GEO DataSets

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

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Other

Platform:

GPL17639

51 Samples

Download data: BED, BW

(Submitter supplied) Arabidopsis noncoding RNA HID1 acts as a positive regulator to promote phyB-mediated seed germination by modulating the biosynthesis of abscisic acid.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17639

27 Samples

Download data: TXT

(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) 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) 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) 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) PIL5 is a key negative regulator of phytochrome mediated seed germination and PIL5 protein is degraded by red light irradiation through phytochrome. The ChIP-chip analysis aimed to find various PIL5 direct targets in the Arabidopsis genome.

Organism:

Arabidopsis thaliana

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL8080

3 Samples

Download data: TXT

(Submitter supplied) PIL5 is a key negative regulator of phytochrome mediated seed germination and PIL5 protein is degraded by red light irradiation through phytochrome. The microarray aimed to find various red light-regulated genes and PIL5-regulated genes in the imbibed seeds. Keywords: genetic modification

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

12 Samples

Download data: CEL

(Submitter supplied) The molecular mechanism of seed morphophysiological dormancy of Epimedium pseudowushanense B.L.Guo. remains largely unknown. The endogenous ABA and GA content of E. pseudowushanense seeds at three developmental stages was quantitatively determined. The result showed the levels of ABA in E. pseudowushanense seeds decreased during the seed embryo growing and development, levels of GA3 increased during seed embryo growing, and levels of GA4 increased during seed dormancy releasing and seed sprouting. more...

Organism:

Epimedium pseudowushanense

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21619

3 Samples

Download data: FA, TXT

(Submitter supplied) The goal of this study was to compare the transcriptional profile (RNA-seq) of imbibed Arabidopsis thaliana Columbia-0 ecotype seeds that were treated with a 20 min red or far red pulse. The red-light pulse induces germination.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19080

6 Samples

Download data: TAB

(Submitter supplied) The seed germination in response to light shows natural variation in two accessions of Aethionema arabicum (Brassicaceae). One accession from Turkey (TUR) germinates well in darkness and light, while another closely related accession from Cyprus (CYP) germinates only in the dark. To understand the transcriptional differences between the two accession, we performed RNA-seq analysis from imbibed seeds, which were kept either in darkness or under light for 23 hours. more...

Organism:

Aethionema arabicum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26124

12 Samples

Download data: XLSX

(Submitter supplied) The low phytic acid trait in soybeans can be conferred by loss-of-function mutations in genes encoding myo-inositol phosphate synthase and two epistatically interacting genes encoding multidrug-resistance protein ABC transporters. However, perturbations in phytic acid biosynthesis are associated with poor seed vigor. Since the benefits of the low phytic acid trait, in terms of end-use quality and sustainability, far outweigh the negatives associated with poor seed performance, a fuller understanding of the molecular basis behind the negatives will assist crop breeders and engineers in producing variates with low phytic acid and better germination rate. more...

Organism:

Glycine max

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL21998 GPL28801

72 Samples

Download data: TXT