Computational Enzyme Engineering Pipelines for Optimized Production of Renewable Chemicals
To enable a sustainable supply of chemicals, novel biotechnological solutions are required that replace the reliance on fossil resources. One potential solution is to utilize tailored biosynthetic modules for the metabolic conversion of CO2 or organic waste to chemicals and fuel by microorganisms. C...
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2021-06-01
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doaj-d1729413e084415b81c8b1c99cc2d5322021-06-15T07:04:50ZengFrontiers Media S.A.Frontiers in Bioengineering and Biotechnology2296-41852021-06-01910.3389/fbioe.2021.673005673005Computational Enzyme Engineering Pipelines for Optimized Production of Renewable ChemicalsMarc Scherer0Sarel J. Fleishman1Patrik R. Jones2Thomas Dandekar3Elena Bencurova4Department of Bioinformatics, Julius-Maximilians University of Würzburg, Würzburg, GermanyDepartment of Biomolecular Sciences, Weizmann Institute of Science, Rehovot, IsraelDepartment of Life Sciences, Imperial College London, London, United KingdomDepartment of Bioinformatics, Julius-Maximilians University of Würzburg, Würzburg, GermanyDepartment of Bioinformatics, Julius-Maximilians University of Würzburg, Würzburg, GermanyTo enable a sustainable supply of chemicals, novel biotechnological solutions are required that replace the reliance on fossil resources. One potential solution is to utilize tailored biosynthetic modules for the metabolic conversion of CO2 or organic waste to chemicals and fuel by microorganisms. Currently, it is challenging to commercialize biotechnological processes for renewable chemical biomanufacturing because of a lack of highly active and specific biocatalysts. As experimental methods to engineer biocatalysts are time- and cost-intensive, it is important to establish efficient and reliable computational tools that can speed up the identification or optimization of selective, highly active, and stable enzyme variants for utilization in the biotechnological industry. Here, we review and suggest combinations of effective state-of-the-art software and online tools available for computational enzyme engineering pipelines to optimize metabolic pathways for the biosynthesis of renewable chemicals. Using examples relevant for biotechnology, we explain the underlying principles of enzyme engineering and design and illuminate future directions for automated optimization of biocatalysts for the assembly of synthetic metabolic pathways.https://www.frontiersin.org/articles/10.3389/fbioe.2021.673005/fullcomputationalenzymeengineeringdesignbiomanufacturingbiofuel |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Marc Scherer Sarel J. Fleishman Patrik R. Jones Thomas Dandekar Elena Bencurova |
spellingShingle |
Marc Scherer Sarel J. Fleishman Patrik R. Jones Thomas Dandekar Elena Bencurova Computational Enzyme Engineering Pipelines for Optimized Production of Renewable Chemicals Frontiers in Bioengineering and Biotechnology computational enzyme engineering design biomanufacturing biofuel |
author_facet |
Marc Scherer Sarel J. Fleishman Patrik R. Jones Thomas Dandekar Elena Bencurova |
author_sort |
Marc Scherer |
title |
Computational Enzyme Engineering Pipelines for Optimized Production of Renewable Chemicals |
title_short |
Computational Enzyme Engineering Pipelines for Optimized Production of Renewable Chemicals |
title_full |
Computational Enzyme Engineering Pipelines for Optimized Production of Renewable Chemicals |
title_fullStr |
Computational Enzyme Engineering Pipelines for Optimized Production of Renewable Chemicals |
title_full_unstemmed |
Computational Enzyme Engineering Pipelines for Optimized Production of Renewable Chemicals |
title_sort |
computational enzyme engineering pipelines for optimized production of renewable chemicals |
publisher |
Frontiers Media S.A. |
series |
Frontiers in Bioengineering and Biotechnology |
issn |
2296-4185 |
publishDate |
2021-06-01 |
description |
To enable a sustainable supply of chemicals, novel biotechnological solutions are required that replace the reliance on fossil resources. One potential solution is to utilize tailored biosynthetic modules for the metabolic conversion of CO2 or organic waste to chemicals and fuel by microorganisms. Currently, it is challenging to commercialize biotechnological processes for renewable chemical biomanufacturing because of a lack of highly active and specific biocatalysts. As experimental methods to engineer biocatalysts are time- and cost-intensive, it is important to establish efficient and reliable computational tools that can speed up the identification or optimization of selective, highly active, and stable enzyme variants for utilization in the biotechnological industry. Here, we review and suggest combinations of effective state-of-the-art software and online tools available for computational enzyme engineering pipelines to optimize metabolic pathways for the biosynthesis of renewable chemicals. Using examples relevant for biotechnology, we explain the underlying principles of enzyme engineering and design and illuminate future directions for automated optimization of biocatalysts for the assembly of synthetic metabolic pathways. |
topic |
computational enzyme engineering design biomanufacturing biofuel |
url |
https://www.frontiersin.org/articles/10.3389/fbioe.2021.673005/full |
work_keys_str_mv |
AT marcscherer computationalenzymeengineeringpipelinesforoptimizedproductionofrenewablechemicals AT sareljfleishman computationalenzymeengineeringpipelinesforoptimizedproductionofrenewablechemicals AT patrikrjones computationalenzymeengineeringpipelinesforoptimizedproductionofrenewablechemicals AT thomasdandekar computationalenzymeengineeringpipelinesforoptimizedproductionofrenewablechemicals AT elenabencurova computationalenzymeengineeringpipelinesforoptimizedproductionofrenewablechemicals |
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1721376883822559232 |