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| Status |
Public on Apr 25, 2017 |
| Title |
Transcriptional Profiling of Biofilm Regulators Identified by an Overexpression Screen in S. cerevisiae |
| Organism |
Saccharomyces cerevisiae |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Biofilm formation by microorganisms is a major cause of recurring infections and removal of biofilms has proven to be extremely difficult given their inherent drug resistance. Understanding the biological processes that underlie biofilm formation is thus extremely important and could lead to the development of more effective drug therapies, resulting in better infection outcomes. Using the yeast S. cerevisiae as a biofilm model, overexpression screens identified DIG1, SFL1, HEK2, TOS8, SAN1 and ROF1/YHR177W as regulators of biofilm formation. Subsequent RNA-seq analysis of biofilm and non-biofilm forming strains revealed that all of the overexpression strains, other than DIG1 and TOS8, were adopting a single differential expression profile, although induced to varying degrees. TOS8 adopted a separate profile, while the expression profile of DIG1 reflected the common pattern seen in most of the strains, plus substantial DIG1-specific expression changes. We interpret the existence of the common transcriptional pattern seen across multiple, unrelated overexpression strains as reflecting a real transcriptional state, that the yeast cell can access through regulatory signaling mechanisms, allowing an adaptive morphological change between biofilm-forming and non-biofilm states.
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| Overall design |
RNA-seq from overexpression screen in yeast identifying genes whose overexpression causes a reduction in complex colony morphology.Twenty samples from strains over-expressing SAN1, TOS8, ROF1, SFL1, or HEK2. Four biological replicate samples of each strain.
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| Contributor(s) |
Cromie GA, Tan Z, Hays M, Sirr A, Jeffery EW, Dudley AM |
| Citation(s) |
28673928 |
| Submission date |
Apr 22, 2017 |
| Last update date |
Jun 27, 2019 |
| Contact name |
Aimee Dudley |
| Organization name |
PNDRI
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| Street address |
720 Broadway
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| City |
Seattle |
| State/province |
Washington |
| ZIP/Postal code |
98122 |
| Country |
USA |
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| Platforms (1) |
| GPL13821 |
Illumina HiSeq 2000 (Saccharomyces cerevisiae) |
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| Samples (20)
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| Relations |
| BioProject |
PRJNA383899 |
| SRA |
SRP104856 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE98079_counts_table.txt.gz |
520.5 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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