GEO DataSets

Analysis of dark-grown Col phytochrome mutants given 1 hour of white light to induce germination, followed by 3 days in darkness. Phytochromes mediate a profound developmental shift upon light exposure. Results reveal signaling network paths between photoreceptors and target developmental genes.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array, count, 4 genotype/variation sets

Platform:

GPL198

Series:

GSE3038

8 Samples

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(Submitter supplied) Phytochromes mediate a profound developmental shift when dark-grown seedlings are exposed to light. Here we show that a subset of genes is up regulated in phytochrome B (phyB) mutants even before dark-grown seedlings are exposed to light. Most of these genes bear the RY cis motif, which is a binding site of the transcription factor ABSCISIC ACID INSENSITIVE 3 (ABI3), and the phyB mutation also enhanced ABI3 expression. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Dataset:

GDS1704

Platform:

GPL198

8 Samples

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(Submitter supplied) Phytochromes mediate a profound developmental shift when dark-grown seedlings are exposed to light. Here we show that a subset of genes is up regulated in phytochrome B (phyB) mutants even before dark-grown seedlings are exposed to light. Most of these genes bear the RY cis motif, which is a binding site of the transcription factor ABSCISIC ACID INSENSITIVE 3 (ABI3), and the phyB mutation also enhanced ABI3 expression. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Dataset:

GDS1702

Platform:

GPL198

4 Samples

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(Submitter supplied) Phytochromes mediate a profound developmental shift when dark-grown seedlings are exposed to light. Here we show that a subset of genes is up regulated in phytochrome B (phyB) mutants even before dark-grown seedlings are exposed to light. Most of these genes bear the RY cis motif, which is a binding site of the transcription factor ABSCISIC ACID INSENSITIVE 3 (ABI3), and the phyB mutation also enhanced ABI3 expression. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Dataset:

GDS1703

Platform:

GPL2598

4 Samples

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Analysis of dark grown Ler seedlings mutant for phytochromes A and B, or cryptochromes cry1 and cry2, or both. Results provide insight into the structure of the signaling network between the photoreceptor families and the target developmental genes that respond to light.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array, count, 4 genotype/variation sets

Platform:

GPL2598

Series:

GSE2919

4 Samples

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Analysis of dark-grown Col phytochrome mutants given 1 hour of white light to induce germination, followed by 3 days in darkness. Phytochromes mediate a profound developmental shift upon light exposure. Results reveal signaling network paths between photoreceptors and target developmental genes.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array, count, 2 genotype/variation sets

Platform:

GPL198

Series:

GSE3002

4 Samples

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(Submitter supplied) Two aspects of light are very important for plant development: the length of the light phase or photoperiod and the quality of incoming light. Photoperiod detection allows plants to anticipate the arrival of the next season, whereas light quality, mainly the red to far-red ratio (R:FR), is an early signal of competition by neighbouring plants. phyB represses flowering by antagonising CO at the transcriptional and post-translational levels. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

12 Samples

Download data: CEL

(Submitter supplied) We analysed the transcriptome of dry seeds (the end product of seed maturation) of three genotypes with different DOG1 expression levels. These included the WT Ler (low DOG1 expression), the near isogenic line NILDOG1-Cvi (strong DOG1 expression) and the non-dormant dog1-1 mutant (absence of DOG1 expression). NILDOG1-Cvi is the Ler WT containing an introgression of the Cvi accession on chromosome 5, which includes the DOG1 gene (Bentsink et al., 2006). more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

9 Samples

Download data: CEL

(Submitter supplied) Etiolated seedling response to one hour of continuous red light. Four-day-old dark-grown wild-type RLD and phyA101, phyB1 and phyAphyB mutant seedlings were transferred to Rc (680 nm, 8 mol m-2 s-1) for 1 h or retained in darkness as controls. Three different biological replicates of each treatment were grown separately and extracted, processed, and analyzed independently.RNA was extracted and subjected to expression analysis by using the Affymetrix ATH1 microarray containing approximately 22,000 Arabidopsis genes .

