The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden...
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![Page 1: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/1.jpg)
The Frequency Dependence of Osmo-Adaptation in Saccharomyces cerevisiae
Alexander van Oudenaarden Lab
20.309 Final Presentation
Mashaal Sohail
Emily Suter
![Page 2: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/2.jpg)
Motivation
Cells respond to stimuli using complicated systems of biochemical reactions
Systems may comprise of hundreds of reactions
Interest in determining dominant processes that dictate system dynamics
![Page 3: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/3.jpg)
Hog1 MAPK Pathway
High-Osmolarity Glycerol (HOG) Mitogen-Activated Protein Kinase (MAPK) pathway in budding yeast Saccharomyces cerevisiae
o Core pathway of the hyperosmotic shock response
![Page 4: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/4.jpg)
Hog1 MAPK Pathway
High-Osmolarity Glycerol (HOG) Mitogen-Activated Protein Kinase (MAPK) pathway in budding yeast Saccharomyces cerevisiae
o Core pathway of the hyperosmotic shock response
cell
Hog1
nucleus
![Page 5: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/5.jpg)
Hog1 MAPK Pathway
High-Osmolarity Glycerol (HOG) Mitogen-Activated Protein Kinase (MAPK) pathway in budding yeast Saccharomyces cerevisiae
o Core pathway of the hyperosmotic shock response
high osmolarity
solution
![Page 6: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/6.jpg)
Hog1 MAPK Pathway
High-Osmolarity Glycerol (HOG) Mitogen-Activated Protein Kinase (MAPK) pathway in budding yeast Saccharomyces cerevisiae
o Core pathway of the hyperosmotic shock response
![Page 7: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/7.jpg)
Hog1 MAPK Pathway
High-Osmolarity Glycerol (HOG) Mitogen-Activated Protein Kinase (MAPK) pathway in budding yeast Saccharomyces cerevisiae
o Core pathway of the hyperosmotic shock response
![Page 8: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/8.jpg)
Hog1 MAPK Pathway
High-Osmolarity Glycerol (HOG) Mitogen-Activated Protein Kinase (MAPK) pathway in budding yeast Saccharomyces cerevisiae
o Core pathway of the hyperosmotic shock response
![Page 9: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/9.jpg)
Experimental Setup
![Page 10: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/10.jpg)
Experimental Setup
![Page 11: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/11.jpg)
Experimental Setup
![Page 12: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/12.jpg)
Experimental Setup
![Page 13: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/13.jpg)
Fourier analysis approximates output signal as sin curve
![Page 14: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/14.jpg)
Linear time invariant model predicts system response to input signal
Hog1 Response to Single NaCl Step
![Page 15: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/15.jpg)
Pulsed-input analysis corresponds to biological network
![Page 16: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/16.jpg)
Hog1-dependent feedback loop plays major role in rapid response
Hog1 Response to Single NaCl Step
![Page 17: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/17.jpg)
Gene expression facilitates response to osmotic shocks on longer time scales
Resp
onse
R(t
)
time [min]
Inhibited Hog1 ExpressionWild Type
![Page 18: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/18.jpg)
Significance/Conclusions
Showed that Hog1 MAPK pathway is governed
by two different response time scales
Demonstrated use of frequency-response
analysis on cellular networks
Utilized engineering principles to predict the
response of dynamic stimuli
![Page 19: The Frequency Dependence of Osmo- Adaptation in Saccharomyces cerevisiae Alexander van Oudenaarden Lab 20.309 Final Presentation Mashaal Sohail Emily Suter.](https://reader035.fdocuments.us/reader035/viewer/2022062802/56649ebe5503460f94bc899c/html5/thumbnails/19.jpg)
Significance/Conclusions
Showed that Hog1 MAPK pathway is governed
by two different response time scales
Demonstrated use of frequency-response
analysis on cellular networks
Utilized engineering principles to predict the
response of dynamic stimuli
Thank you