
Project description:Arabidopsis seedlings (Col-0) were grown in suspension in half-strength MS medium with agitation at ~100 rpm at ~22 C under ~50 microeinsteins m-2s-1 cool white fluorescent continuous illumination as described by (Xiao et al., Plant Physiol. 2002 Dec;130(4):2118-28). Seedlings were treated at 10-12 days by addition of freshly made IAA (0.1 or 1.0uM) to each flask, and harvested after a 1 or 3 hour incubation. Controls were not treated and harvested at 0hr. All tissue harvested. Total RNA was extracted using TRIzol (Invitrogen) as described by the manufacturer and then filtered using QIAGEN RNeasy columns. cDNA was synthesized from total RNA using a Superscript double-stranded cDNA synthesis kit (Invitrogen) and a T7-dT24 primer. cRNA was synthesized using the Enzo BioArray HighYield RNA Transcript Labeling kit (Affymetrix p/n 900182) and fragmented by Mg2+ hydrolysis. 15ug per ATH1 array was hybridized overnight at 45 C. Arrays were then washed and scanned using the GeneChip FS400 fluidics station and Agilent GeneArray scanner. Images were analyzed using Affymetrix Microarray Suite 5.0, scaling to a target average intensity of 500. Spiking controls were added to the total RNA before cDNA synthesis and additional spiking samples were added to the resulting cDNA prior to cRNA synthesis.,In comparison table below:,SIGNAL_LOG_RATIO = Mean of log to base two of the experimental divided by control signal ratios across all probe pairs in a set.,CHANGE = Qualitative measurement indicating whether the probe set signal is increased (I), marginally increased (MI), not changed (NC), marginally decreased (MD), or decreased (D) as compared to a control hybridization across all probe pairs, based on a p-value calculation.,change_p-value = Measures the probability that all probe pairs in the set indicate a change, with 0 indicating strong likelyhood for increase, 0.5 indicating little probability for difference, and 1 indicating strong probability for decrease.
2007-07-10 | E-GEOD-1110 | biostudies-arrayexpress
Project description:Auxin is a drug-like small molecule and morphogen that triggers the formation of SCFTIR1/AFB-AUX/IAA co-receptor complexes leading to ubiquitylation and proteasome-dependent degradation of AUX/IAA transcriptional repressors in plants. Here, we systematically dissect auxin sensing by SCFTIR1-IAA6 and SCFTIR1-IAA19 co-receptor complexes, and assess IAA6/IAA19 ubiquitylation in vitro and IAA6/IAA19 degradation in vivo. TIR1-IAA19 and TIR1-IAA6 interactions form co-receptors with different affinities, which specify ubiquitylation and turnover rate of the AUX/IAA. We demonstrate lysine ubiquitylation in IAA6/IAA19 and propose this ubiquitylation signature to be a consequence of auxin-mediated SCFTIR1-AUX/IAA interactions. We present evidence for an evolving AUX/IAA repertoire, typified by the IAA6/IAA19 ohnologs, that contributes differentially to auxin sensing. We postulate that AUX/IAAs have emerged as a versatility toolbox for auxin-modulated transcriptional control, as the gamut of AUX/IAA destruction kinetics enables fine-tuning of transcriptional auxin response and contributes to the complexity of hormone signaling.
2017-06-14 | PXD004027 | Pride
Project description:pin1 mutnat doesn't produce any floral organs, which can be rescued by exogenous application of IAA paste. Here we applied exogenous IAA paste and collected meristem tissue after different time points (30 min, 4hr, 12hr, 16hr). As a control we applied mock paste. Around 10 meristems were dissected under dissecting scope for each biological replicate. Some known IAA inducible genes were checked for their upregulation in extracted RNA, and there after the RNA was sequenced.
2019-11-22 | GSE90167 | GEO