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| Status |
Public on Jun 11, 2019 |
| Title |
The Paf1 complex broadly impacts the transcriptome of Saccharomyces cerevisiae |
| Organism |
Saccharomyces cerevisiae |
| Experiment type |
Expression profiling by genome tiling array
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| Summary |
The polymerase associated factor 1 complex (Paf1C) is a multifunctional epigenetic regulator of RNA polymerase II (Pol II) transcription. Paf1C controls gene expression by stimulating the placement of co-transcriptional histone modifications, influencing nucleosome occupancy in coding regions, facilitating transcription termination, and regulating nuclear export of RNAs. In this study, we investigate the extent to which these functions of Paf1C combine to influence the Saccharomyces cerevisiae transcriptome. Using conditions that enrich for unstable transcripts, we show that deletion of PAF1 affects all classes of Pol II-transcribed RNAs including multiple classes of noncoding transcripts. Gene ontology analysis revealed that mRNAs encoding genes involved in iron and phosphate homeostasis were differentially affected by deletion of PAF1. We further investigated these two groups of mRNAs with the goal of identifying overarching mechanisms of up and down-regulation in cells lacking Paf1. Our results indicate that only a subset of the observed changes result from loss of Paf1C-promoted histone modifications. We also found that transcription of the FET4 gene is differentially regulated by Paf1 and an upstream CUT. Together these data highlight the complexity of the epigenetic regulation of Pol II transcription imposed by Paf1C and identify a role for Paf1C in promoting CUT transcription.
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| Overall design |
Four yeast strains were tested and arrays were performed in triplicate
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| Contributor(s) |
Ellison MA, Lederer AR, Warner MH, Mavrich T, Heisler LE, Gebbia M, Nislow C, Lee MT, Arndt KM |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Nov 19, 2018 |
| Last update date |
Jun 13, 2019 |
| Contact name |
Karen M. Arndt |
| Organization name |
University of Pittsburgh
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| Department |
Biological Sciences
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| Lab |
A311 Langley Hall
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| Street address |
4249 Fifth Avenue
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| City |
Pittsburgh |
| State/province |
Pennsylvania |
| ZIP/Postal code |
15260 |
| Country |
USA |
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| Platforms (1) |
| GPL19774 |
[Scerevisiae_tlg] Affymetrix Saccharomyces cerevisiae tiling array |
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| Samples (12)
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| Relations |
| BioProject |
PRJNA506041 |
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