Microbial Platform for Terpenoid Production: Escherichia coli and Yeast

Terpenoids, also called isoprenoids, are a large and highly diverse family of natural products with important medical and industrial properties. However, a limited production of terpenoids from natural resources constrains their use of either bulk commodity products or high valuable products. Microbial production of terpenoids from Escherichia coli and yeasts provides a promising alternative owing to available genetic tools in pathway engineering and genome editing, and a comprehensive understanding of their metabolisms. This review summarizes recent progresses in engineering of industrial model strains, E. coli and yeasts, for terpenoids production. With advances of synthetic biology and systems biology, both strains are expected to present the great potential as a platform of terpenoid synthesis.

[1]  M. Rohmer.  Methylerythritol Phosphate Pathway , 2010 .

[2]  Meng Wang,et al.  Design, Optimization and Application of Small Molecule Biosensor in Metabolic Engineering , 2017, Front. Microbiol..

[3]  J. Keasling,et al.  Engineering terpene biosynthesis in Streptomyces for production of the advanced biofuel precursor bisabolene. , 2015, ACS synthetic biology.

[4]  C. Herwig,et al.  Tunable recombinant protein expression in E. coli: promoter systems and genetic constraints , 2016, Applied Microbiology and Biotechnology.

[5]  P. Silver,et al.  Better together: engineering and application of microbial symbioses. , 2015, Current opinion in biotechnology.

[6]  C. Ching,et al.  Dynamic control of ERG9 expression for improved amorpha-4,11-diene production in Saccharomyces cerevisiae , 2015, Microbial Cell Factories.

[7]  D. Cane,et al.  Structure of geranyl diphosphate C-methyltransferase from Streptomyces coelicolor and implications for the mechanism of isoprenoid modification. , 2012, Biochemistry.

[8]  J. Keasling,et al.  Toward industrial production of isoprenoids in Escherichia coli: Lessons learned from CRISPR‐Cas9 based optimization of a chromosomally integrated mevalonate pathway , 2018, Biotechnology and bioengineering.

[9]  M. Groll,et al.  The Methylerythritol Phosphate Pathway to Isoprenoids. , 2017, Chemical reviews.

[10]  J. Keasling,et al.  Engineering Cellular Metabolism , 2016, Cell.

[11]  J. Keasling,et al.  The Need for Integrated Approaches in Metabolic Engineering. , 2016, Cold Spring Harbor perspectives in biology.

[12]  Seon-Won Kim,et al.  Farnesol production in Escherichia coli through the construction of a farnesol biosynthesis pathway - application of PgpB and YbjG phosphatases. , 2016, Biotechnology journal.

[13]  Farren J. Isaacs,et al.  Precise Editing at DNA Replication Forks Enables Multiplex Genome Engineering in Eukaryotes , 2017, Cell.

[14]  B. Simmons,et al.  Demonstrating a separation-free process coupling ionic liquid pretreatment, saccharification, and fermentation with Rhodosporidium toruloides to produce advanced biofuels , 2018 .

[15]  J. Keasling,et al.  Principal component analysis of proteomics (PCAP) as a tool to direct metabolic engineering. , 2015, Metabolic engineering.

[16]  I. Wheeldon,et al.  Standardized Markerless Gene Integration for Pathway Engineering in Yarrowia lipolytica. , 2017, ACS synthetic biology.

[17]  G. Stephanopoulos,et al.  Distributing a metabolic pathway among a microbial consortium enhances production of natural products , 2015, Nature Biotechnology.

[18]  A. Zyad,et al.  More insights into the pharmacological effects of artemisinin , 2018, Phytotherapy research : PTR.

[19]  Jameson K. Rogers,et al.  Biosensor-based engineering of biosynthetic pathways. , 2016, Current opinion in biotechnology.

[20]  Tomasz Blazejewski,et al.  Principles for designing synthetic microbial communities. , 2016, Current opinion in microbiology.

[21]  Sara Hooshangi,et al.  Autonomous induction of recombinant proteins by minimally rewiring native quorum sensing regulon of E. coli. , 2010, Metabolic engineering.

[22]  Rui Oliveira,et al.  Synthetic Core Promoters as Universal Parts for Fine-Tuning Expression in Different Yeast Species , 2016, ACS synthetic biology.

[23]  Jeroen S. Dickschat,et al.  Spata-13,17-diene Synthase-An Enzyme with Sesqui-, Di-, and Sesterterpene Synthase Activity from Streptomyces xinghaiensis. , 2017, Angewandte Chemie.

[24]  Mathew M Jessop-Fabre,et al.  EasyClone‐MarkerFree: A vector toolkit for marker‐less integration of genes into Saccharomyces cerevisiae via CRISPR‐Cas9 , 2016, Biotechnology journal.

[25]  J. Keasling,et al.  Engineering dynamic pathway regulation using stress-response promoters , 2013, Nature Biotechnology.

[26]  Christopher A. Voigt,et al.  Balancing gene expression without library construction via a reusable sRNA pool , 2017, Nucleic acids research.

[27]  Feng Zhang,et al.  CRISPR-assisted editing of bacterial genomes , 2013, Nature Biotechnology.

[28]  Jay D Keasling,et al.  Programming adaptive control to evolve increased metabolite production , 2013, Nature Communications.

[29]  Justin Schwartz.  Engineering , 1929, Nature.

[30]  Xueli Zhang,et al.  Balanced activation of IspG and IspH to eliminate MEP intermediate accumulation and improve isoprenoids production in Escherichia coli. , 2017, Metabolic engineering.

[31]  Jay D Keasling,et al.  Industrial brewing yeast engineered for the production of primary flavor determinants in hopped beer , 2018, Nature Communications.

