Table 1.
Most ubiquitous genera identified from the cow fecal samples (n = 20 cows).
| ID | Number of sequences of each genus | Number of cow samples containing each genus | Average % of population across all cows (std dev) | Range of population from all cows (%) |
| Clostridium spp | 8701 | 20 | 19.0 (3.57) | 13.9–25.4 |
| Bacteroides spp | 4326 | 20 | 9.26 (2.17) | 5.2–13.7 |
| Porphyromonas spp | 3435 | 20 | 7.34 (2.28) | 2.08–11.7 |
| Ruminococcus spp | 3286 | 20 | 3.57 (1.5) | 0.79–6.96 |
| Alistipes spp | 3051 | 20 | 6.61 (1.35) | 3.54–8.71 |
| Lachnospiraceae-like | 2716 | 20 | 5.7 (2.77) | 2.31–12.2 |
| Prevotella spp | 2499 | 20 | 5.47 (2.13) | 2.31–9.89 |
| Porphyromonas-like | 2097 | 14 | 6.37 (2.02) | 0.61–11.21 |
| Bacteroidales spp | 1871 | 20 | 4.11 (2.36) | 1.1–9.9 |
| Lachnospira spp | 1753 | 20 | 3.73 (2.18) | 0.5–7.1 |
| Akkermansia spp | 1464 | 19 | 3.42 (1.97) | 0.56–8.64 |
| Enterococcus spp | 1335 | 20 | 2.95 (1.91) | 0.73–7.89 |
| Firmicutes spp | 883 | 20 | 1.88 (0.88) | 0.36–3.9 |
| Oscillospira spp | 751 | 20 | 1.59 (0.62) | 0.2–2.48 |
| Prevotellaceae-like | 747 | 13 | 2.6 (3.19) | 0.1–11.03 |
| Cytophaga spp | 638 | 20 | 1.35 (0.76) | 0.15–2.95 |
| Eubacterium spp | 598 | 19 | 1.31 (0.53) | 0.47–2.74 |
| Francisella spp | 575 | 15 | 1.65 (0.75) | 0.16–1.65 |
| Clostridiales spp | 534 | 20 | 1.15 (0.58) | 0.47–2.51 |
| Papillibacter spp | 498 | 18 | 1.13 (0.75) | 0.26–2.41 |
| Spiroplasma spp | 490 | 19 | 1.13 (0.52) | 0.39–2.37 |
| Sedimentibacter spp | 411 | 18 | 1.04 (0.77) | 0.39–3.74 |
| Treponema spp | 409 | 19 | 0.93 (0.54) | 0.12–1.7 |
| Victivallis spp | 371 | 13 | 1.14 (0.86) | 0.27–3.19 |
| Peptococcus spp | 310 | 19 | 0.71 (0.49) | 0.16–1.94 |
| Escherichia spp | 254 | 17 | 0.68 (0.75) | 0.11–3.11 |
| Anaerotruncus spp | 245 | 20 | 0.54 (0.24) | 0.19–1.01 |
| Anaerophaga spp | 216 | 10 | 0.9 (0.44) | 0.41–1.83 |
| Acidaminococcus spp | 206 | 20 | 0.46 (0.23) | 0.15–1.16 |
| Paenibacillus spp | 194 | 13 | 0.59 (0.29) | 0.13–1.15 |
| Streptococcus spp | 193 | 15 | 0.55 (0.31) | 0.17–1.16 |
| Fucophilus spp | 191 | 15 | 0.53 (0.26) | 0.17–1.03 |
| Flavobacteriaceae spp | 191 | 11 | 0.81 (0.94) | 0.19–3.43 |
| Alterococcus spp | 190 | 10 | 0.78 (0.39) | 0.26–1.53 |
| Chryseobacterium spp | 187 | 15 | 0.53 (0.29) | 0.13–1.02 |
| Catabacter spp | 169 | 11 | 0.64 (0.42) | 0.16–1.29 |
| Unknown-clusterC | 168 | 13 | 0.56 (0.41) | 0.13–1.33 |
| Peptostreptococcus spp | 149 | 15 | 0.44 (0.30) | 0.1–1.17 |
| Roseburia spp | 146 | 11 | 0.59 (0.41) | 0.14–1.59 |
| Sporobacter spp | 141 | 15 | 0.41 (0.29) | 0.11–1.31 |
| Clostridiaceae-like | 117 | 11 | 0.45 (0.24) | 0.16–0.87 |
| Acholeplasma spp | 94 | 11 | 0.37 (0.25) | 0.12–0.88 |
| Unknown-clusterP | 65 | 10 | 0.29 (0.15) | 0.12–0.55 |
Complete data is provided in supplemental data files. The ID is the genera identified ordered by most abundant sequences. The number of cows that were positive for each genus, the average percentage of the total bacterial population across all cows, and the range of the total population represented by each genus across all cows sampled is also shown in the table.