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| Status |
Public on Apr 07, 2023 |
| Title |
RNA-DNA interactome of a prokaryotic cell uncovered by proximity ligation |
| Organisms |
Escherichia coli; Bacillus subtilis; Thermofilum adornatum |
| Experiment type |
Other
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| Summary |
We used one of the RNA-DNA proximity ligation approaches, RedC, for the analysis of an RNA-DNA interactome of microbial cells. We assess the distribution of main RNA types — mRNA, tRNA and rRNA — along the genomes of E.coli, B.subtilis, and thermophilic archaea T. adornatum.
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| Overall design |
The RedC experimental protocol for mapping RNA-DNA interactions is based on formaldehyde fixation of RNA-protein-DNA complexes in vivo followed by ligation of RNA and DNA fragments present in one nucleoprotein complex via a biotinylated bridge adapter with a subsequent identification of ligated fragments using a paired end sequencing
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| Contributor(s) |
Gavrilov AA, Evko GS, Tyakht AV |
| Citation(s) |
37120653 |
| |
| Submission date |
Jul 27, 2022 |
| Last update date |
May 02, 2023 |
| Contact name |
Grigory Evko |
| E-mail(s) |
evko.grigory@gmail.com
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| Phone |
+79189668455
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| Organization name |
Institute of Gene Biology of the Russian Academy of Sciences
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| Lab |
Laboratory of Structural and Functional Organization of Chromosomes
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| Street address |
Vavilova str., 34/5
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| City |
Moscow |
| ZIP/Postal code |
119334 |
| Country |
Russia |
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| Platforms (3) |
| GPL25368 |
Illumina NovaSeq 6000 (Escherichia coli) |
| GPL30886 |
Illumina NovaSeq 6000 (Bacillus subtilis) |
| GPL32512 |
Illumina NovaSeq 6000 (Thermofilum adornatum) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA862901 |
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