GEO DataSets

(Submitter supplied) The goal of this experiment was to investigate the early transcript changes (6h) induced by hypoxia treatment in mesophyll protoplasts. A single pair (control & hypoxia) of GeneChips® was used to confirm that hypoxia treatment altered the expression of an overlapping set of genes controlled by KIN10 (At3g01090) in Arabidopsis mesophyll protoplasts. Keywords: KIN10, KIN11, darkness, hypoxia, starvation, stress, sugar signalling, Arabidopsis, SnRK1

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

2 Samples

Download data: CEL

(Submitter supplied) The goal of this experiment was to explore the extent of KIN10 (At3g01090) transcriptional regulation and identify its early target genes in Arabidopsis mesophyll protoplasts. Results suggest that KIN10 targets a remarkably broad array of genes that orchestrate transcription networks, promote catabolism and autophagy, and suppress anabolism and ribosome biogenesis. The transient expression condition ruled out secondary or long-term effects of metabolism and growth, and circumvented experimental limitations caused by redundancy and embryonic lethality observed in mammals and plants. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Dataset:

GDS2953

Platform:

GPL198

4 Samples

Download data: CEL

Analysis of mesophyll protoplasts following transcriptional induction of the KIN10 (At3g01090) kinase. Results provide insight into the function of KIN10.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array, count, 2 protocol sets

Platform:

GPL198

Series:

GSE8257

4 Samples

Download data: CEL

(Submitter supplied) Time course of Arabidopsis seedlings treated with 6-Benzyl adenine dissolved in diluted KOH for 15 min or 2 hours Keywords: other

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

13 Samples

Download data

(Submitter supplied) Testing the consequences of the absence of the chromatin-associated HMGB1 protein on the transcriptome in Arabidopsis. Keywords: Comparison of mutant and wildtype samples.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL6177

1 Sample

Download data: TXT

(Submitter supplied) 3 weeks old aseptically grown WT and loss-of-function lines of SnRK1s (transgenic SnRK1α1 T-DNA insertion mutant line crossed with an estradiol inducible amiRNA construct targeting SnRK1α2) and group S1 bZIPs (bZIP1/bZIP53 T-DNA insertion mutant line crossed with an estradiol inducible amiRNA construct simultaneously targeting bZIP2, bZIP11 and bZIP44) were cultivated for 6h under extended night. Total RNA was extracted from whole seedlings and used for RNAseq library preparation.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11221

12 Samples

Download data: XLSX

(Submitter supplied) We show that the catalytic a subunits KIN10 and KIN11 of the Arabidopsis thaliana SnRK1 complex interact with the STOREKEEPER RELATED 1/G-element Binding Protein (STKR1) inside the plant cell nucleus. Overexpression of STKR1 in transgenic Arabidopsis plants led to reduced growth, a delay in flowering and strongly attenuated senescence. At the global transcriptome level, genes affected by STKR1 overexpression were broadly associated with systemic acquired resistance and transgenic plants showed enhanced resistance towards a virulent strain of the biotrophic oomycete pathogen Hyaloperonospora arabidopsidis Noco2.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL24085

24 Samples

Download data: TXT

(Submitter supplied) Global transcriptome patterns were obtained from ATAF1-IOE seedlings at 1 h, 2 h and 5 h after estradiol induction or mock treatment, and from mature ATAF1-IOE leaves at 5 h after estradiol induction or mock treatment.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

8 Samples

Download data: CEL, CHP

(Submitter supplied) The goal of this experiment was to explore the molecular network of glucose-TOR signaling in Arabidopsis seedling autotrophic transition stage. We used the whole-genome microarrays to detail the global program of gene expression mediated by glucose and TOR.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

12 Samples

Download data: CEL, TXT

(Submitter supplied) Endosomal trafficking plays integral roles in various eukaryotic cell activities. In animal cells, a member of the RAB GTPase family, RAB5, is a key regulator of various endosomal functions. In addition to orthologs of animal RAB5, plants harbor the plant-specific RAB5 group, the ARA6 group, which is conserved in land plant lineages. In Arabidopsis thaliana, ARA6 and conventional RAB5 act in distinct endosomal trafficking pathways; ARA6 mediates trafficking from endosomes to the plasma membrane, whereas conventional RAB5 acts in endocytic and vacuolar trafficking pathways. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL17416

