|
| Status |
Public on Feb 10, 2016 |
| Title |
Genome-wide analysis of Prz1 in fission yeast reveals a novel inhibitory role in flocculation and a conserved activating role in cell wall organization [ChIP-chip] |
| Organism |
Schizosaccharomyces pombe |
| Experiment type |
Genome binding/occupancy profiling by genome tiling array
|
| Summary |
Gene regulation in response to intracellular calcium is mediated by the calcineurin-activated transcription factor Prz1 in the fission yeast Schizosaccharomyces pombe. Genome-wide studies of the Crz1 and CrzA fungal orthologs have uncovered numerous target genes involved in conserved and species-specific cellular processes. In contrast, very few target genes of Prz1 have been published. This paper identified an extensive list of genes using transcriptome and ChIP-chip analyses under inducing conditions of Prz1, including CaCl2, and tunicamycin treatment, as well as a ∆pmr1 genetic background. We identified 165 upregulated putative target genes of Prz1 in which the majority contained a calcium-dependent response element in their promoters, similar to that of the Saccharomyces cerevisiae ortholog Crz1. These genes were functionally enriched for Crz1-conserved processes such as cell wall biosynthesis. Overexpression of prz1+ increased resistance to the cell wall degradation enzyme zymolyase, likely from upregulation of the O-mannosyltransferase encoding gene omh1+. Loss of omh1+ abrogates this phenotype. We uncovered a novel inhibitory role in flocculation for Prz1. Loss of prz1+ resulted in constitutive flocculation and upregulation of genes encoding the flocculins Gsf2 and Pfl3, as well as the transcription factor Cbf12. The constitutive flocculation of the ∆prz1 strain was abrogated by the loss of gsf2+ or cbf12+. This study reveals that Prz1 functions as a positive and negative transcriptional regulator of genes involved in cell wall biosynthesis and flocculation, respectively. Moreover, comparison of target genes between Crz1/CrzA and Prz1 indicate some conservation in DNA-binding specificity, but also substantial rewiring of the calcineurin-mediated transcriptional-regulatory network.
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| Overall design |
We generated 2 ChIP-chip experiments, each with a biological replicate performed as a dye swap.
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| Contributor(s) |
Chatfield-Reed K, Vachon L, Kwon EG, Chua G |
| Citation(s) |
26896331 |
| |
| Submission date |
Feb 09, 2016 |
| Last update date |
May 03, 2016 |
| Contact name |
Gordon Chua |
| E-mail(s) |
gchua@ucalgary.ca
|
| Phone |
403-220-7769
|
| Organization name |
University of Calgary
|
| Department |
Biological Sciences
|
| Lab |
Institute for Biocomplexity and Informatics
|
| Street address |
2500 University Drive NW
|
| City |
Calgary |
| State/province |
Alberta |
| ZIP/Postal code |
T2N 1N4 |
| Country |
Canada |
| |
|
| Platforms (1) |
| GPL16235 |
Agilent-015424 S. pombe Whole Genome ChIP-on-Chip Microarray 4x44K (Probe Name version - A_93_Pnnnn probes) |
|
| Samples (4)
|
| GSM2058742 |
prz1-HA + Calcium ChIP-chip Replicate 1 |
| GSM2058743 |
prz1-HA + Calcium ChIP-chip Replicate 2 |
| GSM2058744 |
prz1-HA + Tunicamycin ChIP-chip Replicate 1 |
| GSM2058745 |
prz1-HA + Tunicamycin ChIP-chip Replicate 2 |
|
| This SubSeries is part of SuperSeries: |
| GSE77761 |
Conserved and diverged functions of the calcineurin-activated Prz1 transcription factor in fission yeast |
|
| Relations |
| BioProject |
PRJNA311370 |
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