In the exploratory analysis, we observed that β-diversity of the MetaCyc pathways was associated with obesity indices (BMI z-score (R2 = 0.26, p = 0.004), and fat mass index (R2 = 0.25, p = 0.003)), total SCFAs (R2 = 0.24, p = 0.006), acetate (R2 = 0.36, p = 0.001), propionate (R2 = 0.32, p = 0.001), and CRP (R2 = 0.32, p = 0.006). The gene discussed is CRP; the disease is obesity due to melanocortin 4 receptor deficiency.