Table 2.
OTUs with differential abundance by vaccination group in the first year of life.
| OTU | Taxanomic classification (Phylum; Class; Order; Family; Genus | Group | Frequency(%) (95% CI) | Mean Abundance% (Range) | Coef. (95% Cl) | P-value |
|---|---|---|---|---|---|---|
| 169 | Proteobacteria; Gammaproteobacteria; Pseudomonadales; Pseudomonadaceae, Pseudomonas | 1 | 43 (39–48) | 0.41 (0–24.78) | 0.00 | — |
| 2 | 18 (15–22) | 0.01 (0–0.55) | −0.77 (−1.34–−0.21) | 0.01 | ||
| 3 | 30 (26–34) | 0.02 (0–0.43) | −1.01 (−1.51–−0.51) | 0.00 | ||
| 2 | Firmicutes; Bacilli; Lactobacillales; Streptococcaceae, Streptococcus | 1 | 99 (98–100) | 29.74 (0–100) | 0.00 | |
| 2 | 99 (98–100) | 32.09 (0–95.74) | 0.14 (−0.15–0.42) | 0.35 | ||
| 3 | 99 (98–100) | 35.82 (0–100) | 0.46 (0.19–0.74) | <0.01 | ||
| 203 | Firmicutes; Bacilli; Lactobacillales; Streptococcaceae; Streptococcus | 1 | 46 (42–51) | 0.21 (0–3.25) | 0.00 | — |
| 2 | 25 (21–29) | 0.01 (0–0.32) | −0.71 (−1.32–−0.11) | 0.02 | ||
| 3 | 37 (33–41) | 0.02 (0–0.97) | −0.78 (−1.35–−0.21) | 0.01 | ||
| 205 | Proteobacteria; Gammaproteobacteria; Pseudomonadales; Moraxellaceae; Moraxella | 1 | 4 (35–44) | 0.46 (0–40.47) | 0.00 | — |
| 2 | 27 (23–31) | 0.07 (0–3.36) | −0.36 (−1.07–0.35) | 0.32 | ||
| 3 | 33 (29–37) | 0.03 (0–2.34) | −0.95 (−1.6–−0.3) | <0.01 | ||
| 3 | Proteobacteria; Gammaproteobacteria; Pseudomonadales; Moraxellaceae; Moraxella | 1 | 91 (88–93) | 6.32 (0–69.94) | 0.00 | — |
| 2 | 86 (83–89) | 5.49 (0–72.88) | 0.21(−0.18–0.61) | 0.29 | ||
| 3 | 94 (92–96) | 7.32 (0–79.12) | 0.57 (0.19–0.95) | <0.01 | ||
| 46 | Firmicutes; Bacilli; Lactobacillales; Carnobacteriaceae; Dolosigranulum | 1 | 73 (69–78) | 1.65 (0–26.37) | 0.00 | — |
| 2 | 62 (57–67) | 0.42 (0–9.78) | −1.02 (−1.67–−0.38) | <0.01 | ||
| 3 | 74 (7–77) | 0.84 (0–21.34) | −0.94 (−1.55–−0.33) | <0.01 | ||
| 48 | Proteobacteria; Betaproteobacteria; Burkholderiales; Comamonadaceae; Pelomonas | 1 | 34 (29–38) | 0.18 (0–6.89) | 0.00 | — |
| 2 | 23 (19–27) | 0.09 (0–18.01) | −0.54(−1.08–0.01) | 0.05 | ||
| 3 | 34 (31–38) | 0.1 (0–3.16) | −0.58 (−1.08–−0.08) | 0.02 | ||
| 8 | Proteobacteria; Gammaproteobacteria; Pasteurellales; Pasteurellaceae; Haemophilus | 1 | 77 (73–81) | 4.44 (0–86.33) | 0.00 | — |
| 2 | 74 (7–78) | 4.4 (0–74.06) | 0.66 (0.19–1.12) | 0.01 | ||
| 3 | 85 (82–88) | 5.74 (0–80.8) | 0.64 (0.19–1.08) | 0.01 | ||
| 89 | Proteobacteria; Gammaproteobacteria; Pasteurellales; Pasteurellaceae; Haemophilus | 1 | 33 (29–37) | 0.45 (0–23.73) | 0 | — |
| 2 | 26 (22–3) | 0.03 (0–1.37) | −0.27 (−0.91–0.38) | 42 | ||
| 3 | 25 (22–29) | 0.02 (0–0.92) | −0.85 (−1.47–−0.23) | 0.01 |
The mixed effect random intercept model was adjusted for time-invariant explanatory variables (gender, place of birth, number of siblings, maternal age) and time-variant explanatory explanatoryy (time, vaccination period, season, breast feeding, travelling, antibiotic usage and nutritional status based on weight for height).