Yan Chen

This study improves acetate tolerance in Pseudomonas putida through adaptive laboratory evolution and identifies gacA and fabB as key targets for efficient acetate assimilation.

This paper uses a genomic language model to design and optimize a synthetic biosynthetic pathway for producing a non-natural molecule, achieving a 9.4-fold increase in production.

This paper introduces a carbon cofeeding strategy to overcome stoichiometric limitations in redox-balance growth coupling, enabling growth-coupled selection for biosynthetic pathways in engineered E. coli.

This study identifies distinct TNT bioremediation strategies in Pantoea sp. MT58 and P. putida KT2440 using proteomics and RB-TnSeq, revealing nitrogen assimilation versus stress tolerance mechanisms.

This paper refactors the Agrobacterium tumor-inducing plasmid into a minimal set of genes for plant and fungal transformation, demonstrating a bottom-up engineering approach.

This study evolves a microbial strain under dynamic conditions to optimize sugar catabolism, finding that mixed-sugar environments promote stable retention and coordinated optimization of multiple pathways.

The paper uses a biosensor-driven strategy to enhance isoprenol production in Pseudomonas putida through combinatorial strain engineering and omics analysis.

This paper engineers Escherichia coli to use hydrogen and formate as energy sources, improving mevalonate production by 57.6% through metabolic decoupling.

This paper trains a deep learning model on multiomics data to predict metabolic dynamics in synthetic biology, achieving high accuracy in predicting product and metabolite levels.

This study uses adaptive laboratory evolution and rational engineering to improve Pseudomonas putida's tolerance to isoprenol, enhancing its production of a sustainable aviation fuel precursor.

This paper develops acetate-tolerant Pseudomonas putida strains for isoprenol production using mixed carbon sources and identifies molecular mechanisms underlying tolerance and production.

This paper introduces a modular polyketide synthase platform for producing diols, amino alcohols, and hydroxyacids using engineered Streptomyces albus strains.

This paper develops and optimizes a mevalonate-based monoterpene production platform in Corynebacterium glutamicum, achieving high titers of several monoterpenes.

This study evaluates codon optimization strategies for improving heterologous expression of engineered type I polyketide synthases in three bacterial hosts and develops an online tool for codon optimization.

This paper engineers Pseudomonas putida for isoprenol production using computational modeling and strain optimization, achieving a titer of 3.5 g/L.

This study identifies and disrupts genes in Pseudomonas putida that cause unwanted metabolism of valerolactam, increasing its production titer.