Nico J. Claassens

The paper optimizes synthetic protein systems in vitro by screening combinatorial DNA variants to identify optimal gene expression and functionality.

This paper introduces a rapid HPLC-based method to measure NAD(P)(H) and NMN redox cofactor concentrations and ratios in microbes, validated against a classical assay and applied to engineered E. coli and Pseudomonas putida.

The paper systematically engineers and analyzes intrinsic terminators in bacteria, finding that an adenosine upstream of the terminator hairpin improves protein production and reduces read-through.

The paper describes an image-based workflow to sort synthetic cells based on phenotypes linked to genetic content, using automated microscopy and neural networks.

This study investigates how titration of an active DnaA variant controls DNA replication in E. coli under different growth conditions, revealing limits and design principles for synthetic replication systems.

This paper combines adaptive laboratory evolution and machine learning to engineer a methylsuccinate module for synthetic C1 metabolism in E. coli, achieving growth in three weeks versus six months with evolution alone.

This paper identifies novel carbon fixation pathways using bioretrosynthetic analysis and expert knowledge, finding several that could outperform the Calvin cycle in biomass yield and do not require vitamin B12.

This paper designs and tests synthetic CO2 fixation pathways in E. coli, demonstrating their potential to outperform natural pathways.

The paper identifies a recursive isoleucine biosynthesis pathway in E. coli driven by the promiscuous activity of acetohydroxyacid synthase II, using glyoxylate and pyruvate directly instead of threonine.

This study investigates DnaA titration on the E. coli chromosome and shows it controls free DnaA levels in a growth rate-dependent manner, preventing re-initiation during slow growth.

The paper introduces MOSAIC, a method for efficient plasmid editing and library generation using SSAP CspRecT, achieving high editing efficiency and combinatorial library creation in a single step.

The paper engineers Parageobacillus thermoglucosidasius to use methanol via the RuMP cycle for growth, achieving 17% biomass from methanol without heterologous enzyme expression.

This study attempts to engineer the reductive glycine pathway in Parageobacillus thermoglucosidasius for formate and methanol assimilation but finds limited success due to metabolic limitations and incomplete pathway implementation.

This study optimizes a genome editing system for Cupriavidus necator H16, achieving high editing efficiency using an improved SIBR-Cas system.

This study investigates why engineered E. coli strains for formate utilization do not reach theoretical biomass yields and identifies metabolic bottlenecks and evolutionary changes to improve them.

This study uses Cupriavidus necator H16 to convert D-xylose to xylitol using hydrogen as a reducing agent, achieving high conversion efficiency and productivity.

This paper engineers the bacterium C. necator to convert formate into crotonate, achieving higher titer, productivity, and yield through metabolic pathway optimization.

This paper engineers Pseudomonas putida to assimilate C1 compounds like formate, methanol, and CO2 through the reductive glycine pathway, enabling growth on these substrates as sole feedstocks.

The paper engineers a synthetic one-carbon fixation pathway in Cupriavidus necator that achieves higher biomass yield than the native Calvin Cycle.

This study uses codon randomisation and machine learning to show that the first 8 codons of a gene strongly predict protein production levels in E. coli.

The paper constructs a synthetic RNA polymerase operon in E. coli, showing that adaptive evolution can restore growth after deleting native genes.

This study replaces the Calvin cycle in Cupriavidus necator with a synthetic reductive glycine pathway to improve formate assimilation and growth.