Aoyama et al. 2024 (PRJDB16373)
General Details
| Title | Impact of translational regulation on diel expression revealed by time-series ribosome profiling in Arabidopsis |
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| Organism | Arabidopsis thaliana |
| Number of Samples | 12 |
| Release Date | 2024/03/21 00:00 |
| Sequencing Types | |
| Protocol Details |
Study Links
| GWIPS-viz | Trips-Viz | RiboCrypt |
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Repository Details
| SRA | DRP011320 |
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| ENA | DRP011320 |
| GEO | |
| BioProject | PRJDB16373 |
Publication
| Title | |
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| Authors | Aoyama H,Arae T,Yamashita Y,Toyoda A,Naito S,Sotta N,Chiba Y |
| Journal | The Plant journal : for cell and molecular biology |
| Publication Date | 2024 Mar 17 |
| Abstract | Plants have developed the ability to adjust to the day/night cycle through the expression of diel genes, which allow them to effectively respond to environmental changes and optimise their growth and development. Diel oscillations also have substantial implications in many physiological processes, including photosynthesis, floral development, and environmental stress responses. The expression of diel genes is regulated by a combination of the circadian clock and responses to environmental cues, such as light and temperature. A great deal of information is available on the transcriptional regulation of diel gene expression. However, the extent to which translational regulation is involved in controlling diel changes in expression is not yet clear. To investigate the impact of translational regulation on diel expression, we conducted Ribo-seq and RNA-seq analyses on a time-series sample of Arabidopsis shoots cultivated under a 12 h light/dark cycle. Our results showed that translational regulation is involved in about 71% of the genes exhibiting diel changes in mRNA abundance or translational activity, including clock genes, many of which are subject to both translational and transcriptional control. They also revealed that the diel expression of glycosylation and ion-transporter-related genes is mainly established through translational regulation. The expression of several diel genes likely subject to translational regulation through upstream open-reading frames was also determined. © 2024 Society for Experimental Biology and John Wiley & Sons Ltd. |
| PMC | |
| PMID | 38494830 |
| DOI |
| Run Accession | Study Accession | Scientific Name | Cell Line | Library Type | Treatment | GWIPS-viz | Trips-Viz | RiboCrypt | Reads | BAM | BigWig (F) | BigWig (R) | ||
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| DRR495762 | PRJDB16373 | Arabidopsis thaliana | Ribo-Seq |  |
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| DRR495763 | PRJDB16373 | Arabidopsis thaliana | Ribo-Seq | |
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| DRR495764 | PRJDB16373 | Arabidopsis thaliana | Ribo-Seq | |
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| DRR495765 | PRJDB16373 | Arabidopsis thaliana | Ribo-Seq | |
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| DRR495766 | PRJDB16373 | Arabidopsis thaliana | Ribo-Seq | |
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| DRR495767 | PRJDB16373 | Arabidopsis thaliana | Ribo-Seq | |
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| DRR495768 | PRJDB16373 | Arabidopsis thaliana | Ribo-Seq | |
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| DRR495769 | PRJDB16373 | Arabidopsis thaliana | Ribo-Seq | |
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| DRR495770 | PRJDB16373 | Arabidopsis thaliana | Ribo-Seq | |
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| DRR495771 | PRJDB16373 | Arabidopsis thaliana | Ribo-Seq | |
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| DRR495772 | PRJDB16373 | Arabidopsis thaliana | Ribo-Seq | |
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| DRR495773 | PRJDB16373 | Arabidopsis thaliana | Ribo-Seq | |
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| Run Accession | Study Accession | Scientific Name | Cell Line | Library Type | Treatment | GWIPS-viz | Trips-Viz | RiboCrypt | Reads | BAM | BigWig (F) | BigWig (R) |
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