|
| Status |
Public on Dec 06, 2022 |
| Title |
Operon complexity in Rhodobacter capsulatus revealed by integration of dRNA-seq and RNA-seq data |
| Organisms |
Rhodobacter capsulatus SB 1003; Rhodobacter capsulatus DE442 |
| Experiment type |
Expression profiling by high throughput sequencing
Other
|
| Summary |
We report a complex operon architecture for R. capsulatus: operons with multiple TSSs and TTSs, genomic regions of high transcriptional activity and novel transcripts. In addition, we present a new 5' and 3' targeted sequencing method for the Ion Torrent PGM. TEX+ and TEX- indicates if the dRNA-seq library was treated with Terminator 5'-Phosphate-Dependent Exonuclease or not. Treatment with TEX degrades every RNA that does not have a 5'-PPP.
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| |
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| Overall design |
Prediction of transcriptional units and analysis of operon complexity
|
| Web link |
https://research.library.mun.ca/13765/1/thesis.pdf
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| |
|
| Contributor(s) |
Grüll MP, Peña-Castillo L, Mulligan ME, Lang AS |
| Citation missing |
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| |
| Submission date |
Jul 23, 2018 |
| Last update date |
Dec 06, 2022 |
| Contact name |
Marc Patrick Grüll |
| E-mail(s) |
[email protected]
|
| Organization name |
Memorial University of Newfoundand
|
| Department |
Biology
|
| Lab |
Andrew S. Lang
|
| Street address |
230 Elizabeth Ave
|
| City |
St John's |
| State/province |
Newfoundland |
| ZIP/Postal code |
A1B 3X9 |
| Country |
Canada |
| |
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| Platforms (2) |
| GPL25364 |
Ion Torrent PGM (Rhodobacter capsulatus DE442) |
| GPL25365 |
Ion Torrent PGM (Rhodobacter capsulatus SB 1003) |
|
| Samples (18)
|
| GSM3302727 |
PGM-102: DE442_TEXminus_5prime_dRNA-seq |
| GSM3302728 |
PGM-101: DE442_TEXplus_5prime_dRNA-seq |
| GSM3302729 |
PGM-112: DE442_TEXminus_5prime_dRNA-seq |
|
| Relations |
| BioProject |
PRJNA482408 |
| SRA |
SRP154909 |
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