|
| Status |
Public on Jun 04, 2012 |
| Title |
Comparative Profiling of Pseudomonas aeruginosa Strains Reveals Differential Expression of Novel Unique and Conserved Small RNAs |
| Organism |
Pseudomonas aeruginosa |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
Pseudomonas aeruginosa is a highly adaptable bacterium which thrives in a broad range of ecological niches and can infect multiple hosts as diverse as plants, nematodes and mammals. In humans, it is an important opportunistic pathogen. This wide adaptability correlates with its broad genetic diversity. In this study, we used a deep-sequencing approach to explore the complement of small RNAs (sRNAs) in P. aeruginosa as the number of such regulatory molecules previously identified in this organism is relatively low, considering its genome size, phenotypic diversity and adaptability. We have performed a comparative analysis of PAO1 and PA14 strains which share the same host range but differ in pathogenicity, PA14 being considerably more virulent in several model organisms. Altogether, we have identified more than 150 novel candidate sRNAs and validated a third of them by Northern blotting. Interestingly, a number of these novel sRNAs are strain-specific or showed strain-specific expression, strongly suggesting that they could be involved in determining specific phenotypic traits.
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| Overall design |
2 cDNA samples (enriched for different size ranges ) from each of two strains of Pseudomonas aeruginoasa (PAO1 and PA14) were sequenced with the Roche 454 technology
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| Contributor(s) |
Horner DS, Ferrara S, Dehò G, Briani F, Brugnoli M, De Bonis A, Delvillani F, Righetti F, Bertoni G |
| Citation(s) |
22590564 |
| |
| Submission date |
Mar 07, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
David Stephen Horner |
| E-mail(s) |
david.horner@unimi.it
|
| Phone |
+39 02 503 14884
|
| Organization name |
Università degli Studi di Milano
|
| Department |
Molecular Biosciences and Biotechnology
|
| Lab |
Bioinformatics, Evolution and Comparative Genomics
|
| Street address |
Via Celoria 26
|
| City |
Milano |
| State/province |
MI |
| ZIP/Postal code |
20133 |
| Country |
Italy |
| |
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| Platforms (1) |
| GPL15322 |
454 GS FLX Titanium (Pseudomonas aeruginosa) |
|
| Samples (4)
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| Relations |
| SRA |
SRP011370 |
| BioProject |
PRJNA153301 |
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