Supplementary Figure 2.

Supplementary Figure 2. Transition frequency of dominant vaginal taxonomic profile between inclusion (IN) and delivery (DR) samples.

Supplementary Figure 2. Transition frequency of dominant vaginal taxonomic profile between inclusion (IN) and delivery (DR) samples.
Heatmap showing the frequency transition matrix in dominant species between inclusion (IN) and delivery (DR) samples. Taxa were classified as dominant if they constituted ≥ 30 % of the profile. ‘other’ refers to the number of samples with a different dominant taxon. Rows represent the dominant species at inclusion and columns at delivery. Values correspond to the number of individuals with a given transition. Statistical significance of inter-species differences in stability rate was assessed using a Monte Carlo permutation test on the χ² statistic.


Supplementary Figure 8.

Supplementary Figure 8. Paired-samples comparisons of α-diversity for ARGs and MGEs across CST.

Supplementary Figure 8. Paired-samples comparisons of α-diversity for ARGs and MGEs across CST.
Each panel shows patient-matched diversity metrics comparing samples transitioning between community state types (CSTs): from CST I (a–c) or from CSTs I, II or V to CST III or IV (d–f).Lines connect values from the same individual. α-diversity metrics : observed richness (a, d), Shannon index (b, e), and Simpson index (c, f). Panels g–i and j–l depicts the same comparisons for mobile genetic elements (MGEs).