After the AF model was successfully established in SD rats, typical AF electrocardiographic features (disappearance of P waves, irregular R-R intervals, and presence of small f waves) were observed, confirming the successful establishment of the AF model (
Figure 1A and
B). Subsequently, we employed 16S rRNA sequencing to analyze fecal samples from rats, assessing the richness and diversity of the intestinal microbiota to investigate the effects of probiotics on the gut microbiota in AF rats. The Shannon index, which quantifies microbial diversity, revealed that the intestinal microbiota diversity in the AF group was significantly reduced compared to the Sham group. In contrast, the AF+Probiotics, AF+MCC950, and AF+Probiotics+MCC950 groups exhibited significant improvements, with the AF+Probiotics+MCC950 group showing marked recovery. Additionally, NMDS analysis at the amplicon sequence variant (ASV) level (stress = 0.117, P = 0.001) demonstrated distinct clustering patterns between the AF and Sham groups, highlighting substantial structural differences in the microbiota. Conversely, the AF+Probiotics, AF+MCC950, and AF+Probiotics+MCC950 groups clustered closer to the Sham group, indicating restoration of the microbial community structure (
Figure 2A). Notably, the combined treatment group (AF+Probiotics+MCC950) exhibited the closest clustering to the Sham group, suggesting a synergistic effect of probiotics and NLRP3 inhibition on microbiota recovery. Bar charts at the genus and phylum levels further elucidated compositional changes (
Figure 2B): At the genus level, specific genera such as Lactobacillus displayed differential abundances across groups. At the phylum level, Bacillota and Bacteroidota exhibited group-specific variations, suggesting that probiotics modulated the relative abundance of key microbial taxa. A Venn diagram revealed that these five groups shared 5 ASVs. A community heatmap visually clustered samples based on species abundance, showing that Sham group samples tightly clustered together, while the AF group formed a distinct cluster. Notably, the AF+Probiotics, AF+MCC950, and AF+Probiotics+MCC950 intervention groups partially overlapped with the Sham cluster, reinforcing the recovery of microbial composition induced by the interventions (
Figure 2C). Statistical validation using the Kruskal-Wallis H test confirmed significant differences in specific taxonomic units. For instance, the average proportion of norank_p_Bacillota was significantly higher in the AF+Probiotics+MCC950 group than in the Sham group (P = 0.04797), and the average proportion of Parapedobacter was significantly higher in the AF+Probiotics group than in the AF group (P = 0.01843). These findings underscore the regulatory effects of probiotics on specific intestinal microbial components (
Figure 2D). Collectively, these results provide a comprehensive overview of the diversity, structural organization, and compositional characteristics of the intestinal microbiota, supporting the hypothesis that probiotics alter the gut microbiota.