6 Samples

Download data: CEL

(Submitter supplied) This study profiles transcriptomic changes of Arabidopsis thaliana Col-0 in response to submergence. This dataset includes CEL files, RMA signal values and MAS5 P/M/A calls from total mRNA populations of plants at 9 to 10 leaf rosette stage. Biological replicates of root and shoot tissues were harvested after 7 h and 24 h of submergence in darkness along with corresponding non-submerged dark controls. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

20 Samples

Download data: CEL

(Submitter supplied) In order to elucidate transcriptional and metabolic networks associated with Lys metabolism, we utilized developing seeds as a system in which Lys synthesis could be stimulated developmentally without application of chemicals and coupled this to a T-DNA insertion knockout mutation impaired in Lys catabolism. This seed-specific metabolic perturbation stimulated Lys accumulation starting from the initiation of storage reserve accumulation. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

12 Samples

Download data: CEL

(Submitter supplied) The intention of these gene expression analysis was to study host responses to an infection with Agrobacterium tumefaciens at different stages of crown gall development. Therefore the transcriptome of infected inflorescence stalk tissue and mature crown galls of Arabidopsis thaliana (WS-2) was determined of three different time points. These were compared with the transcriptome of mock-infected inflorescence stalk tissue (reference) of the same age. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

32 Samples

Download data: CEL

(Submitter supplied) This study focuses on responses of the host plant to infection and transformation with Agrobacterium tumefaciens. Genome wide changes in gene expression were integrated with the alterations in metabolite levels six days after inoculation of agrobacteria. Plants were infected with the virulent strain C58, harboring a T-DNA, or with strain GV3101, containing a disarmed Ti-plasmid. This allows discrimination between signals which derive from the bacterial pathogen and the T-DNA encoded genes.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

9 Samples

Download data: CEL

(Submitter supplied) This study focuses on responses of the host plant to infection with Agrobacterium tumefaciens. Genome wide changes in gene expression were integrated with the alterations in metabolite levels three hours after inoculation of agrobacteria. Plants were infected with the virulent strain C58, harboring a T-DNA, or with strain GV3101, containing a disarmed Ti-plasmid. This allows discrimination between signals which derive from the bacterial pathogen and the T-DNA encoded genes.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

15 Samples

Download data: CEL

(Submitter supplied) This study describes physiological changes, morphological adaptations and the regulation of pathogen defense responses in Arabidopsis crown galls. Crown gall development was induced on intact plants under most natural conditions with Agrobacterium tumefaciens. Differential gene expression and the metabolite pattern was determined by comparing crown galls with mock-inoculated inflorescence stalk segments of the same age.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

8 Samples

Download data: CEL

(Submitter supplied) Arabidopsis seedlings were treated with DPI, pentamidine isethionate, tyrphostin AG879, AEG3482 or DMSO (control) at dawn (ZT0). Samples were collected for mRNA-seq for untreated seedlings at ZT0 or treated seedlings at ZT2.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21785

18 Samples

Download data: TXT

(Submitter supplied) rs05-05_atrazine - effect of atrazine and sucrose on arabidopsis transcriptome - Growth in the presence of sucrose was shown to confer to Arabidopsis thaliana seedlings, under conditions of in vitro culture, a very high level of tolerance to the herbicide atrazine and to other photosynthesis inhibitors (Sulmon et al., 2004). The CATMA investigation will be useful to reveal the gene networks implicated in the mechanisms of xenobiotics tolerance. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL4346

12 Samples

Download data: GPR

(Submitter supplied) We performed DNase-seq on root tissue, root epidermal cell types, seed coat epidermal cells at two developmental stages, and open and closed flowers.

Organism:

Arabidopsis thaliana

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL13222

17 Samples

Download data: BED, BW, TXT

(Submitter supplied) We mapped DNaseI hypersensitive sites (DHSs) and applied genomic footprinting to define in vivo transcription factor (TF) occupancy at nucleotide resolution across the A. thaliana genome in whole seedlings during heat- and light-response states. We find that trait-associated variation localizes within DHSs, and that extensive TF occupancy within protein-coding exons has shaped A. thaliana codon usage. more...

Organism:

Arabidopsis thaliana

Type:

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

Platform:

GPL13222

20 Samples

Download data: BW, TXT