From Discovery Proteomics to Process-Informed Monitoring in Biomanufacturing Chassis Development

TD01), the TimsTOF and Exploris were able to achieve extensive proteome coverage, quantifying 5.5k and 5k proteins, respectively, with the ZenoTOF, Waters MRT, and the legacy Waters Vion, respectively, quantifying 3.5k, 1.3k, and ∼850 proteins at 1% FDR. Proteins comprising core metabolic pathways critical to biomanufacturing in these chassis’ organisms can be quantified with all instruments. We characterize metabolic adaptation in H. bluephagenesis by showing that replacement of glucose with a carboxylic acid feedstock directs carbon flux toward potential butane precursors, as well as how the acquired data permits monitoring of the cobalamin (vitamin B₁₂) production pathway.