Table 5.
Relative abundances (%) of major known bacterial taxa* in the FLP and the CAP of freshly isolated ruminal ciliates.
| Phylum | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Lowest taxa assigned** | CAP of individual ciliate genera | FLP | P-value | |||||||||
| Dasytricha | Diplodinium | Diploplastron | Entodinium | Epidinium | Isotricha | Ophryoscolex | Polyplastron | Genera | CAP vs. FLP | Detection in CAP# | ||
| Acidobacteria | 1.72 | 1.86 | 1.48 | 1.38 | 1.03 | 0.92 | 0.98 | 1.68 | 0 | NS | 0.048 | Only |
| Actinobacteria | 4.71 | 4.09 | 3.77 | 3.25 | 2.32 | 3.59 | 5.79 | 2.37 | 0.08 | NS | 0.021 | Enriched |
| o_Acidimicrobiales | 3.41 | 3.58 | 3.49 | 3.16 | 1.98 | 2.84 | 4.12 | 1.66 | 0 | NS | NS | Only |
| Bacteroidetes | 30.9 | 28.6 | 35.2 | 29.1 | 33.4 | 31.2 | 30.2 | 25.5 | 42.4 | NS | 0.003 | |
| c_Bacteroidia | 25.9 | 23.8 | 30.2 | 24.8 | 29.2 | 26.1 | 24.3 | 23.1 | 42.4 | NS | 0.048 | |
| f_BS11 | 2.03 | 1.15 | 1.47 | 2.19 | 1.43 | 1.19 | 0.81 | 1.43 | 0.05 | NS | 0.040 | Enriched |
| g_Prevotella† | 15.9 | 14.3 | 21.5 | 15.8 | 19.7 | 18.6 | 16.6 | 14.4 | 28.4 | NS | <0.001 | |
| f_Paraprevotellaceae | 0.76 | 0.92 | 1.62 | 0.89 | 1.33 | 1.52 | 1.55 | 1.68 | 4.96 | NS | NS | |
| f_Chitinophagaceae | 4.90 | 3.94 | 4.04 | 4.25 | 4.05 | 4.84 | 5.10 | 2.15 | 0 | 0.057 | NS | Only |
| g_Sediminibacterium | 4.78 | 3.63 | 3.62 | 3.53 | 3.54 | 4.22 | 4.70 | 2.14 | 0 | NS | 0.032 | Only |
| Cyanobacteria | 2.81 | 0.82 | 0.59 | 1.37 | 0.37 | 0.68 | 1.29 | 0.50 | 1.09 | NS | NS | |
| Fibrobacteres | 1.93 | 0.32 | 0.78 | 0.34 | 1.01 | 0.48 | 1.21 | 0.31 | 2.08 | NS | NS | |
| Firmicutes | 16.2 | 17.9 | 15.9 | 13.1 | 18.5 | 19.8 | 15.0 | 16.3 | 32.4 | NS | <0.001 | |
| o_Clostridiales | 14.9 | 16.6 | 14.9 | 12.0 | 15.9 | 19.2 | 13.3 | 15.2 | 30.5 | 0.071 | <0.001 | |
| f_Lachnospiraceae | 8.57 | 8.51 | 6.79 | 6.87 | 7.75 | 14.8 | 7.12 | 6.71 | 17.4 | NS | 0.032 | |
| g_Butyrivibrio | 1.89 | 1.54 | 0.73 | 1.59 | 1.58 | 1.32 | 1.62 | 0.38 | 0.74 | 0.011 | <0.001 | Enriched |
| g_Coprococcus | 0.77 | 0.94 | 0.93 | 1.28 | 1.44 | 0.38 | 0.90 | 1.15 | 4.26 | NS | 0.054 | |
| f_Ruminococcaceae | 2.73 | 3.41 | 3.78 | 1.82 | 3.23 | 1.69 | 2.29 | 3.62 | 4.82 | NS | <0.001 | |
| g_Ruminococcus | 1.80 | 1.12 | 2.59 | 1.36 | 1.85 | 0.98 | 1.07 | 2.20 | 2.93 | NS | NS | |
| f_Veillonellaceae | 1.63 | 2.01 | 1.01 | 0.57 | 1.74 | 1.42 | 1.35 | 1.98 | 0.85 | NS | 0.095 | |
| Planctomycetes | 1.57 | 2.07 | 2.20 | 1.16 | 1.59 | 0.87 | 1.11 | 1.30 | 0.02 | NS | NS | |
| Proteobacteria | 31.4 | 35.9 | 24.2 | 34.3 | 33.2 | 29.8 | 29.9 | 43.9 | 12.2 | 0.071 | <0.001 | Enriched |
