GEO DataSets

(Submitter supplied) Dormant grapevine buds from 4 genotypes were collected over a variable time series after being exposed to growth room temperatures. Buds were collected from the field during winter and assessed for the loss of cold hardiness (deacclimation) in tandem with analysis of gene expression changes. DEGs are examined for various enriched pathways. Wild grapevines deacclimate faster than cultivated grapevines and the entire gene regulation cascade was also faster in wild grapevines. more...

Organism:

Vitis amurensis; Vitis riparia; Vitis vinifera

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL26020 GPL26019 GPL18580

189 Samples

Download data: TXT

(Submitter supplied) We used Illumina RNA-Seq technology to carry out digital gene expression profiling of Dormant and non dormant buds of Shine Muscat Cultivar.127 pathways were annotated by Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis, and metabolic, biosynthesis of secondry metabolite and. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis demonstrated that DEGs were involved in various metabolic processes, including phytohormone metabolism. more...

Organism:

Vitis vinifera

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18740

3 Samples

Download data: TXT

(Submitter supplied) During low temperature exposure, temperate plant species increase their freezing tolerance in a process termed cold acclimation. During deacclimation in response to warm temperatures cold acclimated plants lose freezing tolerance and resume growth and development. While considerable effort has been directed toward understanding the molecular and metabolic basis of cold acclimation, much less information is available about the regulation of deacclimation. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL17416

21 Samples

Download data: CEL

(Submitter supplied) We report the RNAseq technologies for high-throughput profiling of accessible chromatin regions and differentially expressed genes after cold treatment in Vitis amurensis, respectively. By combining the RNAseq results, we built putative transcriptional regulatory networks involving in cold responses in grape, and found some new transcription factors that may participate in cold responses in grape.

Organism:

Vitis amurensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25790

6 Samples

Download data: FPKM_TRACKING, TXT

(Submitter supplied) We report the Assay for Transposase-Accessible Chromatin with sequencing (ATAC-seq) for high-throughput profiling of accessible chromatin regions after cold treatment in Vitis amurensis

Organism:

Vitis amurensis

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL25790

6 Samples

Download data: BED

(Submitter supplied) To gain the possible direct or indirect targets of VaAQUILO, RNA-Seq was carried out on three biological replicates of wild-type and 3 transgenic Arabidopsis lines mixture (#1, #2 and #3) under normal and cold treatment conditions (Based on the distribution of samples in a first PCA plot, the two most similar replicates per condition were considered for further statistical analyses) .

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24025

4 Samples

Download data: TXT

(Submitter supplied) Salt tolerance in grapevine is associated with the exclusion of chloride ions (Cl–) from the shoot. The rate-limiting step for this process has been identified as the passage of Cl– between the root symplast and the xylem apoplast through membrane integral proteins. To identify candidate genes for these proteins we used a custom microarray to compare the root transcriptomes of three grapevine varieties (Vitis spp.) that differ in their capacity to exclude Cl– from shoots. more...

Organism:

Vitis cinerea var. helleri x Vitis rupestris; Vitis x champinii x Vitis riparia; Vitis vinifera

Type:

Expression profiling by array

Platform:

GPL18706

22 Samples

Download data: TXT

(Submitter supplied) Bud endodormancy induction response of two genotypes (‘Seyval’ a hybrid white wine grape and V. riparia, PI588259 a native north american species) was compared under long and short photoperiod. Three separate replicates (5 plants/replicate) were treated in each of 2 separate years (2007 and 2008) to generate paradormant (LD) and same aged endodormancy-induced (SD) buds for transcriptomic, proteomic and metabolomic analysis. more...

Organism:

Vitis riparia; Vitis vinifera; Vitis hybrid cultivar

Type:

Expression profiling by array

Platform:

GPL1320

167 Samples

Download data: CEL