[32]  Huimin Zhao,et al.  A plug‐and‐play pathway refactoring workflow for natural product research in Escherichia coli and Saccharomyces cerevisiae , 2017, Biotechnology and bioengineering.

[33]  Rodrigo Ledesma-Amaro,et al.  A synthetic biology approach to transform Yarrowia lipolytica into a competitive biotechnological producer of β‐carotene , 2018, Biotechnology and bioengineering.

[34]  J. Keasling,et al.  Integrated analysis of isopentenyl pyrophosphate (IPP) toxicity in isoprenoid-producing Escherichia coli. , 2018, Metabolic engineering.

[35]  Seon-Won Kim,et al.  Metabolic engineering of Escherichia coli for production of mixed isoprenoid alcohols and their derivatives , 2018, Biotechnology for Biofuels.

[36]  Yi-Shu Tai,et al.  Engineering of a Highly Efficient Escherichia coli Strain for Mevalonate Fermentation through Chromosomal Integration , 2016, Applied and Environmental Microbiology.

[37]  Peter Jackson,et al.  Engineering a functional 1-deoxy-D-xylulose 5-phosphate (DXP) pathway in Saccharomyces cerevisiae. , 2016, Metabolic engineering.

[38]  Karen M Polizzi,et al.  Sense and sensitivity in bioprocessing-detecting cellular metabolites with biosensors. , 2017, Current opinion in chemical biology.

[39]  W. Bentley,et al.  Rational design of 'controller cells' to manipulate protein and phenotype expression. , 2015, Metabolic engineering.

[40]  H. Shimizu,et al.  13C-metabolic flux analysis for mevalonate-producing strain of Escherichia coli. , 2017, Journal of bioscience and bioengineering.

[41]  Peter Jackson,et al.  Rewriting yeast central carbon metabolism for industrial isoprenoid production , 2016, Nature.

[42]  Shunji Takahashi,et al.  Development of a Terpenoid-Production Platform in Streptomyces reveromyceticus SN-593. , 2017, ACS synthetic biology.

[43]  Patrick Fickers,et al.  New inducible promoter for gene expression and synthetic biology in Yarrowia lipolytica , 2017, Microbial Cell Factories.

[44]  G. Stephanopoulos,et al.  Accessing Nature’s diversity through metabolic engineering and synthetic biology , 2016, F1000Research.

[45]  J. Keasling,et al.  Production of jet fuel precursor monoterpenoids from engineered Escherichia coli , 2017, Biotechnology and bioengineering.

[46]  Diego A. Oyarzún,et al.  Fundamental Design Principles for Transcription-Factor-Based Metabolite Biosensors. , 2017, ACS synthetic biology.

[47]  Se Yeon Kim,et al.  Precise precursor rebalancing for isoprenoids production by fine control of gapA expression in Escherichia coli. , 2016, Metabolic engineering.

[48]  Bingbing Sun,et al.  Synergy between methylerythritol phosphate pathway and mevalonate pathway for isoprene production in Escherichia coli. , 2016, Metabolic engineering.

[49]  Pan Liao,et al.  The potential of the mevalonate pathway for enhanced isoprenoid production. , 2016, Biotechnology advances.

[50]  Jeffrey M. Skerker,et al.  Rhodosporidium toruloides: a new platform organism for conversion of lignocellulose into terpene biofuels and bioproducts , 2017, bioRxiv.

[51]  Gregory Stephanopoulos,et al.  Overcoming heterologous protein interdependency to optimize P450-mediated Taxol precursor synthesis in Escherichia coli , 2016, Proceedings of the National Academy of Sciences.

[52]  L. Tang,et al.  Dynamic control of the mevalonate pathway expression for improved zeaxanthin production in Escherichia coli and comparative proteome analysis. , 2016, Metabolic engineering.

[53]  Huimin Zhao,et al.  Automated multiplex genome-scale engineering in yeast , 2017, Nature Communications.

[54]  Yan Zhang,et al.  Metabolic engineering of Escherichia coli using CRISPR-Cas9 meditated genome editing. , 2015, Metabolic engineering.

[55]  D. Henning.  Metabolism , 1972, Introduction to a Phenomenology of Life.

[56]  Jens Nielsen,et al.  The Impact of Systems Biology on Bioprocessing. , 2017, Trends in biotechnology.

[57]  Farren J. Isaacs,et al.  Programming cells by multiplex genome engineering and accelerated evolution , 2009, Nature.

[58]  L. Wong,et al.  Integrating Networks and Proteomics: Moving Forward. , 2016, Trends in biotechnology.

[59]  L. Drummond,et al.  Microbial Cell Factories for the Production of Terpenoid Flavor and Fragrance Compounds. , 2017, Journal of agricultural and food chemistry.

[60]  David W. Christianson,et al.  Structural and Chemical Biology of Terpenoid Cyclases , 2017, Chemical reviews.

[61]  J. Keasling,et al.  Autonomous control of metabolic state by a quorum sensing (QS)-mediated regulator for bisabolene production in engineered E. coli. , 2017, Metabolic engineering.

[62]  Q. Zhu,et al.  Metabolic engineering of Yarrowia lipolytica for industrial applications. , 2015, Current opinion in biotechnology.

[63]  Jay D. Keasling,et al.  Engineering of synthetic, stress-responsive yeast promoters , 2016, Nucleic acids research.

[64]  Haoming Xu,et al.  Dual regulation of cytoplasmic and mitochondrial acetyl-CoA utilization for improved isoprene production in Saccharomyces cerevisiae , 2016, Nature Communications.