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Arabidopsis thaliana

ABSTRACT: Acute effects of light on alternative splicing in light-grown plants

PROVIDER: PRJNA283114 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR2008140.fastq.gz	Fastqsanger.gz
	SRR2008135.fastq.gz	Fastqsanger.gz
	SRR2008136.fastq.gz	Fastqsanger.gz
	SRR2008137.fastq.gz	Fastqsanger.gz
	SRR2008138.fastq.gz	Fastqsanger.gz

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Genome-wide survey of cold stress regulated alternative splicing in Arabidopsis thaliana

Project description:Alternative splicing plays a major role in expanding the potential informational content of eukaryotic genomes. It is an important post-transcriptional regulatory mechanism that can increase protein diversity and affect mRNA stability. Cold stress, which adversely affects plants growth and development, regulates the transcription and splicing of plants splicing factors. This affects the pre-mRNA processing of many genes. To identify cold regulated alternative splicing we applied Affymetrix Arabidopsis tiling arrays to survey the transcriptome under cold treatment conditions. Two-week old Arabidopsis seedlings grown on agar were subjected to 24 hours of cold (4Â°C) treatment under long day conditions. Control and cold-treated plants were harvested at the same time to ensure that observed differences would not be due to circadian clock effects on transcripts. Total RNA from four biological repeats were used for microarray hybridization.

2013-05-12 | E-GEOD-35996 | biostudies-arrayexpress

Circadian clock regulation of alternative splicing and alternative polyadenylation in Arabidopsis thaliana

Project description:Purpose: Circadian clock in plants temporally coordinates biological processes throughout the day synchronizing gene expression with environmental changes. Here, we examined the genome-wide circadian and diurnal control of Arabidopsis transcriptome using high throughout RNA-seq approach. Methods: Transcriptional and posttranscritional profiles were identified and characterized for Arabidopsis seedlings grown under continuous light or long-day condition (16 h light/8 h dark) for one day (each condition has two biological replicates). Results: We show that rhythmic posttranscriptional regulation is also a significant factor for genome-wide profile of circadian plant transcriptome. Two major posttranscriptioal mechanisms alternative splicing (AS) and alternative polyadenylation (APA) show circadian rhythmicity, resulting from the oscillation in the genes invovled in AS and APA. Conclusions: Arabidopsis circadian clock not only controls the transcription of genes, but also affects their posttranscriptional regulation through regulating AS and APA.

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Arabidopsis thaliana

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Genome-wide survey of cold stress regulated alternative splicing in Arabidopsis thaliana

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Arabidopsis thaliana analysis of the shade avoidance response in Col-0, rev5, and wox4 mutants

Project description:Plants were germinated in white light and then either grown in WL (white light) or far-red enriched white light (WL+FR)

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Untargeted primary metabolite profiling in Arabidopsis thaliana

Project description:The goal of this project is to compare the primary metabolite profile in different tissue types of the model plant Arabidopsis thaliana. Specifically, plants were grown hydroponically under the long-day (16hr light/day) condition at 21C. Tissue samples, including leaves, inflorescences, and roots were harvest 4 1/2 weeks post sowing. Untargeted primary metabolites profiling was carried out using GCTOF.

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Genome-wide maps of H3K27me3 states in Arabidopsis thaliana flowers.

Project description:Arabidopsis AP1-GR ap1-1 cal-1 were grown under long-day (16 h light/8 h dark) condition. After bolding (26 DAG), half of the plants were treated with dexamethasone. 31 DAG, the untreated inflorescenes were sampled as t0 and the dexamethasone treated one as t5.

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Diurnal gene expression in Arabidopsis thaliana Col-0 rosette leaves

Project description:How do the transcript levels of leaf-expressed genes change in a normal day-night cycle? The interest is in genes that are regulated by the circadian clock and the diurnal component (i.e. light, metabolite changes). Plants were grown on soil in a 12/12 h light/dark rythm at 20°C day and night. 5 weeks after germination the rosettes of the non-flowering plants were harvested, 15 plants per sample. Plants were harvested at 6 timepoints every 4 hours beginning with the end of the night (still in darkness). Keywords: repeat

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Arabidopsis thaliana

Project description:Arabidopsis thaliana cäö alternative splicing

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iTRAQ-based quantitative phosphoproteomic analysis of a prp4ka mutant in Arabidopsis thaliana

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