Table 3:
Mean abundance (%) and SEM of bacterial taxa (identified to the genus level) between low and high yielding cows within parity in Farm 12 and Farm 9
| Primiparous cows | Multiparous cows | ||||||
|---|---|---|---|---|---|---|---|
| Taxa | Herd | Low | High | P-value‡ | Low | High | P-value‡ |
| Bacteroidetes (Phylum) | |||||||
|
Paraprevotellaceae
(family) |
Farm12 | 0.70 ± 0.05 | 0.57 ± 0.08 | * | 0.95 ± 0.06 | 0.82 ± 0.05 | |
| Farm9 | 0.85 ± 0.10 | 0.80 ± 0.05 | 0.69 ± 0.06 | 0.58 ± 0.05 | |||
|
Bacteroidales
(order) |
Farm12 | 11.54 ± 0.29 | 10.32 ± 0.30 | *** | 10.54 ± 0.59 | 9.87 ± 0.32 | * |
| Farm9 | 11.28 ± 0.52 | 12.03 ± 0.59 | ** | 12.43 ± 0.43 | 11.89 ± 0.38 | ||
| BF311 | Farm12 | 0.06 ± 0.01 | 0.08 ± 0.02 | 0.10 ± 0.04 | 0.04 ± 0.01 | * | |
| Farm9 | 0.10 ± 0.03 | 0.18 ± 0.03 | * | 0.16 ± 0.03 | 0.17 ± 0.03 | ||
| CF231 | Farm12 | 0.70 ± 0.07 | 0.61 ± 0.07 | 0.84 ± 0.06 | 0.73 ± 0.04 | ||
| Farm9 | 1.16 ± 0.11 | 1.27 ± 0.12 | 1.24 ± 0.08 | 1.06 ± 0.09 | |||
| Prevotella | Farm12 | 50.35 ± 1.71 | 53.39 ± 1.29 | *** | 51.51 ± 1.80 | 52.05 ± 1.08 | |
| Farm9 | 49.55 ± 2.72 | 45.05 ± 1.77 | *** | 47.60 ± 2.13 | 50.59 ± 1.74 | *** | |
|
Prevotellaceae
(family) |
Farm12 | 4.16 ± 0.13 | 4.22 ± 0.27 | 3.45 ± 0.25 | 3.19 ± 0.16 | ||
| Farm9 | 4.30 ± 0.30 | 4.36 ± 0.21 | 5.13 ± 0.27 | 4.96 ± 0.20 | |||
|
RF16
(family) |
Farm12 | 1.14 ± 0.20 | 0.93 ± 0.10 | ** | 1.07 ± 0.12 | 1.09 ± 0.09 | |
| Farm9 | 2.03 ± 0.28 | 3.38 ± 0.47 | *** | 1.51 ± 0.24 | 1.39 ± 0.43 | ||
|
S24-7
(family) |
Farm12 | 3.04 ± 0.34 | 2.34 ± 0.11 | *** | 3.25 ± 0.36 | 2.99 ± 0.49 | |
| Farm9 | 2.21 ± 0.42 | 2.48 ± 0.27 | * | 1.70 ± 0.28 | 1.93 ± 0.31 | ||
| YRC22 | Farm12 | 0.52 ± 0.06 | 0.54 ± 0.06 | 0.54 ± 0.05 | 0.54 ± 0.05 | ||
| Farm9 | 0.63 ± 0.05 | 0.68 ± 0.06 | 0.85 ± 0.07 | 0.60 ± 0.06 | *** | ||
| Firmicutes (Phylum) | |||||||
|
Mogibacteriaceae
(family) |
Farm12 | 0.19 ± 0.03 | 0.14 ± 0.02 | 0.27 ± 0.04 | 0.18 ± 0.03 | ||
| Farm9 | 0.16 ± 0.05 | 0.22 ± 0.03 | 0.11 ± 0.01 | 0.11 ± 0.02 | |||
| Anaerostipes | Farm12 | NF | NF | 0.04 ± 0.01 | 0.07 ± 0.01 | ||
| Farm9 | 0.06 ± 0.02 | 0.09 ± 0.02 | NF | NF | |||
| Anaerovibrio | Farm12 | NF | NF | 0.06 ± 0.02 | 0.04 ± 0.01 | ||
| Farm9 | 0.04 ± 0.01 | 0.06 ± 0.01 | 0.09 ± 0.02 | 0.08 ± 0.02 | |||
| Asteroleplasma | Farm12 | 0.10 ± 0.02 | 0.09 ± 0.03 | 0.07 ± 0.02 | 0.10 ± 0.02 | ||
| Farm9 | 0.16 ± 0.04 | 0.10 ± 0.02 | 0.18 ± 0.03 | 0.19 ± 0.03 | |||
| Butyrivibrio | Farm12 | 0.24 ± 0.04 | 0.09 ± 0.02 | *** | 0.26 ± 0.05 | 0.20 ± 0.03 | |
