Table 2. The percent compositions of microbiomes at the genus level in wild-type and Tg-APP/PS1 mice.
| Taxon | Occupancy (%; Mean±SEM) | Fold change | z-score | |
|---|---|---|---|---|
| WT | Tg-APP/PS | |||
| p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__S24-7;g__ | 6.3±1.97 | 1.81±0.53 | ↓ −3.5 | −1 |
| p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus | 5.57±0.58 | 3.13±0.85 | ↓ −1.8 | −1.9 |
| p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__ | 4.66±1 | 7.03±2.78 | ↑ 1.5 | 1.1 |
| p__Actinobacteria;c__Actinobacteria;o__Actinomycetales;f__Corynebacteriaceae;g__Corynebacterium | 3.5±0.79 | 0.94±0.39 | ↓ −3.7 | −1.4 |
| p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas | 2.78±0.38 | 4.13±0.87 | ↑ 1.5 | 1.6 |
| p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__ | 2.44±0.65 | 6.09±2.2 | ↑ 2.5 | 2.5 |
| p__Tenericutes;c__Mollicutes;o__RF39;f__;g__ | 0.92±0.26 | 0.26±0.15 | ↓ −3.6 | −1.1 |
| p__Firmicutes;c__Bacilli;o__Bacillales;f__Staphylococcaceae;g__Jeotgalicoccus | 0.83±0.62 | 8.5±5.49 | ↑ 10.2 | 5.5 |
| p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Amaricoccus | 0.41±0.41 | 0±0 | ↓ >> | >> |
| p__Proteobacteria;c__Betaproteobacteria;o__Burkholderiales;f__Oxalobacteraceae;g__Ralstonia | 0.21±0.16 | 0±0 | ↓ >> | >> |
| p__Firmicutes;c__Erysipelotrichi;o__Erysipelotrichales;f__Erysipelotrichaceae;g__ | 0.19±0.08 | 0.47±0.19 | ↑ 2.5 | 1.5 |
| p__Fusobacteria;c__Fusobacteriia;o__Fusobacteriales;f__Leptotrichiaceae;g__Leptotrichia | 0.18±0.11 | 0±0 | ↓ >> | >> |
| p__Bacteroidetes;c__Flavobacteriia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium | 0.16±0.16 | 0±0 | ↓ >> | >> |
| p__Proteobacteria;c__Betaproteobacteria;o__Burkholderiales;f__Alcaligenaceae;g__Oligella | 0.15±0.15 | 0±0 | ↓ >> | >> |
| p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Lachnospira | 0.15±0.1 | 0±0 | ↓ >> | >> |
| p__Firmicutes;c__Bacilli;o__Bacillales;f__Planococcaceae;g__Sporosarcina | 0.14±0.14 | 0.49±0.49 | ↑ 3.6 | 1.2 |
| p__Actinobacteria;c__Actinobacteria;o__Bifidobacteriales;f__Bifidobacteriaceae;g__ | 0.14±0.08 | 0±0 | ↓ >> | >> |
| p__Proteobacteria;c__Betaproteobacteria;o__Rhodocyclales;f__Rhodocyclaceae;g__Methyloversatilis | 0.13±0.13 | 0±0 | ↓ >> | >> |
| p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingopyxis | 0.13±0.08 | 0±0 | ↓ >> | >> |
| p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Aerococcaceae;g__Alloiococcus | 0.13±0.09 | 0±0 | ↓ >> | >> |
| p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Blautia | 0.12±0.11 | 1.37±0.95 | ↑ 11.1 | 5.3 |
| p__Gemmatimonadetes;c__Gemmatimonadetes;o__;f__;g__ | 0.11±0.11 | 0±0 | ↓ >> | >> |
| p__Gemmatimonadetes;c__Gemmatimonadetes;o__Gemmatimonadales;f__;g__ | 0.11±0.11 | 0±0 | ↓ >> | >> |
| p__Proteobacteria;c__Betaproteobacteria;o__Burkholderiales;f__Oxalobacteraceae;g__ | 0.08±0.05 | 0.28±0.21 | ↑ 3.4 | 1.6 |
| p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Methylobacteriaceae;g__ | 0.06±0.05 | 0.34±0.2 | ↑ 5.8 | 2.3 |
| p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__Parabacteroides | 0.06±0.06 | 0.28±0.19 | ↑ 5 | 1.8 |
| p__Cyanobacteria;c__4C0d-2;o__YS2;f__;g__ | 0.05±0.05 | 0.19±0.12 | ↑ 4 | 1.4 |
| p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;Other | 0.04±0.03 | 0.45±0.41 | ↑ 10.1 | 6.9 |
| p__Proteobacteria;c__Alphaproteobacteria;o__Caulobacterales;f__Caulobacteraceae;g__ | 0.04±0.01 | 0.81±0.51 | ↑ 18.7 | 29.6 |