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

24 Samples

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(Submitter supplied) our analysis uncovered the role of histone deacetylation in light-regulated seed germination process and identified that HDA15-PIF1 as a key repression module directing the transcription network of seed germination

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13222

6 Samples

Download data: TXT

(Submitter supplied) Red light can affect a variety of responses in Arabidopsis. We characterize the early gene expression patterns of roots exposed to 1 hour of red light. Early genes indicate elements involved in photomorphogenesis, chloroplast development, PAL pathways, root hair development are regulated by 1 hour of red light We used microarrays to detail the gene expression underlying the effects of red light on roots. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Dataset:

GDS2260

Platform:

GPL198

6 Samples

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Analysis of roots of seedlings exposed for 1hr to red light. Acting through phytochromes, red light controls many aspects of plant development. Many red-light signalling events have been identified in aerial portions of the plant. Results provide insight into red light-signalling elements in roots.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array, count, 2 agent sets

Platform:

GPL198

Series:

GSE4933

6 Samples

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(Submitter supplied) Seedling hypocotyls display negative gravitropism in the dark but agravitropism in the light. The Arabidopsis thaliana pif quadruple mutant (pifQ), which lacks four PHYTOCHROME-INTERACTING FACTORS (PIFs), is agravitropic in the dark. Endodermis-specific expression of PIF1 rescues gravitropism in pifQ mutant seedlings. Since phytochromes induce light responses by inhibiting PIFs and the COP1-SPA ubiquitin E3 ligase complex in the nucleus, we asked whether phyB can cell autonomously inhibit hypocotyl negative gravitropism in the endodermis. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL12621

8 Samples

Download data: TXT, XLSX

(Submitter supplied) During seed maturation, the embryo accumulates nutrition storage compounds such as oil and reservve proteins, and acquires dormancy and desiccation tolerance. Arabidopsis transcription factors LEC1, LEC2, FUS3 and ABI3 are known as the master regulators of seed maturation because all these events during the seed maturation are severely affected by the respective mutants. In addition, the lec1, lec2 and fus3 mutants exhibit some heterochronic characteristics, as exemplified by the development of true leaf-like cotyledons during embryogenesis. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

30 Samples

Download data: CEL

(Submitter supplied) To study the transcriptomic profile of wt and brc1 mutant axillary buds during the shade avoidance response, we simulated a canopy shade with a low R/FR light ratio. We treated plants with white light supplemented with far-red light (Red light = 29 μeinstein · m-2 seg-1, Far-Red light= 146 μeinstein · m-2 seg-1) for 8 hours. Control plants were left for 8 hours in white light (Red light = 29 μeinstein · m-2 seg-1, Far-Red light= 2.2 μeinstein · m-2 seg-1) .

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL9020

12 Samples

Download data: GPR

(Submitter supplied) rs09-09_della-dark - della-regulation in darkness versus light - Identification of DELLA-dependent downstream targets in darkness - Aim was to determine downstream target of DELLA proteins involved in skotomorphogenesis. Wt, ga1-3, ga1-3_rga_gai_rgl1_rgl2_rgl3 global seeds were sterilized, sown on MS agar plates then put for stratification for 3 days at 4°C. Plates were placed in growth cabinet at 22°C for 5 days in darkness or in continous light. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL9553

18 Samples

Download data: GPR

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array; Genome binding/occupancy profiling by genome tiling array; Genome binding/occupancy profiling by array

5 related Platforms

40 Samples

Download data: TXT

(Submitter supplied) ABI3 is a key regulator of seed development in Arabidopsis and other plants.To identify DNA fragments (promoters) bound by ABI3 we performed array based ChIP analysis.

Organism:

Arabidopsis thaliana

Type:

Genome binding/occupancy profiling by array

Platforms:

GPL14941 GPL14942

20 Samples

Download data: TXT

(Submitter supplied) ABI3 is a key regulator of seed development in Arabidopsis and other plants.To identify DNA fragments(promoters) bound by ABI3 we performed array based ChIP analysis.

Organism:

Arabidopsis thaliana

Type:

Genome binding/occupancy profiling by genome tiling array

Platforms:

GPL4148 GPL4147

4 Samples

Download data: TXT

(Submitter supplied) ABI3 is a key regulator of seed development in Arabidopsis and other plants.To identify genes regulated by ABI3 we performed array based transcriptome analysis of Dexamethasone inducible ABI3 transgenic seedlings. ABI3 mostly in concert with abscisic acid (ABA) was found to activate genes specifically expressed during the maturation phase of seed development.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL12621

16 Samples

Download data: TXT