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| Status |
Public on Dec 01, 2021 |
| Title |
Single-Base Resolution Mapping Reveals Distinct 5-Formylcytidine in Saccharomyces cerevisiae mRNAs |
| Organism |
Saccharomyces cerevisiae |
| Experiment type |
Other
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| Summary |
5-Formylcytidine (f5C) is one type of post-transcriptional RNA modifi-cations, which is known at the wobble position of tRNA in mitochon-dria and essential for mitochondrial protein synthesis. Here, we show a method to detect f5C modifications in RNA and a transcriptome-wide f5C mapping technique, named f5C-seq. It is developed based on the treatment of pyridine borane, which can reduce f5C to 5,6-dihydrouracil (DHU), thus inducing C-to-T transition in f5C sites during PCR to achieve single-base resolution detection. Thousands of f5C sites were identified after mapping in Saccharomyces cerevisiae by f5C-seq. Moreover, codon composition demonstrated a preference for f5C within wobble sites in mRNA, suggesting the potential role in regulation of translation. These findings expand the scope of the understanding of cytosine modifications in mRNA.
Reference build: S288C_reference_genome_R64-2-1_20150113
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| Overall design |
f5C-seq performed on Saccharomyces cerevisiae cells; samples Titles with "experiment" means the mRNA was treated with pyridine borane; samples Titles with "input" means the extracted mRNA without the treatment of pyridine borane before library preparation.
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| |
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| Contributor(s) |
Wang Y, Chen Z, Zhang X, Weng X, Zhou X |
| Citation(s) |
34846122 |
| |
| Submission date |
Jun 21, 2019 |
| Last update date |
Dec 16, 2021 |
| Contact name |
Zonggui Chen |
| E-mail(s) |
chenzonggui@outlook.com
|
| Organization name |
Peking University
|
| Department |
Academy for Advanced Interdisciplinary Studies
|
| Lab |
Fuchou Tang
|
| Street address |
No.5 Yiheyuan Road Haidian District
|
| City |
Beijing |
| State/province |
Beijing |
| ZIP/Postal code |
100871 |
| Country |
China |
| |
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| Platforms (1) |
| GPL26171 |
HiSeq X Ten (Saccharomyces cerevisiae) |
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| Samples (4)
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| GSM4161112 |
Saccharomyces cerevisiae_rep1_experiment |
| GSM4161113 |
Saccharomyces cerevisiae_rep2_experiment |
| GSM4161114 |
Saccharomyces cerevisiae_rep1_input |
|
| Relations |
| BioProject |
PRJNA550080 |
| SRA |
SRP202202 |
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