Table 2.
Relative abundance (median in percentage and ranges) of all bacterial taxa significantly different identified in feces of healthy and diarrheic calves
| F1 Healthy | F2 Healthy | q‐valuea | |
|---|---|---|---|
| Phylum [8] | |||
| Proteobacteria | 8.3 (3–35) | 25 (2.3 ‐ 63) | 0.044 |
| Fusobacteria | 0.4 (0–2.2) | 0 (0–2.7) | 0.044 |
| Class [12] | |||
| Betaproteobacteria | 0.6 (0.01–3.3) | 0.01 (0–1.3) | 0.037 |
| Gammaproteobacteria | 6 (2–35) | 23 (2–62) | 0.046 |
| Fusobacteria | 0.04 (0–2.2) | 0 (0–2.7) | 0.055 |
| Order [17] | |||
| Enterobacteriales | 5 (1.4–28) | 18 (2–62) | 0.037 |
| Burkholderiales | 0.6 (0–3.3) | 0 (0–1.3) | 0.003 |
| Coriobacteriales | 0.1 (0–0.3) | 0.03 (0–0.1) | 0.007 |
| Fusobacteriales | 0.04 (0 2.2) | 0 (0–2.7) | 0.040 |
| Actinomycetales | 0.7 (0–6.12) | 0.08 (0–4.2) | 0.040 |
| Family [28] | |||
| Acidaminococcaceae | 27 (1.4–69) | 8 (0.2–35) | 0.01 |
| Coriobacteriaceae | 12 (2–39) | 3.2 (0–26) | 0.007 |
| Actinomycetaceae | 0.6 (0–6.1) | 0.05 (0–4.2) | 0.046 |
| Sutterellaceae | 0.4 (0–3.2) | 0 (0–1.2) | 0.005 |
| Enterobacteriaceae | 0.04 (0–2.2) | 0 (0–3) | 0.035 |
| Alcaligenaceae | 0.004 (0–0.8) | 0 (0–0.06) | 0.007 |
| Genus [70] | |||
| Escherichia_Shigella | 3.3 (0.9–16.8) | 12 (1–42) | 0.037 |
| Unclass. Enterobacteriacea | 1.2 (0.2–12) | 6.3 (1.2–20) | 0.025 |
| Collinsella | 9.3 (0.4–20) | 1.8 (0–8.4) | 0.019 |
| Unclass. Alcaligenaceae | 1.1 (0.09–8) | 0.3 (0–9) | 0.007 |
| Howardella | 0.9 (0–9) | 0.14 (0–1.4) | 0.022 |
| Unclass. Fusobacteriaceae | 0.02 (0–2) | 0 (0–0.08) | 0.058 |
| Sutterella | 0.32 (0–3) | 0 (0–0.7) | 0.007 |
| Unclass. Acidaminococcaceae | 0.25 (0–1.7) | 0 (0–2) | 0.022 |
| Unclass. TM7 order incertae sedis | 0.2 (0.02–0.5) | 0.03 (0 ‐ 0.07) | 0.025 |
| Pseudomonas | 0.08 (0–0.2) | 0.01 (0.1) | 0.025 |
| Unclass. Pasteurellaceae | 0.02 (0–0.03) | 0.04 (0–12) | 0.036 |
| Erysipelotrichaceae _incertae_sedis | 0.2 (0.01–5) | 0.05 (0–1.5) | 0.036 |
| F1 Healthy | F1 Diarrhea | ||
| Phylum [8] | |||
| Actinobacteria | 22 (4–57) | 8 (2.3–29) | 0.004 |
| Class [12] | |||
| Actinobacteria | 22 (4.4–57) | 8 (2.2–29) | 0.007 |
| Order [17] | |||
| Bifidobacteriales | 13 (0.4–46) | 1.2 (0.3–9) | 0.003 |
| Family [28] | |||
| Bifidobacteriaceae | 13 (0.4–46) | 1.2 (0.3–9) | 0.005 |
| Genus [70] | |||
| Bifidobacterium | 13 (0.4–46) | 1.2 (0.3–9) | 0.02 |
F1, farm 1; F2, farm 2.
a
P‐values were adjusted for multiple comparisons by the Benjamini & Hochberg's false discovery rate to generate q‐values. Numbers in [] indicate the number of comparisons performed at each level of taxonomic classification. The abbreviation “unclass.” indicates an unclassified taxonomy within the respective taxonomic group.