| p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacteriales;f__Enterobacteriaceae;Other | 0.04±0.02 | 0.42±0.19 | ↑ 10.4 | 7.7 |
| p__Proteobacteria;c__Betaproteobacteria;o__Neisseriales;f__Neisseriaceae;g__Neisseria | 0.03±0.03 | 0.2±0.14 | ↑ 7 | 2.7 |
| p__Proteobacteria;c__Gammaproteobacteria;o__Pasteurellales;f__Pasteurellaceae;g__Haemophilus | 0.02±0.02 | 0.14±0.1 | ↑ 6.2 | 2.3 |
| p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Aerococcaceae;g__Aerococcus | 0.02±0.01 | 10.45±8.55 | ↑ 630 | 434.2 |
| p__Actinobacteria;c__Actinobacteria;o__Actinomycetales;f__Nocardioidaceae;g__ | 0.01±0.01 | 0.11±0.07 | ↑ 15 | 6.2 |
| p__Firmicutes;c__Bacilli;Other;Other;Other | 0.01±0.01 | 0.32±0.3 | ↑ 48.6 | 27.8 |
| p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;Other | 0.01±0 | 0.24±0.23 | ↑ 40.1 | 23.4 |
| p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae;g__Bacillus | 0±0 | 0.27±0.16 | ↑ 72.4 | 32 |
| p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Leuconostocaceae;g__Weissella | 0±0 | 0.18±0.18 | ↑ 149.8 | 66.6 |
| p__Firmicutes;c__Clostridia;o__Clostridiales;f__[Mogibacteriaceae];g__ | 0±0 | 0.1±0.06 | ↑ << | << |
| p__Fibrobacteres;c__TG3;o__TG3-1;f__TSCOR003-O20;g__ | 0±0 | 0.11±0.11 | ↑ << | << |
| p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__[Odoribacteraceae];g__Odoribacter | 0±0 | 0.11±0.08 | ↑ << | << |
| p__Proteobacteria;c__Deltaproteobacteria;o__Desulfovibrionales;f__Desulfovibrionaceae;g__ | 0±0 | 0.11±0.1 | ↑ << | << |
| p__Bacteroidetes;c__Cytophagia;o__Cytophagales;f__Cytophagaceae;g__Hymenobacter | 0±0 | 0.12±0.12 | ↑ << | << |
| p__Firmicutes;c__Clostridia;o__Clostridiales;f__Veillonellaceae;g__Megamonas | 0±0 | 0.13±0.12 | ↑ << | << |
| p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Leuconostocaceae;g__ | 0±0 | 0.13±0.06 | ↑ << | << |
| p__Firmicutes;c__Clostridia;o__Clostridiales;f__Eubacteriaceae;g__Anaerofustis | 0±0 | 0.13±0.1 | ↑ << | << |
| p__Bacteroidetes;c__Sphingobacteriia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__ | 0±0 | 0.14±0.14 | ↑ << | << |
| p__Actinobacteria;c__Actinobacteria;o__Actinomycetales;f__Micrococcaceae;g__Kocuria | 0±0 | 0.14±0.08 | ↑ << | << |
| p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Bartonellaceae;g__ | 0±0 | 0.14±0.1 | ↑ << | << |
| p__TM7;c__TM7-3;o__;f__;g__ | 0±0 | 0.16±0.11 | ↑ << | << |
| p__[Thermi];c__Deinococci;o__Deinococcales;f__Deinococcaceae;g__Deinococcus | 0±0 | 0.19±0.19 | ↑ << | << |
| p__Bacteroidetes;c__Flavobacteriia;o__Flavobacteriales;f__[Weeksellaceae];g__Cloacibacterium | 0±0 | 0.2±0.2 | ↑ << | << |
| p__Actinobacteria;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella | 0±0 | 0.35±0.17 | ↑ << | << |
| p__Firmicutes;c__Clostridia;o__Clostridiales;f__Veillonellaceae;g__Veillonella | 0±0 | 0.37±0.27 | ↑ << | << |
| p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus | 0±0 | 0.67±0.62 | ↑ << | << |
| Summation | 29.9 | 52.2 | ||
The percent compositions of microbiomes at the genus level for which occupancy differed by more than one SD (one z) in Tg-APP/PS1 mice. Microbiomes with occupancies higher than 0.1% in either wild-type or Tg-APP/PS1 mice were included.
Data are presented as the mean percentage +/− SEM. The z-score is X − µ/σ, where µ=mean; X=individual score; σ=standard deviation (SD). The increase and decrease of the mean occupancy by more than one z in Tg-APP/PS1 are indicated by ↑ and ↓, respectively. « and » denote infinite increases and decreases, respectively.