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| Status |
Public on Sep 01, 2020 |
| Title |
The transcriptional elongation rate regulates alternative polyadenylation in yeast |
| Organism |
Saccharomyces cerevisiae |
| Experiment type |
Other
|
| Summary |
Yeast cells undergoing the diauxic response show a striking upstream shift in poly(A) site utilization, with increased use of ORF-proximal poly(A) sites resulting in shorter 3’ mRNA isoforms for most genes. This altered poly(A) pattern is extremely similar to that observed in cells containing Pol II derivatives with slow elongation rates. Conversely, cells containing derivatives with fast elongation rates show a subtle downstream shift in poly(A) sites. Polyadenylation patterns of many genes are sensitive to both fast and slow elongation rates, and a global shift of poly(A) utilization is strongly linked to increased purine content of sequences flanking poly(A) sites. Pol II processivity is impaired in diauxic cells, but strains with reduced processivity and normal Pol II elongation rates have normal polyadenylation profiles. Thus, Pol II elongation speed is important for poly(A) site selection and for regulating poly(A) patterns in response to environmental conditions.
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| Overall design |
mRNA isoform-specific sequencing to determine polyadenylation site usage in mutant strains and under various growth conditions
Please note that the *ABmerged_RelCountsByPosition 1 to 400.txt file was generated from both rep A and rep B samples, and is linked to the corresponding 'rep A' sample records.
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| Contributor(s) |
Geisberg JV, Moqtaderi Z, Struhl K |
| Citation(s) |
32845240, 35058367, 36421680, 38748572 |
| |
| Submission date |
May 26, 2020 |
| Last update date |
Jul 08, 2024 |
| Contact name |
Zarmik Moqtaderi |
| Organization name |
Harvard Medical School
|
| Department |
BCMP
|
| Lab |
Struhl lab
|
| Street address |
240 Longwood Avenue C2-355
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02115 |
| Country |
USA |
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| Platforms (1) |
| GPL19756 |
Illumina NextSeq 500 (Saccharomyces cerevisiae) |
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| Samples (22)
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| Relations |
| BioProject |
PRJNA635106 |
| SRA |
SRP264797 |
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