Genome-Scale Modeling-Guided Metabolic Engineering Enables Heterologous Production of 3-Amino-4-hydroxybenzoic Acid in Streptomyces thermoviolaceus

3-Amino-4-hydroxybenzoic acid (3,4-AHBA) is a non-proteinogenic aromatic compound that functions as a key biosynthetic precursor for diverse secondary metabolites with pharmaceutical and industrial value. Microbial production of 3,4-AHBA offers a sustainable alternative to petroleum-based chemical synthesis; however, metabolic complexity and trade-offs between growth and product formation constrain rational strain design. Here, genome-scale metabolic (GSM) modeling and flux balance analysis (FBA) were integrated with targeted genetic engineering to elucidate and enhance 3,4-AHBA production in Streptomyces thermoviolaceus. A genome-scale metabolic model was constructed and expanded by incorporating the nspH–nspI gene operon, which encodes the 3,4-AHBA biosynthetic pathway. In silico FBA predicted substantial rewiring of central carbon metabolism, with carbon flux redirected from glycolysis and the tricarboxylic acid cycle toward aspartate-derived intermediates and 3,4-AHBA synthesis, accompanied by reduced biomass-associated flux. Guided by these predictions, an engineered strain (St::NspHI) was developed and experimentally evaluated. Consistent with model predictions, the engineered strain exhibited lower growth rates and glucose uptake than the wild type, reflecting a metabolic burden. Nevertheless, 3,4-AHBA production was achieved exclusively in the engineered strain. Comparison of simulated and experimental fluxes revealed overestimation by FBA, likely due to secondary metabolism and incomplete genome annotation. Overall, GSM-guided design enables optimization of precursor production.

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Publication Details

Journal
Fermentation
Published
2026-02-12
DOI
https://doi.org/10.3390/fermentation12020108
Primary Topic
Microbial Metabolic Engineering and Bioproduction
Type
article
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article

Genome-Scale Modeling-Guided Metabolic Engineering Enables Heterologous Production of 3-Amino-4-hydroxybenzoic Acid in Streptomyces thermoviolaceus

Pamella Apriliana, Togo Yamada, Yutaro Mori, Prihardi Kahar et al.
Fermentation
Microbial Metabolic Engineering and Bioproduction
article

Genome-Scale Modeling-Guided Metabolic Engineering Enables Heterologous Production of 3-Amino-4-hydroxybenzoic Acid in Streptomyces thermoviolaceus

Pamella Apriliana, Togo Yamada, Yutaro Mori, Prihardi Kahar, Tomoya Kobayashi, Chiaki Ogino
article en

Abstract

3-Amino-4-hydroxybenzoic acid (3,4-AHBA) is a non-proteinogenic aromatic compound that functions as a key biosynthetic precursor for diverse secondary metabolites with pharmaceutical and industrial value. Microbial production of 3,4-AHBA offers a sustainable alternative to petroleum-based chemical synthesis; however, metabolic complexity and trade-offs between growth and product formation constrain rational strain design. Here, genome-scale metabolic (GSM) modeling and flux balance analysis (FBA) were integrated with targeted genetic engineering to elucidate and enhance 3,4-AHBA production in Streptomyces thermoviolaceus. A genome-scale metabolic model was constructed and expanded by incorporating the nspH–nspI gene operon, which encodes the 3,4-AHBA biosynthetic pathway. In silico FBA predicted substantial rewiring of central carbon metabolism, with carbon flux redirected from glycolysis and the tricarboxylic acid cycle toward aspartate-derived intermediates and 3,4-AHBA synthesis, accompanied by reduced biomass-associated flux. Guided by these predictions, an engineered strain (St::NspHI) was developed and experimentally evaluated. Consistent with model predictions, the engineered strain exhibited lower growth rates and glucose uptake than the wild type, reflecting a metabolic burden. Nevertheless, 3,4-AHBA production was achieved exclusively in the engineered strain. Comparison of simulated and experimental fluxes revealed overestimation by FBA, likely due to secondary metabolism and incomplete genome annotation. Overall, GSM-guided design enables optimization of precursor production.

FermentationVol. 12(2)
Kobe University (JP)
Industry, innovation and infrastructure
Openalex Percentile: Top 59%
Microbial Metabolic Engineering and Bioproduction
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