Table 2 Summary of diversity and taxa differences (FDR and age-adjusted)
From: Gut Prevotella stercorea associates with protection against infection in rural African children
# | Comparison | Alpha Diversity (GLM) | Beta Diversity (PERMANOVA p/Kruskal–Wallis p/R²) | Taxa (MaAsLin2, q < 0.1; ANOVA, p < 0.05) |
|---|---|---|---|---|
1 | D1 vs D15 (Not-Ill) | NS (all alpha metrics, FDR p ≥ 0.995) | 0.594/0.8483/0.1438 | NS |
2 | D15 vs D85 (Not-Ill) | NS (all alpha metrics, FDR p ≥ 0.168) | 0.0117*/0.0148*/0.1206 | Bacteroides ↓ D85: β = –0.0318; q = 0.0604 |
3 | D1 vs D85 (Not-Ill) | NS (all alpha metrics, FDR p ≥ 0.202) | 0.0016*/0.0006*/0.1191 | E. coli ↓ D85: β = –0.0190; q = 0.0706 |
4 | D1 vs D15 (Ill) | NS (all alpha metrics, FDR p ≥ 0.643) | 0.0072*/0.8511/0.1043 | F. prausnitzii ↑ D15: β = 0.0181; q = 0.0905 |
5 | D15 vs D85 (Ill) | NS (all alpha metrics, FDR p ≥ 0.26) | 0.1181/0.8511/0.0953 | P. copri ↑ D85: β = 0.0431; q = 0.0635 Bacteroides ↓ D85: β = –0.0268; q = 0.0635 |
6 | D1 vs D85 (Ill) | NS (all alpha metrics, FDR p ≥ 0.061) | 0.0142*/0.8511/0.0837 | NS |
7 | D1 Ill vs D1 Not-Ill | Richness & Fisher p = 0.016*; others NS | 0.0016*/0.8511/0.1071 | NS |
8 | D15 Ill vs D15 Not-Ill | Richness & Fisher p = 0.006*; others NS | 0.0016*/0.5826/0.1252 | NS |
9 | D85 Ill vs D85 Not-Ill | Richness & Fisher p = 1.3 × 10⁻⁴*; others NS | 0.0016*/0.0001*/0.0802 | P. stercorea ↓ Ill: β = –0.0256; q = 0.0246* |
10 | D1 Ill vs D85 Not-Ill | Richness & Fisher p = 4.26 × 10⁻⁷*; others NS | 0.0016*/0.0001*/0.0939 | P. stercorea ↓ Ill: β = –0.0347; q = 0.0006* E. coli ↑ Ill: β = 0.0242; q = 0.0210* Bacteroides ↑ Ill: β = 0.0242; q = 0.0702 S. salivarius ↑ Ill: β = 0.0099; q = 0.0904 |
11 | D15 Ill vs D85 Not-Ill | Richness & Fisher p = 1.66 × 10⁻⁷*; others NS | 0.0016*/0.0001*/0.1143 | P. stercorea ↓ Ill: β = –0.0357; q = 0.0007* P. copri ↓ Ill: β = –0.0542; q = 0.0162*E. coli ↑ Ill: β = 0.0337; q = 0.0169* Bacteroides ↑ Ill: β = 0.0301; q = 0.0283* S. dextrinosolvens ↓ Ill: β = –0.0160; q = 0.0331* |
12 | D1 Not-Ill vs D85 Ill | NS (all alpha metrics, FDR p ≥ 0.834) | 0.0016*/0.8511/0.0948 | NS |
13 | D15 Not-Ill vs D85 Ill | NS (all alpha metrics, FDR p ≥ 0.438) | 0.0016*/0.7242/0.0905 | NS |
14 | Ill vs Not-Ill (ANOVA D1, D15, D85) | NA | NA | P. stercorea ↓ Ill: p₍ill₎ = 0.0228*; p₍time₎ = 0.0115*; p₍int₎ = 0.3492 E. coli ↑ Ill: p₍ill₎ = 0.0249*; p₍time₎ = 0.0703; p₍int₎ = 0.8711 |
