TABLE 5.
DeSeq2—H2O vs. EtOH—males. DeSeq2 analysis. Adjusted p-values (p-value < 0.05 indicated by italics; q-value < 0.05 indicated by bold). Base mean = mean of normalized samples. Log2 FC = Log2 fold change of taxa in EtOH-fed mice in comparison to H2O-fed mice samples within the respective genotype.
| DeSeq2—H2O vs. EtOH—males | ||||
|---|---|---|---|---|
| Genera (Phylum) | Base mean | Log2 FC EtOH over H2O | p-value | q-value |
| H2O (NonTg + 3xTg-AD, n = 20) vs. EtOH (NonTg + 3xTg-AD, n = 20) | ||||
| Alcohol consumption implicated | ||||
| Clostridium sensu stricto 1 (Firmicutes) | 395.40 | 2.15 | 0.02 | 0.29 |
| Ruminococcus (Firmicutes) | 155.81 | 1.65 | 0.01 | 0.29 |
| Putatively beneficial | ||||
| Lachnospiraceae NK4B4 group (Firmicutes) | 2.93 | −2.28 | 0.03 | 0.32 |
| Lachnospiraceae UCG-006 (Firmicutes) | 111.14 | −1.12 | 0.04 | 0.32 |
| Additional genera | ||||
| Ruminococcaceae UBA 1819 (Firmicutes) | 2.76 | 2.46 | 0.01 | 0.29 |
| Dorea (Firmicutes) | 10.95 | 1.86 | 0.04 | 0.32 |
| Monoglobus (Firmicutes) | 41.18 | 1.54 | 0.04 | 0.32 |
| Oscillospirales UCG-010 (Firmicutes) | 17.51 | 1.34 | 0.02 | 0.29 |
| Anaerovoracaceae; (Eubacterium) nodatum group (Firmicutes) | 16.33 | 1.16 | 0.02 | 0.29 |
| Ruminococcaceae; Incertae Sedis (Firmicutes) | 98.71 | 0.74 | 0.03 | 0.32 |
| Clostridia vadin BB60 group (Firmicutes) | 87.35 | −0.77 | 0.04 | 0.32 |
| Erysipelatoclostridium (Firmicutes) | 81.09 | −1.69 | 0.02 | 0.29 |
| Candidatus Arthromitus (Firmicutes) | 1.41 | −3.84 | < 0.01 | 0.04 |
| Bacilli (genus unknown) (Firmicutes) | 513.66 | −4.30 | < 0.01 | < 0.01 |
| NonTg: H2O (n = 10) vs. EtOH (n = 10) | ||||
| Alcohol consumption implicated | ||||
| Bifidobacterium (Actinobacteriota) | 896.02 | 8.17 | < 0.01 | < 0.01 |
| Dubosiella (Firmicutes) | 1383.89 | 6.70 | < 0.01 | < 0.01 |
| Faecalibaculum (Firmicutes) | 1060.75 | 5.70 | < 0.01 | < 0.01 |
| Romboutsia (Firmicutes) | 145.24 | 3.73 | 0.02 | 0.18 |
| Prevotellaceae UCG-001 (Bacteriodota) | 765.86 | 3.35 | 0.01 | 0.10 |
| Clostridium sensu stricto 1 (Firmicutes) | 395.4 | 3.11 | 0.03 | 0.28 |
| Turicibacter (Firmicutes) | 1085.91 | 2.69 | 0.04 | 0.32 |
| Putatively Beneficial | ||||
| Marvinbryantia (Firmicutes) | 78.3 | −2.54 | 0.04 | 0.35 |
| Additional genera | ||||
| Peptococcus (Firmicutes) | 3.76 | 6.28 | < 0.01 | < 0.01 |
| Atopobiaceae (genus unclassified) (Actinobacteriota) | 78.89 | 4.80 | < 0.01 | < 0.05 |
| Monoglobus (Firmicutes) | 41.18 | 2.29 | 0.04 | 0.32 |
| Oscillospirales UCG-010 (Firmicutes) | 17.51 | 2.19 | 0.01 | 0.10 |
| Anaerovoracaceae; (Eubacterium) nodatum group (Firmicutes) | 16.33 | 2.02 | < 0.01 | 0.08 |
| Candidatus Arthromitus (Firmicutes) | 1.41 | −3.99 | 0.05 | 0.35 |
| Bacilli (genus unclassified) (Firmicutes) | 513.66 | −6.44 | < 0.01 | < 0.01 |
| 3xTg-AD:H2O (n = 10) vs. EtOH (n = 10) | ||||
| Alcohol consumption implicated | ||||
| Ruminococcus (Firmicutes) | 81.09 | 1.79 | 0.03 | 0.63 |
| Putatively Beneficial | ||||
| Lachnospiraceae GCA-900066575 (Firmicutes) | 1.5 | −1.51 | 0.02 | 0.63 |
| Erysipelatoclostridium (Firmicutes) | 228.31 | −2.11 | 0.03 | 0.63 |
| Lachnospiraceae UCG-004 (Firmicutes) | 513.66 | −2.89 | 0.01 | 0.36 |
| Additional genera | ||||
| Lachnospiraceae; (Eubacterium) xylanophilum group (Firmicutes) | 76.2 | 1.51 | 0.02 | 0.63 |
| Ruminococcaceae; Incertae Sedis (Firmicutes) | 145.5 | 1.32 | 0.05 | 0.68 |
| Colidextribacter (Firmicutes) | 155.81 | 0.52 | 0.04 | 0.68 |
| Bacilli (genus unknown) (Firmicutes) | 98.71 | −2.87 | < 0.01 | 0.30 |