TABLE 2.
Description of the microbial composition.
| CST | Microbiome |
| I | 13% Ureaplasma parvum, 87% L. crispatus |
| I | 25% Gardnerella vaginalis, 39% L. crispatus |
| I | 25% G. vaginalis, 1% U. parvum, 15% L. crispatus |
| I | 1% Prevotella timonensis, 22% L. crispatus |
| I | 28% Atopobium vaginae, 27% Bifidobacterium breve, 4% U. parvum, 15% L. crispatus |
| I | 1% U. parvum, 58% L. crispatus |
| II | 22% G. vaginalis, 75% L. gasseri |
| II | 19% G. vaginalis, 17% U. parvum, 64% L. gasseri |
| II | 22% G. vaginalis, 12% U. parvum, 65% L. gasseri |
| II | 9% G. vaginalis, 5% U. parvum, 83% L. gasseri |
| II | 6% G. vaginalis, 5% U. parvum, 24% L. gasseri |
| II | 4% A. vaginae, 21% G. vaginalis, 65% L. gasseri |
| II | 36% Alloscardovia omnicolens, 2% Bifidobacterium bifidum, 62% L. gasseri |
| II | 61% Escherichia fergusonii, 39% L. gasseri |
| II | 46% B. breve, 3% Streptococcus agalactiae, 48% L. gasseri |
| II | 1% Gemella haemolysans, 5% Staphylococcus haemolyticus, 9% Streptococcus australis, 30% Streptococcus salivarius, 1% Streptococcus sinensis, 1% Klebsiella variicola, 45% L. gasseri |
| II | 1% S. agalactiae, 4% Lachnospira pectinoschiza, 1% Dialister micraerophilus, 80% L. gasseri |
| II | 30% B. breve, 16% Bifidobacterium scardovii, 1% L. pectinoschiza, 50% L. gasseri |
| II | 14% Lactobacillus acidophilus, 1% L. crispatus, 34% Lactobacillus delbrueckii, 48% L. gasseri |
| III | 4% G. vaginalis, 1% U. parvum, 93% L. iners |
| III | 3% G. vaginalis, 91% L. iners |
| III | 7% G. vaginalis, 86% L. iners |
| III | 22% G. vaginalis, 2% U. parvum, 5% Aerococcus christensenii, 76% L. iners |
| III | 2% U. parvum, 96% L. iners |
| III | 18% G. vaginalis, 81% L. iners |
| III | 7% U. parvum, 22% S. agalactiae, 71% L. iners |
| III | 5% E. fergusonii, 92% L. iners |
| III | 3% Prevotella melaninogenica, 4% Prevotella veroralis, 1% S. haemolyticus, 89% L. iners |
| III | 1% U. parvum, 97% L. iners |
| III | 8% Prevotella disiens, 2% P. timonensis, 5% A. christensenii, 6% Acidaminococcus fermentans, 2% D. micraerophilus, 4% L. acidophilus, 73% L. iners |
| IV | 1% Eggerthella sinensis, 2% Prevotella amnii, 2% Prevotella shahii, 5% P. timonensis, 85% BVAB2, 2% Veillonella montpellierensis |
| IV | 6% A. vaginae, 1% E. sinensis, 10% G. vaginalis, 5% Sneathia sanguinegens, 47% P. timonensis, 2% A. christensenii, 4% D. micraerophilus, 6% V. montpellierensis, 5% Parvimonas micra, 4% L. iners |
| IV | 3% P. bennonis, 3% P. somerae, 6% P. timonensis, 1% Tissierellia coagulans, 2% D. propionicifaciens, 1% A. tetradius, 2% P. ivorii, 3% C. ureolyticus, 74% E. fergusonii |
| IV | 10% A. vaginae, 3% E. sinensis, 10% G. vaginalis, 2% Fusobacterium equinum, 17% S. sanguinegens, 2% U. parvum, 11% Prevotella bivia, 18% P. disiens, 4% P. timonensis, 4% Gemella palaticanis, 3% Peptoniphilus stomatis, 3% D. micraerophilus, 8% V. montpellierensis, 3% L. iners |
