Chemical genomic guided engineering of gamma-valerolactone tolerant yeast

Bottoms, S.; Dickinson, Q.; McGee, M.; Hinchman, L.; Higbee, A.; Hebert, A.; Serate, J.; Xie, D.; Zhang, Y.; Coon, J. J.; Myers, C. L.; Landick, R.; Piotrowski, J. S.

doi:10.1101/213991

bioRxiv · 10.1101/213991

Chemical genomic guided engineering of gamma-valerolactone tolerant yeast

Bottoms, S.·Dickinson, Q.·McGee, M.·Hinchman, L.·Higbee, A.·Hebert, A.·Serate, J.·Xie, D.·Zhang, Y.·Coon, J. J.·Myers, C. L.·Landick, R.·Piotrowski, J. S.

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Abstract

BackgroundGamma valerolactone (GVL) is a promising technology for degradation of biomass for biofuel production; however, GVL has adverse toxicity effects on fermentative microbes. Using a combination of chemical genomics and chemical proteomics we sought to understand the mechanism toxicity and resistance to GVL with the goal of engineering a GVL-tolerant, xylose-fermenting yeast.\n\nResultsChemical genomic profiling of GVL predicted that this chemical affects membranes and membrane-bound processes. We show that GVL causes rapid, dose-dependent cell permeability, and is synergistic with ethanol. Chemical genomic profiling of GVL revealed that deletion of the functionally related enzymes Pad1p and Fdc1p, which act together to decarboxylate phenolic acids to vinyl derivatives, increases yeast tolerance to GVL. Further, overexpression of Pad1p sensitizes cells to GVL toxicity. To improve GVL tolerance, we deleted PAD1 and FDC1 in a xylose-fermenting yeast strain. The modified strain exhibited increased anaerobic growth, sugar utilization, and ethanol production in synthetic hydrolysate with 1.5% GVL, and under other conditions. Chemical proteomic profiling of the engineered strain revealed that enzymes involved in ergosterol biosynthesis were more abundant in the presence of GVL compared to the background strain. The engineered GVL strain contained greater amounts of ergosterol than the background strain.\n\nConclusionsWe found that GVL exerts toxicity to yeast by compromising cellular membranes, and that this toxicity is synergistic with ethanol. Deletion of PAD1 and FDC1 conferred GVL resistance to a xylose-fermenting yeast strain by increasing ergosterol content in cells. The GVL-tolerant strain fermented sugars in the presence of GVL levels that were inhibitory to the unmodified strain. This strain represents a xylose fermenting yeast specifically tailored to GVL produced hydrolysates

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Bottoms, S., Dickinson, Q., McGee, M., Hinchman, L., Higbee, A., Hebert, A., Serate, J., Xie, D., Zhang, Y., Coon, J. J., Myers, C. L., Landick, R., Piotrowski, J. S.. 2017-11-04. Chemical genomic guided engineering of gamma-valerolactone tolerant yeast. https://doi.org/10.1101/213991

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