Figure 4.

Dynamics of gut bacterial genera between the two time points. (a) Dot plot representation of log-transformed fold change of genera that were significantly different between T 1 and T2, as reported by DESeq2 model. The logs of fold changes lying between 0 and 2 indicate that genera were more abundant in T1 than T 2. By contrast, the logs of fold changes lying between 0 and −2 indicate that the genera abundances were lower in T1 compared to T2. Dots are colored by phyla; (b) Matrix showing the presence or absence of the differentially expressed genera detected by DESeq2 model. Each entry in the matrix indicates the presence or absence of each genus in each individual and time point. In the heatmap, red = presence at T1 and absence at T2, white = no differences between T1 and T2, and blue = absence at T1 and presence at T2; (c) Taxa with the largest variation in abundances between the two time points, as reported by the similarity percentage procedure (SIMPER). Each point represents the genera relative abundance at T1 or T2. The bars show the variance interval around the two time points. Points are colored by time points: T1 (green) and T2 (purple). Unstable genera across time (>50% of variation) are highlighted in bold; (d) The partial least squares discriminant analysis (PLS-DA) loading plot shows the contributing genera at each time point.