GEO DataSets

(Submitter supplied) Background: Over application of phosphate fertilizers in modern agriculture contaminates waterways and disrupts natural ecosystems. Nevertheless, this is a common practice among farmers, especially in developing countries as abundant fertilizers are believed to boost crop yields. The study of plant phosphate metabolism and its underlying genetic pathways is key to discovering methods of efficient fertilizer usage. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by genome tiling array

Platform:

GPL10977

18 Samples

Download data: CEL, TXT

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

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array; Expression profiling by genome tiling array

Platforms:

GPL198 GPL10977

36 Samples

Download data: CEL

(Submitter supplied) Background: Over application of phosphate fertilizers in modern agriculture contaminates waterways and disrupts natural ecosystems. Nevertheless, this is a common practice among farmers, especially in developing countries as abundant fertilizers are believed to boost crop yields. The study of plant phosphate metabolism and its underlying genetic pathways is key to discovering methods of efficient fertilizer usage. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

18 Samples

Download data: CEL

(Submitter supplied) We performed a transcriptomic analysis of Pi starvation responses in Arabidopsis thaliana (Columbia-0) phr1 mutant plants expressing PHR1 in presence of cicloheximide, that inhibit protein translation, thus preventing any effect of PHR1 on the expression of indirect targets. Results show the primary target genes of PHR1 in the responses to Pi starvation.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

6 Samples

Download data: CEL

(Submitter supplied) We performed a transcriptomic analysis of Pi starvation responses in Arabidopsis thaliana (Columbia-0) wild type plants under phosphate starvation stress and in plants with altered PHR1(-like) activity, comparing mutants of phr1 and phr1-phl1 grown in phosphate-lacking medium. Results show the central role of PHR1 and functionally redundant members of its family in the control of transcriptional responses to Pi starvation.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

24 Samples

Download data: CEL

(Submitter supplied) In this study, we have identified genes that are respectively activated and repressed by the low concentration of ABA and show that ROP10 gates a specific subset of genes that are responsive only to a low ABA concentration. Keywords: Whole seedlings of wild-type (Ws) and the mutant (rop10-1) treated with or without ABA

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Dataset:

GDS1723

Platform:

GPL198

12 Samples

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Analysis of small GTPase rop10-1 knockout mutant seedlings following treatment with 1 uM abscisic acid (ABA). ROP10 is involved in the negative regulation of ABA responses. Results provide insight into the mechanisms underlying the regulation of the ROP10-mediated ABA signaling network.

Organism:

Arabidopsis thaliana

Type:

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

Platform:

GPL198

Series:

GSE3454

12 Samples

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(Submitter supplied) gnp06-01_agriarray - multiplexage : dual-target hybridization microarray experiment - Several factors affect today a more extended use of microarrays for research and as a diagnosis tool. These factors are the experimental cost, the reproducibility of the measurements and the format of the analyses. This project aims at bringing solutions in these three domains by optimizing multiplexed analyses in order to reduce cost and enhance the number of samples treated simultaneously; by proposing new couples flurophores / slide surface in order to increase the signal precision and by developing new applications such as Comparative Genomic Hybridization (GGH) or Promoter Arrays to bring the plant microarray beyond transcriptome analyses. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL6403

94 Samples

Download data: GPR

(Submitter supplied) gnp06-01_agriarray - nitrogen starvation - Several factors affect today a more extended use of microarrays for research and as a diagnosis tool. These factors are the experimental cost, the reproducibility of the measurements and the format of the analyses. This project aims at bringing solutions in these three domains by optimizing multiplexed analyses in order to reduce cost and enhance the number of samples treated simultaneously; by proposing new couples flurophores / slide surface in order to increase the signal precision and by developing new applications such as Comparative Genomic Hybridization (GGH) or Promoter Arrays to bring the plant microarray beyond transcriptome analyses. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL6403

4 Samples

Download data: GPR

(Submitter supplied) gnp3-b4_nitrogen_starvation - nitrogen starvation and re-supply - What are the transcriptomic short- and long-term plant responses to nitrogen starvation and nitrogen re-supply? - WS Arabidopsis ecotype were grown on 6mM nitrate as sole nitrogen source during 35 days under short days . At T0, plants were then starved for nitrate for 10 days and root and shoot samples were harvested separately 2 and 10 days after treatment (T2, T10). more...

