The AtGenExpress: Basic hormone treatment of seedlings in Arabidopsis
Ontology highlight
ABSTRACT:
ORGANISM(S): Arabidopsis thaliana
PROVIDER: GSE39384 | GEO | 2012/07/17
SECONDARY ACCESSION(S): PRJNA170760
REPOSITORIES: GEO
Similar Datasets
Project description:Arabidopsis seedlings of the wild-type or hormone mutants were treated with plant hormones. 72 samples were analyzed by Affymetrix GeneChip, ATH1
2012-07-16 | E-GEOD-39384 | biostudies-arrayexpress
Project description:Arabidopsis seedlings of the wild-type were treated with inhibitors.
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Project description:AtGenExpress: A multinational coordinated effort to uncover the transcriptome of the multicellular model organism Arabidopsis thaliana The activity of genes and their encoded products can be regulated in several ways, but transcription is the primary level, since all other modes of regulation (RNA splicing, RNA and protein stability, etc.) are dependent on a gene being transcribed in the first place. The importance of transcriptional regulation has been underscored by the recent flood of global expression analyses, which have confirmed that transcriptional co-regulation of genes that act together is the norm, not the exception. Moreover, many studies suggest that evolutionary change is driven in large part by modifications of transcriptional programs. An essential first step toward deciphering the transcriptional code is to determine the expression pattern of all genes. With this goal in mind, an international effort to develop a gene expression atlas of Arabidopsis has been underway since fall 2003. This project, dubbed AtGenExpress, is funded by the DFG, and will provide the Arabidopsis community with access to a large set of Affymetrix microarray data. As part of this collaboration, we have generated expression data from 80 biologicaly different samples in triplicate. Basic hormone treatment of seeds Experimenter name = Mikihiro Ogawa , Shinjiro Yamaguchi , Weiqiang Li , Yuji Kamiya Experimenter institute = AtGenExpress Keywords: hormone treatment
2007-01-08 | GSE5701 | GEO
Project description:Cross-regulation between hormone signalling pathways is indispensable for plant growth and development. However, the molecular mechanisms by which multiple hormones interact and co-ordinate activity are poorly understood. Here, we generated a cross-regulation network explaining how hormone signals are integrated from multiple pathways in etiolated Arabidopsis (Arabidopsis thaliana) seedlings. To do so we comprehensively characterized transcription factor activity during plant hormone responses and reconstructed dynamic transcriptional regulatory models for six hormones; abscisic acid, brassinosteroid, ethylene, jasmonic acid, salicylic acid and strigolactone/karrikin. These models incorporated target data for hundreds of transcription factors coupled with thousands of protein-protein interactions. Each hormone recruited different combinations of transcription factors, a subset of which were shared between hormones. Hub target genes existed within hormone transcriptional networks, exhibiting transcription factor activity themselves. A group of MITOGEN-ACTIVATED PROTEIN KINASES were also identified as potential key points of cross-regulation between multiple hormones. Loss of functional MPK6 disrupted the global proteome and phosphoproteome, and transcriptome in the response to hormones. Finally, we determined that all hormones drive substantial alternative splicing that has distinct effects on the transcriptome compared with differential gene expression, acting in early hormone responses. These results provide a comprehensive understanding of the common features of plant transcriptional regulatory pathways and how cross-regulation between hormones acts upon gene expression.
2023-04-06 | GSE220957 | GEO
Project description:Brassinosterioids (BRs) are plant hormones known to regulate many processes such as growth and development. However, how plants respond termporally BR signaling is not as well understaood. Thus, the goal of this study was to determine the temporal transcriptional changes in Arabidopsis seedlings treated with brassinolide. We determined differentially expressed genes at each time point to see how the plant response to BR evolves over time.
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Project description:Transcriptional profiling of Arabidopsis thaliana seedlings treated with safranal, highlighting to the physiological function of plant volatile chemicals by observing early response of gene expressions in Arabidopsis seedlings.
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Project description:Arabidopsis seedlings of the wild-type were treated with inhibitors. 60 samples were analyzed by Affymetrix GeneChip, ATH1. Sample correspondence between control (mock) and inhibitor treatment is described in brackets (F series or G series).
2012-07-16 | E-GEOD-39385 | biostudies-arrayexpress
Project description:AtGenExpress: A multinational coordinated effort to uncover the transcriptome of the multicellular model organism Arabidopsis thaliana; The activity of genes and their encoded products can be regulated in several ways, but transcription is the primary level, since all other modes of regulation (RNA splicing, RNA and protein stability, etc.) are dependent on a gene being transcribed in the first place. The importance of transcriptional regulation has been underscored by the recent flood of global expression analyses, which have confirmed that transcriptional co-regulation of genes that act together is the norm, not the exception. Moreover, many studies suggest that evolutionary change is driven in large part by modifications of transcriptional programs. An essential first step toward deciphering the transcriptional code is to determine the expression pattern of all genes. With this goal in mind, an international effort to develop a gene expression atlas of Arabidopsis has been underway since fall 2003. This project, dubbed AtGenExpress, is funded by the DFG, and will provide the Arabidopsis community with access to a large set of Affymetrix microarray data. As part of this collaboration, we have generated expression data from 80 biologicaly different samples in triplicate. Basic hormone treatment of seeds; Experimenter name = Mikihiro Ogawa , Shinjiro Yamaguchi , Weiqiang Li , Yuji Kamiya; Experimenter institute = AtGenExpress Experiment Overall Design: 12 samples were used in this experiment
2008-06-14 | E-GEOD-5701 | biostudies-arrayexpress
Project description:We were interested in investigating the transcriptome responses to exogenous applications of brassinosteroid hormone when Arabidopsis seedlings are pre-stressed with a reactive oxygen species, hydrogen peroxide. We were interested in seeing which subsets of BR-responsive gene transcripts were most affected and how BR-responsive gene transcripts responded to increasing concentrations of hydrogen peroxide both as a whole and individually. Liquid culture Arabidopsis seedlings are grown under standard conditions. Hydrogen peroxide is added at various concentrations to pre-stress the seedlings. Following this pretreatment, the seedlings are then treated with brassinosteroid (BR) hormone (epi-brassinolide, BL). Following this treatment, seedlings are harvested and total RNA is extracted for genome-wide transcriptome analysis.
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