Journal Article

Integrated pathway mining and selection of an artificial CYP79-mediated bypass to improve benzylisoquinoline alkaloid biosynthesis

Akira Nakagawa, Hiromichi Minami, Akihiko Kondo, Kim Daryong, Christopher J. Vavricka, Tomokazu Shirai, Keiko Tsuchikane, Yoshimi Hori, Seiha Miyazawa, Hiroko Kawasaki, Tomohisa Hasunuma, Michihiro Araki, Akira Hosoyama, Saeko Fujihana, Musashi Takenaka, Kouhei Kamasaka

2024

Overview

Background Computational mining of useful enzymes and biosynthesis pathways is a powerful strategy for metabolic engineering. Through systematic exploration of all conceivable combinations of enzyme reactions, including both known compounds and those inferred from the chemical structures of established reactions, we can uncover previously undiscovered enzymatic processes. The application of the novel alternative pathways enables us to improve microbial bioproduction by bypassing or reinforcing metabolic bottlenecks. Benzylisoquinoline alkaloids (BIAs) are a diverse group of plant-derived compounds with important pharmaceutical properties. BIA biosynthesis has developed into a prime example of metabolic engineering and microbial bioproduction. The early bottleneck of BIA production in Escherichia coli consists of 3,4-dihydroxyphenylacetaldehyde (DHPAA) production and conversion to tetrahydropapaveroline (THP). Previous studies have selected monoamine oxidase (MAO) and DHPAA synthase (DHPAAS) to produce DHPAA from dopamine and oxygen; however, both of these enzymes produce toxic hydrogen peroxide as a byproduct. Results In the current study, in silico pathway design is applied to relieve the bottleneck of DHPAA production in the synthetic BIA pathway. Specifically, the cytochrome P450 enzyme, tyrosine N -monooxygenase (CYP79), is identified to bypass the established MAO- and DHPAAS-mediated pathways in an alternative arylacetaldoxime route to DHPAA with a peroxide-independent mechanism. The application of this pathway is proposed to result in less formation of toxic byproducts, leading to improved production of reticuline (up to 60 mg/L at the flask scale) when compared with that from the conventional MAO pathway. Conclusions This study showed improved reticuline production using the bypass pathway predicted by the M-path computational platform. Reticuline production in E. coli exceeded that of the conventional MAO-mediated pathway. The study provides a clear example of the integration of pathway mining and enzyme design in creating artificial metabolic pathways and suggests further potential applications of this strategy in metabolic engineering.

• Publisher: Springer Science and Business Media LLC,BioMed Central,BioMed Central Ltd,BMC
• Subject: 3,4-dihydroxyphenylacetaldoxime / 3,4-Dihydroxyphenylacetic Acid - analogs & derivatives / 3,4-Dihydroxyphenylacetic Acid - metabolism / Alkaloids / Applied Microbiology / Artificial metabolic pathway / Benzylisoquinoline alkaloid production / Benzylisoquinolines - metabolism / Biosynthesis / Biosynthetic Pathways / Biotechnology / Chemistry / Chemistry and Materials Science / Computational enzyme mining / Computer Simulation / Cytochrome P-450 Enzyme System - metabolism / Cytochrome P450 / Enzymology / Escherichia coli / Escherichia coli - genetics / Escherichia coli - metabolism / Genetic Engineering / Hydrogen peroxide / Metabolic Engineering - methods / Microbial Genetics and Genomics / Microbiological research / Microbiology / Mines and mineral resources / Monoamine oxidase / Physiological aspects / Plant metabolites / QR1-502 / Resveratrol / Tetrahydropapaveroline - metabolism / Tyrosine / Tyrosine N-monooxygenase