| c_α-Proteobacteria | 7.57 | 7.80 | 4.52 | 6.14 | 7.75 | 5.41 | 5.96 | 13.1 | 0.63 | NS | 0.021 | |
| o_Ellin329 | 2.34 | 1.57 | 1.00 | 1.84 | 2.86 | 1.20 | 1.71 | 2.20 | 0 | 0.035 | 0.005 | Only |
| o_Rhizobiales | 1.36 | 2.23 | 1.37 | 1.06 | 1.36 | 1.65 | 1.74 | 1.71 | 0 | NS | NS | Only |
| f_Bradyrhizobiaceae | 1.09 | 1.43 | 0.91 | 0.85 | 0.69 | 1.46 | 1.29 | 1.45 | 0 | NS | 0.036 | Only |
| f_Rhodospirillaceae† | 2.88 | 3.60 | 1.26 | 1.90 | 2.27 | 2.08 | 1.88 | 1.60 | 0 | NS | 0.020 | Only |
| c_β-Proteobacteria | 5.22 | 6.24 | 5.37 | 3.80 | 5.04 | 6.90 | 7.27 | 5.39 | 0.08 | NS | 0.003 | Enriched |
| o_Burkholderiales | 2.66 | 3.85 | 2.83 | 2.16 | 2.80 | 4.66 | 2.91 | 4.09 | 0.08 | NS | <0.001 | Enriched |
| g_Limnobacter | 1.51 | 2.51 | 2.06 | 1.01 | 1.77 | 2.84 | 1.68 | 1.71 | 0 | NS | 0.054 | Only |
| c_δ-Proteobacteria | 1.66 | 2.83 | 2.91 | 2.51 | 2.40 | 3.09 | 2.38 | 3.14 | 0.09 | NS | NS | |
| c_ε-Proteobacteria | 1.88 | 1.37 | 1.96 | 2.94 | 1.43 | 0.33 | 0.79 | 1.55 | 0 | NS | NS | Only |
| c_γ-Proteobacteria | 15.1 | 17.7 | 9.45 | 18.9 | 16.6 | 14.1 | 13.5 | 20.8 | 11.4 | NS | <0.001 | Enriched |
| f_Succinivibrionaceae† | 7.12 | 9.76 | 5.30 | 9.02 | 8.37 | 6.43 | 6.58 | 16.0 | 11.3 | NS | 0.036 | |
| g_Ruminobacter | 2.24 | 2.38 | 1.11 | 2.03 | 3.18 | 2.24 | 1.51 | 2.19 | 0.19 | NS | 0.020 | Enriched |
| o_Pseudomonadales | 1.96 | 2.12 | 0.96 | 2.88 | 1.72 | 2.66 | 1.58 | 1.87 | 0.02 | 0.083 | 0.013 | Enriched |
| f_Moraxellaceae | 1.60 | 1.74 | 0.35 | 1.95 | 0.90 | 1.07 | 1.15 | 1.58 | 0.02 | NS | 0.051 | Enriched |
| o_Xanthomonadales | 4.36 | 3.52 | 2.26 | 5.55 | 3.66 | 3.11 | 3.81 | 1.65 | 0 | NS | 0.008 | Only |
| f_Sinobacteraceae | 4.25 | 2.56 | 1.92 | 4.77 | 3.10 | 2.97 | 3.64 | 1.53 | 0 | NS | 0.042 | Only |
| g_Nevskia | 2.74 | 1.56 | 1.36 | 2.29 | 1.41 | 1.55 | 1.49 | 1.06 | 0 | 0.067 | NS | Only |
| Spirochaetes | 2.90 | 1.73 | 5.69 | 2.80 | 1.12 | 3.02 | 1.89 | 2.35 | 6.45 | 0.035 | 0.005 | |
| g_Treponema† | 2.73 | 1.73 | 5.46 | 2.73 | 0.96 | 2.66 | 1.89 | 1.99 | 6.26 | NS | NS | |
| Synergistetes | 2.33 | 3.61 | 5.94 | 9.70 | 2.11 | 1.99 | 5.76 | 2.80 | 0.02 | NS | NS | |
*
Only the taxa over a relative abundance greater than 1% were shown.
**
c, Class; o, Order; f, Family; g, Genus.
#
Found only in the CAP. Those taxa exclusively found in the CAP of the in vitro monocultures of Ent. caudatum and Epi. caudatum are underlined.
†
For those taxa, only the lowest classifiable taxa were shown because their higher taxa had similar relative abundance as the taxa shown.