| IV | 7% A. vaginae, 1% E. sinensis, 18% G. vaginalis, 18% S. sanguinegens, 8% P. amnii, 23% P. timonensis, 3% D. micraerophilus, 4% V. montpellierensis, 2% P. micra, 9% L. iners |
| IV | 3% A. vaginae, 94% G. vaginalis |
| IV | 14% A. vaginae, 2% E. sinensis, 34% S. sanguinegens, 28% P. amnii, 1% P. timonensis, 1% D. micraerophilus, 6% V. montpellierensis, 12% L. iners |
| IV | 23% A. vaginae, 6% G. vaginalis, 44% P. bivia, 10% V. montpellierensis, 17% L. iners |
| IV | 74% G. vaginalis, 3% D. micraerophilus, 2% Lactobacillus casei, 4% L. gasseri, 15% Lactobacillus johnsonii |
| IV | 12% A. vaginae, 9% G. vaginalis, 29% P. bivia, 3% Prevotella oris, 4% P. timonensis, 3% P. stomatis, 3% D. micraerophilus, 2% Finegoldia magna, 3% L. gasseri, 28% L. iners |
| IV | 98% S. agalactiae, 1% D. micraerophilus |
| IV | 86% Staphylococcus pasteuri, 5% Staphylococcus simiae, 1% Enterococcus faecalis, 3% S. agalactiae, 5% E. fergusonii |
| IV | 92% A. vaginae, 4% E. fergusonii |
| IV | 31% E. fergusonii, 34% Klebsiella granulomatis, 33% K. variicola, |
| IV | 2% A. vaginae, 60% Streptococcus anginosus, 37% S. simiae |
| IV | 83% Corynebacterium pyruviciproducens, 1% Fusobacterium naviforme, 2% Prevotella pallens, 3% D. micraerophilus, 3% E. fergusonii |
| IV | 3% S. anginosus, 6% A. omnicolens, 1% Bifidobacterium longum, 18% L. acidophilus, 70% L. delbrueckii bulgaricus |
| IV | 83% Citrobacter braakii, 2% E. fergusonii, 7% K. granulomatis, 2% K. variicola, 4% Staphylococcus blattae, 2% Pseudomonas aeruginosa |
| IV | 77% Staphylococcus massiliensis, 4% Anaerococcus hydrogenalis, 15% F. magna, 3% E. fergusonii |
| IV | 30% S. anginosus, 38% A. omnicolens, 27% P. bivia, 6% D. micraerophilus |
| IV | 35% A. omnicolens, 38% S. haemolyticus, 2% Staphylococcus lugdunensis, 2% S. simiae, 7% S. agalactiae, 8% D. micraerophilus, 4% Aureimonas altamirensis |
| IV | 8% P. disiens, 2% P. timonensis, 5% A. christensenii, 6% A. fermentans, 2% D. micraerophilus, 4% L. acidophilus, 73% L. iners |
| I/II | 21% A. vaginae, 11% P. bivia, 1% L. pectinoschiza, 23% E. fergusonii, 24% L. gasseri, 15% L. crispatus |
| I/III | 46% L. crispatus, 52% L. iners |
| I/III | 31% L. crispatus, 68% L. iners |
| Bifido | 98% B. breve |
| Bifido | 19% B. breve, 2% G. vaginalis, 1% L. pectinoschiza, 60% L. delbrueckii |
The relative abundances of the bacterial species are the output of the taxa_summary.py script on the rarefied out_table.biom (5,000 reads/sample). For brevity, the samples belonging to CST I in which Lactobacillus crispatus and samples belonging to CST III in which Lactobacillus iners were uniquely identified are omitted. Community state type I (CST I) is characterized by L. crispatus, CST II by Lactobacillus gasseri, and CST III by L. iners, and CST IV is not characterized by a Lactobacillus. Bifido, bifidobacteria. In bold, the identified Lactobacilli species.