OPTIMATRIX v2.0: optimised protocol to mitigate microbial blooms in the micro-Matrix bioreactor platform used as an ex vivo human distal colon model

OPTIMATRIX v2.0. Optimised methods to minimize microbial blooms, maintain microbial diversity and improve reproducibility in the micro-Matrix bioreactor platform used as an ex vivo batch model of the human distal colon. Further development in methods to attenuate microbial blooms associated with Escherichia and other genera as described in Mathur et al. 2023 [1] with a specific focus on testing different faecal fermentation media formulations, duration of colon model experiments and faecal slurry inocula derived from either pooled or individual donor samples.