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| Status |
Public on Sep 17, 2010 |
| Title |
Coeevolution of a transcriptional network by compensatory trans and cis mutations |
| Organisms |
Saccharomyces cerevisiae; Nakaseomyces glabratus |
| Experiment type |
Genome binding/occupancy profiling by genome tiling array
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| Summary |
Transcriptional networks have been shown to evolve very rapidly, prompting questions as to how such changes arise and are tolerated. Recent comparisons of transcriptional networks across species have implicated variations in the cis-acting DNA sequences near genes as the main cause of divergence. What is less clear is how these changes interact with trans-acting changes occurring elsewhere in the genetic circuit. Here, we report the discovery of a system of compensatory trans and cis mutations in the yeast AP-1 transcriptional network that allows for conserved transcriptional regulation despite continued genetic change. We pinpoint a single species, the fungal pathogen Candida glabrata, in which a trans mutation has occurred very recently in a single AP-1 family member distinguishing it from its Saccharomyces ortholog. Comparison of chromatin immunoprecipitation profiles between Candida and Saccharomyces shows that, despite their different DNA binding domains, the AP-1 orthologs regulate a conserved block of genes. This conservation is enabled by concomitant changes in the cis-regulatory motifs upstream of each gene. Thus, both trans and cis mutations have perturbed the yeast AP-1 regulatory system in such a way as to compensate for one another. This demonstrates an example of “co-evolution” between a DNA-binding transcription factor and its cis-regulatory site, reminiscent of the co-evolution of protein binding partners.
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| Overall design |
3 Experiments were performed. Three replicates CgAp1-TAP was ChIPped under MMS treatment (GSM397447..GSM397449), two replicates each of ScYap1R79K and ScYap4K252R (GSM594724..GSM594727), were ChIPped under MMS treatment.
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| Contributor(s) |
Kuo D |
| Citation(s) |
20978140 |
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| Submission date |
Apr 24, 2009 |
| Last update date |
Sep 07, 2013 |
| Contact name |
Dwight Kuo |
| Organization name |
UCSD
|
| Department |
Bioengineering
|
| Lab |
Trey Ideker
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| Street address |
9500 Gilman Dr.
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093 |
| Country |
USA |
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| Platforms (2) |
| GPL8477 |
UCSD/Ideker Candida glabrata 44k v1.0 (13568) |
| GPL10930 |
Agilent-014810 Yeast Whole Genome ChIP-on-Chip Microarray 4x44K (G4493A) [Probe Name version] |
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| Samples (7)
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| Relations |
| BioProject |
PRJNA116737 |
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