Organism:

Arabidopsis thaliana; Brassica napus

Type:

Expression profiling by array

Platform:

GPL4346

72 Samples

Download data: GPR

(Submitter supplied) Soil salinity increasingly causes crop losses worldwide. Although roots are the primary targets of salt stress, the signaling networks that facilitate metabolic reprogramming to induce stress tolerance are less understood than those in leaves. Here, a combination of transcriptomic and metabolic approaches was performed in salt-treated Arabidopsis thaliana roots, which revealed that the group S1 basic leucine zipper transcription factors bZIP1 and bZIP53 reprogram primary C- and N-metabolism. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

24 Samples

Download data: CEL

(Submitter supplied) Plant responses to abiotic stresses are accompanied by massive changes in transcriptome composition. To provide a comprehensive view of stress-induced changes in the Arabidopsis thaliana transcriptome, we have used whole-genome tiling arrays to analyze the effects of salt, osmotic, cold and heat stress as well as application of the hormone abscisic acid (ABA), an important mediator of stress responses.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by genome tiling array

Platform:

GPL1980

39 Samples

Download data: CEL

(Submitter supplied) Phosphate (Pi) deficiency triggers the differential expression of a large set of genes, which communally adapt the plant to low Pi bioavailability. To infer functional modules in early transcriptional responses to Pi deficiency, we conducted time-course microarray experiments and subsequent coexpression-based clustering of Pi-responsive genes by pairwise comparison of a large number of genes against a customized data base.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Dataset:

GDS3896

Platform:

GPL198

24 Samples

Download data: CEL, TXT

Analysis of roots from plants grown in the absence of phosphate (Pi) for up to 24 hrs. Pi deficiency-induces the formation of root hairs with increased length and density. Results provide insight into molecular mechanisms involved in acclimating plants to low Pi availability.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array, transformed count, 2 growth protocol, 4 time sets

Platform:

GPL198

Series:

GSE25171

24 Samples

Download data: CEL

(Submitter supplied) In order to study the improtance of HSFA6b in salt and heat stresses of arabidopsis, we generated the HSFA6b-overexpression (HSFA6b-OE) and dominant-negative (HSFA6b-RD) mutant lines. We used microarray to investigate how genes regulated by HSFA6b after NaCl or heat shock treatment.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

18 Samples

Download data: CEL, TXT

(Submitter supplied) Fourteen days plants growth under hydroponic +P condition (200 μM) were treated under –P (no phosphate) condition for another 7 days, shoot of plants from 3 biological repeats were sampled for Affymetrix microarray analysis. We used microarrays to detail the global programme of gene expression underlying -Pi condition among WT and mutants of phr1, phr3 and triple mutant of phr1phr2phr3.

Organism:

Oryza sativa

Type:

Expression profiling by array

Platform:

GPL2025

12 Samples

Download data: CEL

(Submitter supplied) We sequenced the poly(A)+ and poly(A)- samples of the roots and shoots from 10-day-old WT seedlings grown under P+ and P- condition. The WT plant refers to Columbia ecotype Arabidopsis seedlings. Each condition has two replicates. After total RNA extraction, ribosomal RNAs were removed using RiboMinus™ Plant Kit repeated two times. The poly(A)+ and poly(A)- constituent were separated with oligo(dT) magnetic beads (Oligotex mRNA Mini Kit, QIAGEN). more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL13222 GPL17639

16 Samples

Download data: XLSX

(Submitter supplied) We analyzed global transcriptional changes in both shoots and roots of root-flooded Arabidopsis seedlings by microarrays. We also interpreted the significance of the systemic communication between roots and shoots by functional classification of affected genes. We performed genetic analysis with an ethylene signaling mutant, ein2-5, to correlate systemic flooding responses with ethylene signaling. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL7480

64 Samples

Download data: GPR

(Submitter supplied) Background: The unprecedented rise in atmospheric CO2 concentration and injudicious fertilization or heterogeneous distribution of Mg in the soil warrant further research to understand the synergistic and holistic mechanisms involved in the plant growth regulation. The objective of this work is to understand responses in plants along with interactive effect of elevated CO2 and Mg levels by comparing data on single stress with that of combined stresses. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17639

24 Samples

Download data: TXT

(Submitter supplied) Background The combination of high-throughput transcript profiling and next-generation sequencing technologies is a prerequisite for genome-wide comprehensive transcriptome analysis. Our recent innovation of deepSuperSAGE is based on an advanced SuperSAGE protocol and its combination with massively parallel pyrosequencing on Roche’s 454 sequencing platform. As a demonstration of the power of this combination, we have chosen the salt stress transcriptomes of roots and nodules of the third most important legume crop chickpea (Cicer arietinum L.). more...

Organism:

Cicer arietinum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11675

4 Samples

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