Thomas Eng

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 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 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.

This study identifies tolerance mechanisms in Paraburkholderia graminis OAS925 to alcohol and salt stress using RB-TnSeq, revealing key genes involved in membrane transport, efflux systems, signaling, and oxidative stress response.

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

This study compares GenBank and RefSeq annotations for Pseudomonas putida KT2440, showing 16% of ORFs differ in genomic position and highlighting potential impacts on RNA-seq analysis.

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.

The paper identifies and validates novel plasmid origins of replication from an environmental Pantoea strain, enabling expression of heterologous proteins and pathways in both model and non-model bacteria.

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

This study identifies fumarate hydratase activity as a bottleneck in a genome-scale metabolic model design for bioproduction from para-coumarate, requiring optimization for growth and product formation.

This study demonstrates the use of EcoFABs to measure horizontal gene transfer frequency in the rhizosphere of Brachypodium distachyon, showing dependencies on plant stage, root exudates, donor cell numbers, and environmental stress.

The paper demonstrates that desiccated cyanobacteria can safely transport plasmid DNA to and from space without cryogenic storage, preserving DNA integrity for use in synthetic biology.

This paper engineers Corynebacterium glutamicum to produce 2,3,5,6-tetramethylpyrazine (TMP) at high titer using statistical design of experiments to optimize media composition.

The paper develops modular genetic tools for manipulating diverse diazotrophic bacteria to enable synthetic biology and genome editing.

The paper develops growth-coupled microbial strains for high-yield indigoidine production using iterative engineering and computational evaluation.

The paper optimizes a P. putida strain for indigoidine production using 13C-MFA and metabolomics, identifying key metabolic bottlenecks and engineering improvements.

The paper resequences and analyzes transcriptomic changes in an engineered C. glutamicum strain under bioreactor conditions with and without ionic liquid stress.

The paper identifies gene deletions that enhance indigoidine production in Pseudomonas putida using fitness profiling and bioreactor experiments.