Ontology highlight
ABSTRACT:
PROVIDER: PRJNA743899 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR15043744_1.fastq.gz | Fastqsanger.gz | |||
| SRR15043744_2.fastq.gz | Fastqsanger.gz | |||
| SRR15043745_1.fastq.gz | Fastqsanger.gz | |||
| SRR15043745_2.fastq.gz | Fastqsanger.gz | |||
| SRR15043746_1.fastq.gz | Fastqsanger.gz |
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Project description:The influence of light on living organisms is critical, not only because of its importance as the main source of energy for the biosphere, but also due to its capacity to induce changes in the behaviour and morphology of nearly all forms of life. The common soil fungus Trichoderma atroviride responds to blue-light in a synchronized manner, in time and space, by forming a ring of green conidia at what had been the colony perimeter at the time of exposure (photoconidiation). The complex putatively formed by the BLR-1 and BLR-2 proteins in T. atroviride appears to play an essential role as a sensor and transcriptional regulator in photoconidiation. Expression analyses using microarrays containing 1438 unigenes were carried out in order to identify early light response genes. We found that 2.8% of the genes were light responsive, 2% induced and 0.8% repressed. Exposure of Trichoderma to continuous light allowed us to establish that the light responsive genes are subjected to photoadaptation. Expression analysis in blr deletion mutants allowed us to demonstrate the occurrence of two types of light responses, a blr-independent response in addition to the expected brl-dependent one, as well as a new role of the BLR proteins in repression of transcription. Finally, we show evidence of red light regulated gene expression. Keywords: Light Response, microarrays
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Project description:Aim of the experiment is the identification of regulatory genes rapidly induced by low R/FR and still up-regulated after prolonged exposure to FR-rich light. To this end, gene expression changes were analysed in Arabidopsis thaliana seedlings after exposure to low R/FR light for a short and a long period of time. The experiment was designed to enable comparison between treated and untreated Arabidopsis seedlings.
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Project description:Light is one of the main environmental cues that affects the physiology and behavior of many organisms. The effect of light on genome-wide transcriptional regulation has been well-studied in green algae and plants, but not in red algae. Cyanidioschyzon merolae is used as a model red algae, and is suitable for studies on transcriptomics because of its compact genome with a relatively small number of genes. In addition, complete genome sequences of the nucleus, mitochondrion, and chloroplast of this organism have been determined. Together, these attributes make C. merolae an ideal model organism to study the response to light stimuli at the transcriptional and the systems biology levels. Previous studies have shown that light significantly affects cell signaling in this organism, but there are no reports on its blue light- and red light-mediated transcriptional responses. We investigated the direct effects of blue and red light at the transcriptional level using RNA-seq. Blue and red light were found to regulate 35% of the total genes in C. merolae. Blue light affected the transcription of genes involved protein synthesis while red light specifically regulated the transcription of genes involved in photosynthesis and DNA repair. Blue or red light regulated genes involved in carbon metabolism and pigment biosynthesis. Overall, our data showed that red and blue light regulate the majority of the cellular, cell division, and repair processes in C. merolae. Identification of blue light and red light regulated genes by deep sequencing in biological duplicates. qRT-PCR was performed to verify the RNA-seq results.
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