GEO DataSets

(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) It has been known that ABA INSENSITIVE 5 (ABI5) plays a vital role in regulating seed germination. In the present experiment, we showed that 3-amino-1,2,4-triazole (3-AT) inhibits seed germination of the loss-of-function mutant abi5-1, but promotes seed germination of the ABI5-overexpression transgenic line, and that ABI5 affects reactive oxygen species (ROS) homeostasis. RNA-sequencing analysis indicates that the transcription of the genes involved in ROS metabolic process or genes responsive to ROS stress is impaired in abi5-1 seeds. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17639

6 Samples

Download data: XLSX

(Submitter supplied) The effect of ahg1 and ahg3 on the gene expression profiles is similar but some genes are differentially affected. Keywords: Strain Comparison

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

8 Samples

Download data: CEL

(Submitter supplied) In response to environmental light signals, transcriptomic adjustment plays an important role in Arabidopsis seed germination and seedling development. G-box cis-element is commonly present in promoters of genes positively or negatively responding to the light signal. For the pursuit of additional transcriptional regulator modulating light-mediated transcriptome changes, we have identified AtbZIP16, a basic region/leucine zipper motif transcription factor, via G-box DNA affinity chromatography. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

12 Samples

Download data: CEL

(Submitter supplied) Maternal environment is an important regultor of seed dormancy, but the mechanisms underlying the process are poorly understood. We have found that genes in the circadian clock control dormancy, in part through their regulation of the canonical photoperiod pathway known from research into flowering time control. In this experiment we compare the affects of altering seed maturation temperature or maternal photoperiod on dry seed transcriptomes, and the photoperiod-insenstive ft-1 mutant to wt type Ler. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

12 Samples

Download data: CEL

(Submitter supplied) To shed light on the genetic events downstream of DELLA proteins, we have employed a microarray expression profiling of Arabidopsis thaliana seeds to identify target genes of the DELLA protein RGL2. Seeds of the germinating ga1-3 rga-t2 rgl2-1 and the non-germinating ga1-3 rga-t2 mutant were stratified, and RNA was extracted after five days. Transcript profiles of the non-germinating seeds closely resemble profiles of dormant seeds, and several transcription factors involved in light- and phytohormone-regulated signalling pathways appear to be up-regulated, suggesting that RGL2 controls various physiological aspects to inhibit seed germination.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL12621

4 Samples

Download data: TXT

(Submitter supplied) To understand how the NF-YC-RGL2 complex functions in repressing seed germination, a genome-wide transcriptomic analysis was carried out using germinating seeds of rgl2, nf-ycT and the wild-type (Col) grown on the medium containing 5 µM PAC and Col grown on mock treatment. Basing on the criteria of 1.5-fold cutoff for the genes with 5% false discovery rate, we first identified the differentially expressed genes in Col_PAC vs Col_mock, nf-ycT_PAC vs Col_PAC, and rgl2_PAC vs Col_PAC subsets, which are referred to as PAC-, NF-YC-, and RGL2-regulated genes.These data reveal that NF-YCs and RGL2 co-target a set of common genes in response to phytohormone signals, strongly supporting the role of NF-YC-RGL2 in seed germination regulation.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13222

12 Samples

Download data: TXT

(Submitter supplied) The control of seed germination and seed dormancy are critical for the successful propagation of plant species, and are important agricultural traits. Seed germination is tightly controlled by the balance of gibberellin (GA) and abscisic acid (ABA), and is influenced by environmental factors. The COP9 Signalosome (CSN) is a conserved multi-subunit protein complex that is best known as a regulator of the Cullin-RING family of ubiquitin E3 ligases (CRLs). more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13222

24 Samples

Download data: DIFF

(Submitter supplied) Gene expression profiles in 15 day old low oil 1 (loo1) mutant and the wild type A15 seedlings were compared. Keywords: Comparison and loo1 and wild type seedling transcriptomes

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL5081

1 Sample

Download data: GPR

(Submitter supplied) An Arabidopsis mutant showing an altered ability to green on illumination after extended periods of darkness has been isolated in a screen for genomes uncoupled (gun) mutants. Following illumination for 24 h, 10-day-old dark-grown mutant seedlings accumulated 5 times more chlorophyll than wild-type seedlings and this was correlated with differences in plastid morphology observed by transmission electron microscopy. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Dataset:

GDS3535

Platform:

GPL198

6 Samples

Download data: CEL, CHP

Analysis of ged1 mutant seedlings grown for 5 days in the dark followed by 2 days in the light. The ged1 mutant showed an enhanced ability to green on illumination after prolonged darkness. Results provide insight into the molecular basis of the enhanced greening ability of ged1 seedlings.

Organism:

Arabidopsis thaliana

Type:

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

Platform:

GPL198

Series:

GSE12401

6 Samples

Download data: CEL, CHP

(Submitter supplied) Analysis of barley grains/seedlings representing six well characterized and distinct germination stages over the course of seed germination and seedling growth.

Organism:

Hordeum vulgare

Type:

Expression profiling by array

Platform:

GPL1340

18 Samples

Download data: CEL

(Submitter supplied) Plant hormone brassinosteroids (BRs) and abscisic acids (ABA) antagonistically regulate many aspects of plant growth and responses. This study analyzes the molecular mechanisms by which regulate the crosstalk between BR and ABA signaling.Various BR deficient and gain-of-function signaling mutants were used to analyze their responses to ABA inhibited primary root growth. RNA sequencing was performed to identify the ABA regulated root genes that are also regulated by BR signaling components.Our result demonstrated that BR signaling negative regulates plant ABA response, and the crosstalk is mediated by BIN2 and BZR1. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13222

8 Samples

Download data: XLS

(Submitter supplied) To understand how endosperm and embryo perceive temperature signals to control seed vigour in Brassica oleracea, we grow plants in 16°C till bent-cotyledon stage, which is a key stage sensing temperature. Then plants were either transferred to 26°C or kept in 16°C. Endosperm/seed coat and embryo RNA samples were collected for RNA-seq at day0, day1, day3, day7, day18 and day22. Further, RNA-seq was also performed in imbibed seeds matured in 16°C and 26°C, at 1 hour, 24 hours and 72 hour after imbibition.

Organism:

Brassica oleracea

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16360

107 Samples

Download data: CSV

(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

Download data

(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

Download data

(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

Download data

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

Download data

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

Download data

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

Download data