|
| Status |
Public on Aug 11, 2023 |
| Title |
Profiling tRNA modifications in Mycobacterium tuberculosis |
| Organisms |
Escherichia coli; Mycobacterium tuberculosis |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
Diverse chemical modifications fine-tune the function and metabolism of tRNA. Although tRNA modification is universal in all kingdoms of life, profiles of modifications, their functions, and physiological roles have not been elucidated in most organisms including the human pathogen, Mycobacterium tuberculosis (Mtb), the causative agent of tuberculosis. To identify physiologically important modifications, we surveyed the tRNA of Mtb, using tRNA sequencing (tRNA-seq). Reverse transcription-derived error signatures in tRNA-seq predicted the sites and presence of 9 modifications. Several chemical treatments prior to tRNA-seq expanded the number of predictable modifications. Deletion of Mtb genes encoding two modifying enzymes, TruB and MnmA, eliminated their respective tRNA modifications, validating the presence of modified sites in tRNA species.
|
| |
|
| Overall design |
High-throughput sequencing of tRNA fractions from Escherichia coli and Mycobacterium tuberculosis was performed using Illumina miSeq. To detect specific tRNA modifications, two chemical treatments (IAA and CMC treatments) were conducted prior to sequencing.
|
| |
|
| Contributor(s) |
Tomasi FG, Kimura S, Rubin EJ, Waldor MK |
| Citation(s) |
37755167 |
| |
| Submission date |
Aug 06, 2023 |
| Last update date |
Oct 03, 2023 |
| Contact name |
Satoshi Kimura |
| E-mail(s) |
s.kimura.res@gmail.com
|
| Organization name |
Brigham and Women's Hospital
|
| Lab |
Waldor Lab
|
| Street address |
181 Longwood Avenue
|
| City |
Boston |
| State/province |
Massachusetts |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platforms (2) |
| GPL16085 |
Illumina MiSeq (Escherichia coli) |
| GPL19272 |
Illumina MiSeq (Mycobacterium tuberculosis) |
|
| Samples (12)
|
|
| Relations |
| BioProject |
PRJNA1002795 |
Less...
More...