GEO DataSets

(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 seeds prepare for germination already during seed maturation. We performed a detailed transcriptome analysis of barley grain maturation, desiccation and germination in two tissue fractions (endosperm/aleurone = e/a and embryo = em) using the Affymetrix barley1 chip. Keywords: time course

Organism:

Hordeum vulgare

Type:

Expression profiling by array

Dataset:

GDS3419

Platform:

GPL1340

32 Samples

Download data: CEL

Analysis of pericarp, endosperm and embryo seed tissue fractions of developing and germinating grains. Plant seeds prepare for germination during the seed maturation stage. Results provide insight into the transcriptome relationships between seed maturation and germination.

Organism:

Hordeum vulgare

Type:

Expression profiling by array, count, 2 development stage, 2 other, 8 time, 3 tissue sets

Platform:

GPL1340

Series:

GSE9365

32 Samples

Download data: CEL

(Submitter supplied) Wheat seed dormancy is released by after-ripening, and germination and seminal root growth of after-ripened/non-dormant seeds can be inhibited by treatment with exogenous ABA. We used Affymetrix GeneChip Wheat Genome Array to detail transcriptional programs affected by after-ripening of dormant seeds and imbibition of after-ripened seeds in ABA.

Organism:

Triticum aestivum

Type:

Expression profiling by array

Platform:

GPL3802

21 Samples

Download data: CEL

(Submitter supplied) Germinating oilseeds convert stored lipids into sugars and thereafter in metabolic energy that is used in seedling growth and establishment. During germination, the induced lipolysis linked to the glyoxylate pathway and gluconeogenesis produces sucrose, which is then transported to the embryo and driven through catabolic routes. Herein, we report that the sunflower transcription factor HaWRKY10 regulates carbon partitioning by reducing carbohydrate catabolism and increasing lipolysis and gluconeogenesis. more...

Organism:

Helianthus annuus

Type:

Expression profiling by array

Platform:

GPL13610

6 Samples

Download data: TXT

(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) 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) 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 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) We applied the tiling arrays to study the Arabidopsis whole-genome transcriptome in aba2-1, cyp707a1-1a2-1a3-1 triple mutants seeds, embryo and endosperm tissues

Organism:

Arabidopsis thaliana

Type:

Expression profiling by genome tiling array

Platforms:

GPL10977 GPL10978

48 Samples

Download data: CEL, TXT

(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) Seed germination triggers a transition of growth and metabolic activities from quiescent to active statuses. Germinating seeds is a good system to study many biological and biochemical processes including hormone metabolic activities and cell wall biosynthesis. Next generation sequence technology is used to study these processes. We have examined gene transcription activities and alternative splicing events in germinating embryos

Organism:

Hordeum vulgare subsp. vulgare

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19798

8 Samples

Download data: FA, TXT, XLS, XLSX

(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) Purpose: A time-course transcriptome study to identify probable GA-responsive genes in soybean embryonic axes during seed germination. Methods: Seeds were germinated in the presence or absence of 200 µM PBZ. Seeds were germinated in 28°C temperature and 12/12h photoperiod (dark/light) and harvested at 12, 24 and 36 hours after imbibition (HAI). Three biological replicates were performed. Results: Identification of GA-responsive genes during germination in Glycine max.

Organism:

Glycine max

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19246

18 Samples

Download data: TXT

(Submitter supplied) In addition to the evolutionarily-conserved Ca2+ sensor, calmodulin (CaM), plants possess a large family of CaM-related proteins (CMLs). Using a cml39 loss-of-function mutant, we investigated the roles of CML39 in Arabidopsis and discovered a range of phenotypes across developmental stages and in different tissues. In mature plants, loss of CML39 results in shorter siliques, reduced seed number per silique, and reduced number of ovules per pistil. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17639

4 Samples

Download data: TXT

(Submitter supplied) As a species mostly planted in tropical and subtropical regions, rice is sensitive to chilling temperature, especially at reproductive stage. However, the effect of low temperature on seed development has not been well characterized. The transcriptome of two rice cultivars Zhonghua11 and Hanfeng were analyzed to characterize the gene regulatory networks of rice seed during low temperature treatment.

Organism:

Oryza sativa

Type:

Expression profiling by array

Platform:

GPL2025

16 Samples

Download data: CEL

(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) In depth temporal profiling of transcript changes at 10 time points during germination in Arabidopsis seed was carried out. The time course utilised, encompassed seed maturation, stratification, germination and post-germination and provided a global investigation into the tightly regulated, phasic changes that define seed germination. A previously unidentified transient expression pattern was identified for a group of genes, whereby a significant rise in abundance was observed at the end of stratification and significantly lower expression observed up to 6 hours later.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

30 Samples

Download data: CEL