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| Status |
Public on Feb 14, 2024 |
| Title |
Characterization of a novel N4 -methylcytosine restriction-modification system in Deinococcus radiodurans |
| Organism |
Deinococcus radiodurans |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Deinococcus radiodurans is an extremophilic microorganism that possesses a unique DNA damage repair system, conferring strong resistance to radiation, desiccation, oxidative stress, and chemical damage. Recently, we discovered that D. radiodurans possesses a N4-methylation (m4C) methyltransferase called M.DraR1, which recognizes the 5'-CCGCGG-3' sequence and methylates the second cytosine. Here, we revealed its cognate restriction endonuclease R.DraR1 and recognized that it is the only endonuclease specially for non-4C-methylated 5'-CCGCGG-3' sequence so far. We designated the particular m4C R.DraR1-M.DraR1 as DraI R-M system. Bioinformatics searches displayed the rarity of the DraI R-M homologues system. Meanwhile, recombination and transformation efficiency experiments demonstrated the important role of the DraI R-M system in response to oxidative stress. Besides, in vitro activity experiments showed that R.DraR1 could exceptionally cleave DNA substrates with m5C-methlated 5'-CCGCGG-3' sequence besides its routine activity, suggesting that this particular R-M component possesses a broader substrate choice. Furthermore, an imbalance of the DraI R-M system led to cell death through regulating genes involved in the maintenance of cell survival such as genome stability, transporter, energy production. Thus, our research revealed a novel m4C R-M system that plays key roles in maintaining cell viability and defending foreign DNA in D. radiodurans.
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| Overall design |
RNA-seq for KO_R.DraR1 and WT strains. All of the strains were cultured to OD600=1.0 without any stress treatment.
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| Contributor(s) |
Shi C, Wang L, Hua Y |
| Citation(s) |
38338939 |
| BioProject |
PRJNA1054005 |
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| Submission date |
Dec 20, 2023 |
| Last update date |
Feb 14, 2024 |
| Contact name |
Chenxiang Shi |
| E-mail(s) |
[email protected]
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| Organization name |
Zhejiang University
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| Street address |
Sandun Zhen Yuhangtang Road 866
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| City |
Hangzhou |
| State/province |
Zhejiang province |
| ZIP/Postal code |
1 |
| Country |
China |
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| Platforms (1) |
| GPL31018 |
Illumina NovaSeq 6000 (Deinococcus radiodurans) |
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| Samples (4)
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| Supplementary file |
Size |
Download |
File type/resource |
| GSE251690_gene_fpkm_all_samples.txt.gz |
74.2 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
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