Poster presentation from the American Society for Mass Spectrometry 2026 annual conference.
Perfusion bioreactors offer substantial advantages in production yield by enabling high cell densities and extended production durations, often achieving up to tenfold higher production yield than fed-batch processes. High perfusion rates decrease metabolic byproduct accumulation which could hinder the culture, but continuous nutrient exchange and long culture durations also introduce unique risks, including altered host cell protein expression and increased vulnerability to microbial contamination. Here, we apply an integrated metabolomics and proteomics workflow to compare cell culture media from perfusion bioreactors, one of which failed after 6 days. This unique dataset enables investigation of early metabolomics and proteomic changes associated with the failure, with the goal of identifying actionable indicators for earlier detection and potential intervention strategies.