The transcriptional elongation rate regulates alternative polyadenylation in yeast
Abstract
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.
Data availability
Sequencing data has been deposited in GEO under accession code GSE151196
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Transcriptional elongation rate regulates alternative polyadenylation in yeastNCBI Gene Expression Omnibus, GSE151196.
Article and author information
Author details
Funding
National Institutes of Health (GM 30186)
- Joseph V Geisberg
- Zarmik Moqtaderi
- Kevin Struhl
National Institutes of Health (GM 131801)
- Joseph V Geisberg
- Zarmik Moqtaderi
- Kevin Struhl
The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.
Reviewing Editor
- Eric J Wagner, University of Texas Medical Branch at Galveston, United States
Version history
- Received: June 9, 2020
- Accepted: August 25, 2020
- Accepted Manuscript published: August 26, 2020 (version 1)
- Version of Record published: October 2, 2020 (version 2)
Copyright
© 2020, Geisberg et al.
This article is distributed under the terms of the Creative Commons Attribution License permitting unrestricted use and redistribution provided that the original author and source are credited.
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