Antibiotic-induced dysbiosis in the SCIME™ recapitulates microbial community diversity and metabolites modulation of in vivo disease - 16s rRNA seq data

Intestinal dysbiosis is a significant concern among dog owners, and the gut health of pets is an emerging research field. In this context, the Simulator of the Canine Intestinal Microbial Ecosystem (SCIMETM) was recently developed and validated with in vivo data. The current study presents a further application of thismodel by using amoxicillin and clavulanic acid to induce dysbiosis, aiming to provoke changes in microbial community and metabolite production, which are well-known markers of the disease in vivo. Following the induction of dysbiosis, prebiotic supplementation was tested to investigate the potential for microbiota recovery under different dietary conditions. The results showed that antibiotic stimulation in the SCIMETM model can reproduce significant changes in microbial communities andmetabolic activity, including a decrease inmicrobial richness, a reduction in propionic acid production, and alterations inmicrobial composition, mimicking in vivo canine dysbiosis. Additionally, changes in ammonium and butyric acid levels induced by the tested diets were observed. In conclusion, a dynamic in vitro model simulating canine antibiotic-induced dysbiosis, capable of reproducing microbial and metabolic changes observed in vivo, has been developed and is suitable for testing the e􀀀ects of nutritional changes.