Stepwise engineering of AmpR-based whole-cell biosensors for broad-spectrum detection and high-throughput screening...

Cephalosporin C (CPC), a representative secondary metabolite of filamentous fungi, serves as the precursor for the industrial synthesis of 7-aminocephalosporanic acid (7-ACA), the key intermediate for semisynthetic cephalosporins. Metabolite-oriented high-throughput screening is essential for accelerating the engineering of β-lactam-producing fungi for enhanced production and of key enzymes within β-lactam biosynthetic pathways for desirable activity. To create a biosensor compatible with droplet-based microfluidics, we systematically engineered an AmpR-based fluorescent Escherichia coli whole-cell biosensor and obtained the superior variant AmpR^R86H/L199S, which exhibits a 23.9-fold dynamic range for CPC, a lowered limit of detection, and broad specificity toward four major β-lactam classes and 7-ACA. Structural analyses revealed a more compact protein conformation and faster, more efficient conformational transitions upon effector binding. Using this variant, we established a droplet-microfluidic platform that enabled high-throughput screening of Acremonium chrysogenum and yielded up to a 5.6-fold increase in CPC production. The platform was further applied to 7-ACA-oriented high-throughput screening, potentially facilitating the engineering of 7-ACA-biosynthetic enzymes such as CPC acylase.