TABLE 1.
Proportions of bacterial taxa significantly influenced by dietary treatments
| Taxonomic group | Mean % bacterial abundance ± SDc |
P value determined by ANOVA | ||||
|---|---|---|---|---|---|---|
| Standard diet | Control HF diet | Prebiotic (HF) | Probiotic (HF) | Synbiotic (HF) | ||
| Phyla | ||||||
| Firmicutes | 87.6 ± 5 A | 88.8 ± 9 A | 76.9 ± 8 A | 87.8 ± 5 A | 59.3 ± 7 B | <0.0001 |
| Actinobacteria | 8.9 ± 6 AB | 3.6 ± 2 A | 19.6 ± 8 BC | 7.6 ± 4 A | 39.1 ± 7 C | <0.0001 |
| Families | ||||||
| Clostridiaceae | 3.9 ± 6 | 0.5 ± 1 | 0.8 ± 1 | 5.4 ± 6 A | 0.2 ± 0 B | 0.0061 |
| Incertae sedis XIV | 3.7 ± 6 | 7.5 ± 10 | 11.0 ± 15 | 1.1 ± 2 A | 17.3 ± 12 B | 0.0342 |
| Streptococcaceae | 12.7 ± 5 | 21.3 ± 5 A | 9.3 ± 1 | 8.9 ± 6 B | 6.6 ± 2 B | 0.0045 |
| Erysipelotrichaceae | 16.8 ± 11 | 21.3 ± 17 | 9.2 ± 1 A | 26.5 ± 10 B | 8.3 ± 3 A | 0.0226 |
| Bifidobacteriaceae | 5.9 ± 7 A | 1.3 ± 1 A | 17.0 ± 9 | 4.1 ± 2 A | 37.8 ± 7 B | 0.0017 |
| Coriobacteriaceae | 0.6 ± 0 | 0.3 ± 0 | 1.0 ± 1 | 1.9 ± 3 A | 0.2 ± 0 B | 0.0263 |
| Rikenellaceae | 0.9 ± 1 A | 0.1 ± 0 | 0.3 ± 0 | 0.1 ± 0 | 0.0 ± 0 B | 0.0181 |
| Genera | ||||||
| Clostridium | 3.9 ± 6 | 0.5 ± 1 A | 0.8 ± 1 | 5.3 ± 6 B | 0.2 ± 0 A | 0.0122 |
| Blautia | 3.4 ± 6 | 7.4 ± 10 | 11.0 ± 15 | 0.9 ± 1 A | 17.2 ± 12 B | 0.0431 |
| Holdemania | 0.1 ± 0 | 1.0 ± 2 A | 0.9 ± 0 | 0.0 ± 0 B | 0.0 ± 0 B | 0.0117 |
| Bifidobacterium | 5.9 ± 7 A | 1.3 ± 1 A | 17.0 ± 9 | 4.1 ± 2 A | 37.8 ± 7 B | 0.0017 |
| Lactococcus | 12.4 ± 4 | 21.0 ± 5 A | 9.1 ± 1 | 8.7 ± 6 B | 6.3 ± 2 B | 0.0045 |
| Alistipes | 0.9 ± 1 A | 0.1 ± 0 | 0.3 ± 0 | 0.1 ± 0 | 0.0 ± 0 B | 0.0181 |
| OTUsa | ||||||
| OTU_2 (B. adolescentis, 99%) | 0.0 ± 0 A | 0.0 ± 0 A | 0.0 ± 0 A | 3.4 ± 2 BC | 37.0 ± 7 BD | <0.0001 |
| OTU_1 (L. lactis, 100%) | 12.4 ± 4 | 21.0 ± 5 A | 9.1 ± 1 | 8.6 ± 6 B | 6.3 ± 2 B | 0.0045 |
| OTU_626 (Lachnospiraceaeb) | 0.4 ± 1 A | 0.1 ± 0 A | 0.0 ± 0 B | ND | 0.1 ± 0 | 0.0002 |
| OTU_7 (Turicibacter sanguinis, 97%) | 3.7 ± 3 | 2.3 ± 3 | 2.3 ± 2 | 9.1 ± 7 A | 0.5 ± 1 B | 0.0279 |
| OTU_14 (Blautiab) | 0.0 ± 0 A | 0.1 ± 0 AB | 1.5 ± 1 BC | 0.0 ± 0 AB | 9.7 ± 6 CD | 0.0003 |
| OTU_33 (L. intestinalis, 99%) | ND | 0.0 ± 0 A | ND | 1.1 ± 2 B | 0.0 ± 0 A | 0.0022 |
| OTU_9 (Clostridium sp.b) | 3.8 ± 6 | 0.5 ± 1 A | 0.7 ± 1 | 5.3 ± 6 B | 0.2 ± 0 A | 0.0128 |
| OTU_6 (B. pseudolongum, 97%) | 5.8 ± 7 | 0.9 ± 1 | 16.6 ± 8 A | 0.6 ± 1 | 0.0 ± 0 B | 0.0293 |
| OTU_44 (Clostridium cocleatum, 99%) | ND | 1.0 ± 1 A | ND | 0.0 ± 0 B | ND | 0.0121 |
a
Percent homologies to the closest type strain in the database are shown in parentheses. If the strain could not be assigned to a type strain (<97% homology), RDP Classifier was used to determine the most likely genus, and the RDP Classifier value is shown (80% cutoff).
b
OTU without closely related type strain (<97% homology) classified with RDP Classifier.
c
Values with different uppercase letters are significantly different from each other. HF, high fat; ND, not detected.