Table 1 Main species constituting the microbiota in SPF animals
Phylum | Class | Order | Family | Genus | Species | Species ID | |
|---|---|---|---|---|---|---|---|
Bacteroidetes (50.7%) | Bacteroidia (50.7%) | Bacteroidales (50.7%) | Bacteroidaceae (5.7%) | Bacteroides (5.7%) | Bacteroides caecimuris | 1796613 | "SPF -core species" (91.4%) |
Muribaculaceae (45%) | Duncaniella (9.9%) | Duncaniella sp. B8 | 2576606 | ||||
Duncaniella sp. C9 | 2530392 | ||||||
Muribaculum (35.1%) | Muribaculum intestinale | 1796646 | |||||
Muribaculum sp. H5 | 2530393 | ||||||
Muribaculum sp. TLL-A4 | 2530390 | ||||||
Firmicutes (16.6%) | Bacilli (6.3%) | Lactobacillales (6.3%) | Enterococcaceae (4.3%) | Enterococcus (4.3%) | Enterococcus faecalis | 1351 | |
Lactobacillaceae (2%) | Lactobacillus (2%) | Lactobacillus johnsonii | 33959 | ||||
Clostridia (33.3%) | Clostridiales (33.3%) | Clostridiaceae (3.2%) | Mordavella (3.2%) | Mordavella sp. Marseille-P3756 | 2086584 | ||
Lachnospiraceae (13.7%) | Lachnoclostridium (11.3%) | [Clostridium] scindens | 29347 | ||||
Lachnoclostridium phocaeense | 1871021 | ||||||
Lachnoclostridium sp. YL32 | 1834196 | ||||||
Unknown (2.4%) | Lachnospiraceae bacterium GAM79 | 2109691 | |||||
Oscillospiraceae (1%) | Unknown (1%) | Oscillospiraceae bacterium J115 | 2093857 | ||||
Peptostreptococcaceae (5%) | Clostridioides (5%) | Clostridioides difficile | 1496 | ||||
Ruminococcaceae (8.6%) | Faecalibacterium (5.2%) | Faecalibacterium prausnitzii | 853 | ||||
Flavonifractor (3.3%) | Flavonifractor plautii | 292800 | |||||
Unknown (1.8%) | Unknown (1.8%) | Clostridiales bacterium CCNA10 | 2109688 | ||||
Erysipelotrichia (1.1%) | Erysipelotrichales (1.1%) | Erysipelotrichaceae (1.1%) | Faecalitalea (1.1%) | Faecalitalea cylindroides | 39483 |