Stress, fermentation performance and aroma production by yeast
Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.
-
Upload
samuel-lyons -
Category
Documents
-
view
296 -
download
1
Transcript of Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.
![Page 1: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/1.jpg)
Yeast: Fermentation Pathway
http://fig.cox.miami.edu/~cmallery/255/255atp/mcb8.5.fermentation.jpg
![Page 2: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/2.jpg)
http://www.microbialcellfactories.com/content/5/1/20/figure/F3
E. Coli: Lycopene Synthesis Pathway
![Page 3: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/3.jpg)
Our pathways in the greater context:
http://www.colby.edu/chemistry/BC368/metabolism.jpg
![Page 4: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/4.jpg)
Fermentation in its metabolic context…
http://genomebiology.com/content/figures/gb-2001-2-11-reports4026-1.jpg
![Page 5: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/5.jpg)
Lycopene synthesis in its metabolic context…
http://www.microbialcellfactories.com/content/5/1/20/figure/F1?highres=y
![Page 6: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/6.jpg)
Jay Keasling’s pathway tinkering:
Keasling, JD et al. “Production of the antimalarial drug precursor artemisinic acid in engineered yeast.” Nature. 2006 Apr 13;440(7086):940-3.
![Page 7: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/7.jpg)
http://web.mit.edu/cheme/people/faculty/steph.html
Gregory Stephanopoulos Hal Alper
http://www.engr.utexas.edu/che/directories/faculty/alper.cfm
Both PhDs in Chemical Engineering and work in the Department of Chemical Engineering at MIT together.
Specifically, their lab is the Bioinformatics and Metabolic Engineering Lab at MIT.
Our Researchers…
![Page 8: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/8.jpg)
• Major question in both papers:
How do we know where to look when we want to optimize a specific pathway? Which pipes do we turn on and off?
![Page 9: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/9.jpg)
Both papers turn to the selective forces of nature to get to the answer:
Start by presenting nature with a huge number of mutants generated by nature, then see which of these mutants is doing what the want the best.
![Page 10: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/10.jpg)
Yeast paper
• Global Transcription Machinery Engineering (gTME)
![Page 11: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/11.jpg)
From Snustad and Simmons, 2000, Principles of Genetics
The Eukaryotic Promoter:
![Page 12: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/12.jpg)
SPT15 – the TATA binding protein.TAF25 – a particular TATA-binding factor.
![Page 13: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/13.jpg)
Lycopene paperMutants generated by random transposon insertions:
http://www.discoverygenomics.net/images/sbts_cut-paste.gif
SEE RIGHT SIDE IF FIGURE 1b IN THIS PAPER.
Perhaps the transposon enters in the middle of a gene, preventing expression.
![Page 14: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/14.jpg)
In the lycopene paper, the best knockout genes for lycopene synthesis identified by this combinatorial method were then compared with genes computer modeling predicted as good knockout sites.
![Page 15: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/15.jpg)
The Yeast Paper
![Page 16: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/16.jpg)
Figure 4
Model Selected
Transposon Selected
![Page 17: Yeast: Fermentation Pathway cmallery/255/255atp/mcb8.5.fermentation.jpg.](https://reader031.fdocuments.in/reader031/viewer/2022012303/56649f575503460f94c7b92c/html5/thumbnails/17.jpg)
RATIONALE:
If I alter the transcription machinery, I will change the expression levels of different genes on a large scale, rather than just working with a single gene predicted by a model.