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| Status |
Public on May 20, 2024 |
| Title |
A systematic screen identifies Saf5 as a link between splicing and transcription in fission yeast |
| Organism |
Schizosaccharomyces pombe |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Splicing is an important step of gene expression regulation in eukaryotes, as there are many mRNA precursors that can be alternatively spliced in different tissues, at different cell cycle phases or under different external stimuli. We have developed several life constructs that allow the quantification of fission yeast splicing in vivo on intact cells, and we have compared their splicing efficiency in a wild type strain and in a prp2-1 (U2AF65) genetic background, showing a clear dependency between Prp2 and a consensus signal at 5’ splicing site (5’SS). To isolate novel genes involved in regulated splicing, we have crossed the reporter containing the weakest splicing rate with the Schizosaccharomyces pombe knock out collection. Among the candidate genes involved in the regulation of splicing, we have detected strong splicing defects in two of the mutants (Δcwf12 and Δsaf5), both of them related to the NineTeen Complex (NTC). We have identified that strains with mutations in cwf12 have inefficient splicing, mainly when the 5’SS differs from the consensus. However, although Δsaf5 cells also have some dependency on 5’SS sequence, we noticed that when one intron of a given pre-mRNA was affected, the rest of the introns of the same pre-mRNA had high probabilities of being also affected. This observation points Saf5 as a link between transcription rate and splicing.
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| Overall design |
Gene expression profiling using RNA-seq obtained from a wild-type, and saf5 and cwf12 deleted strains
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| Contributor(s) |
Sonia B, Montserrat V, Susanna B, Elena H, Stefan H, Jose A |
| Citation missing |
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| Submission date |
Sep 05, 2023 |
| Last update date |
May 20, 2024 |
| Contact name |
Montserrat Vega |
| E-mail(s) |
montserrat.vega@upf.edu
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| Organization name |
Universitat Pompeu Fabra
|
| Department |
MELIS
|
| Lab |
OSCCG
|
| Street address |
C/ Dr. Aiguader 88, lab 383
|
| City |
Barcelona |
| State/province |
Barcelona |
| ZIP/Postal code |
08003 |
| Country |
Spain |
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| Platforms (1) |
| GPL30658 |
NextSeq 2000 (Schizosaccharomyces pombe) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA1013087 |
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