|
| Status |
Public on Apr 16, 2022 |
| Title |
RNA sequencing unveils very small RNAs with potential regulatory functions in bacteria |
| Organisms |
Legionella pneumophila; Staphylococcus aureus; synthetic construct; Salmonella enterica subsp. enterica serovar Typhimurium; Pseudomonas aeruginosa PAO1; Pseudomonas aeruginosa PA7; Escherichia coli str. K-12 substr. MG1655 |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
RNA sequencing (RNA-seq) is the gold standard for the discovery of small non-coding RNAs. Following a long-standing approach, reads shorter than 16 nucleotides (nt) are removed from the small RNA sequencing libraries or datasets. The serendipitous discovery of a 12 nt-long RNA species capable of modulating the microRNA from which they derive prompted us to challenge this dogma, and by expanding the window of RNA sizes down to 8 nt, to confirm the existence of functional very small RNAs (vsRNAs <16nt). Here we report the profiling of vsRNAs in Escherichia coli (with different experimental conditions), E. coli-derived outer membrane vesicles (OMVs) and five other bacterial strains (Pseudomonas aeruginosa PA7, P. aeruginosa PAO1, Salmonella Typhimurium 14028S, Legionella pneumophila JR32 Philadelphia-1 and Staphylococcus aureus HG001).
|
| |
|
| Overall design |
We analyzed by small RNA-seq the 8- to 30-nt window of RNA length of the gram-negative E. coli MG1655 model organism and 5 other bacterial strains (P. aeruginosa PA7, P. aeruginosa PAO1, S. Typhimurium 14028S, L. pneumophila JR32 Philadelphia-1 and S. aureus HG001).
|
| |
|
| Contributor(s) |
Diallo I, Lalaouna D, Massé E, Provost P |
| Citation(s) |
35720117, 36108089 |
| |
| Submission date |
Apr 13, 2022 |
| Last update date |
Oct 24, 2022 |
| Contact name |
Patrick PROVOST |
| E-mail(s) |
patrick.provost@crchudequebec.ulaval.ca
|
| Organization name |
CRCHU of Québec City - Université LAVAL
|
| Department |
Centre Hospitalier de l'Université Laval (CHUL) - Microbiology, Infectious diseases, Immunology
|
| Lab |
PROVOST LAB
|
| Street address |
2705 , Boulevard Laurier, Bloc T
|
| City |
Quebec |
| State/province |
QUEBEC |
| ZIP/Postal code |
G1V4G2 |
| Country |
Canada |
| |
|
| Platforms (7)
|
| GPL19424 |
Illumina NextSeq 500 (synthetic construct) |
| GPL21117 |
Illumina NextSeq 500 (Escherichia coli str. K-12 substr. MG1655) |
| GPL21220 |
Illumina NextSeq 500 (Salmonella enterica subsp. enterica serovar Typhimurium) |
| GPL23999 |
Illumina NextSeq 500 (Pseudomonas aeruginosa PAO1) |
| GPL24034 |
Illumina NextSeq 500 (Staphylococcus aureus) |
| GPL32162 |
Illumina NextSeq 500 (Legionella pneumophila) |
| GPL32163 |
Illumina NextSeq 500 (Pseudomonas aeruginosa PA7) |
|
| Samples (12)
|
|
| Relations |
| BioProject |
PRJNA826503 |
Less...
More...