| Farm9 | 0.36 ± 0.06 | 0.24 ± 0.04 | 0.31 ± 0.05 | 0.36 ± 0.10 | |||
|
Christensenellaceae
(family) |
Farm12 | 0.09 ± 0.02 | 0.06 ± 0.01 | 0.07 ± 0.02 | 0.05 ± 0.01 | ||
| Farm9 | 0.08 ± 0.02 | 0.10 ± 0.02 | 0.08 ± 0.02 | 0.12 ± 0.02 | |||
|
Clostridiales
(order) |
Farm12 | 2.70 ± 0.20 | 1.89 ± 0.14 | *** | 3.33 ± 0.37 | 3.25 ± 0.38 | |
| Farm9 | 3.07 ± 0.35 | 3.05 ± 0.16 | 3.36 ± 0.39 | 2.98 ± 0.27 | |||
| Coprococcus | Farm12 | 0.07 ± 0.01 | 0.04 ± 0.01 | 0.18 ± 0.05 | 0.13 ± 0.02 | ||
| Farm9 | 0.06 ± 0.01 | 0.07 ± 0.02 | 0.05 ± 0.01 | 0.05 ± 0.01 | |||
|
Erysipelotrichaceae
(family) |
Farm12 | NF | NF | 0.03 ± 0.01 | 0.03 ± 0.01 | ||
| Farm9 | 0.06 ± 0.01 | 0.05 ± 0.02 | NF | NF | |||
|
Lachnospiraceae
(family) |
Farm12 | 1.31 ± 0.10 | 1.09 ± 0.12 | * | 1.53 ± 0.15 | 1.84 ± 0.15 | ** |
| Farm9 | 1.48 ± 0.21 | 1.41 ± 0.10 | 1.56 ± 0.27 | 1.46 ± 0.15 | |||
| Moryella | Farm12 | 0.06 ± 0.02 | 0.05 ± 0.01 | 0.13 ± 0.02 | 0.10 ± 0.03 | ||
| Farm9 | 0.13 ± 0.04 | 0.12 ± 0.02 | NF | NF | |||
| p-75-a5 | Farm12 | NF | NF | NF | NF | ||
| Farm9 | 0.05 ± 0.01 | 0.06 ± 0.01 | 0.06 ± 0.01 | 0.07 ± 0.02 | |||
| Pseudobutyrivibrio | Farm12 | 0.07 ± 0.02 | 0.05 ± 0.01 | 0.10 ± 0.03 | 0.13 ± 0.03 | ||
| Farm9 | 0.08 ± 0.02 | 0.05 ± 0.01 | 0.06 ± 0.02 | 0.07 ± 0.02 | |||
| RFN20 | Farm12 | 0.53 ± 0.06 | 0.42 ± 0.05 | * | 0.49 ± 0.06 | 0.38 ± 0.04 | |
| Farm9 | 0.79 ± 0.07 | 0.87 ± 0.09 | 0.62 ± 0.07 | 0.65 ± 0.05 | |||
|
Ruminococcaceae
(family) |
Farm12 | 1.40 ± 0.14 | 0.91 ± 0.13 | *** | 1.43 ± 0.17 | 1.15 ± 0.12 | ** |
| Farm9 | 1.51 ± 0.25 | 1.56 ± 0.17 | 1.24 ± 0.16 | 1.24 ± 0.12 | |||
| Ruminococcus | Farm12 | 0.89 ± 0.13 | 0.56 ± 0.10 | *** | 0.93 ± 0.09 | 0.91 ± 0.11 | |
| Farm9 | 1.25 ± 0.23 | 1.17 ± 0.11 | 1.08 ± 0.26 | 0.99 ± 0.15 | |||
| Schwartzia | Farm12 | 0.06 ± 0.01 | 0.07 ± 0.02 | 0.07 ± 0.01 | 0.07 ± 0.01 | ||
| Farm9 | NF | NF | NF | NF | |||
| Selenomonas | Farm12 | 0.14 ± 0.02 | 0.08 ± 0.02 | * | 0.17 ± 0.03 | 0.18 ± 0.03 | |
| Farm9 | 0.15 ± 0.03 | 0.09 ± 0.03 | 0.20 ± 0.06 | 0.18 ± 0.03 | |||
| Shuttleworthia | Farm12 | 0.08 ± 0.01 | 0.06 ± 0.01 | 0.08 ± 0.02 | 0.10 ± 0.02 | ||
| Farm9 | NF | NF | 0.05 ± 0.01 | 0.04 ± 0.01 | |||
| Succiniclasticum | Farm12 | 0.17 ± 0.02 | 0.10 ± 0.02 | * | 0.20 ± 0.03 | 0.18 ± 0.03 | |
| Farm9 | 0.20 ± 0.02 | 0.13 ± 0.03 | 0.13 ± 0.02 | 0.13 ± 0.03 | |||
|
Veillonellaceae
(family) |
Farm12 | 0.66 ± 0.08 | 0.63 ± 0.08 | 0.70 ± 0.10 | 0.70 ± 0.06 | ||
| Farm9 | 0.55 ± 0.04 | 0.41 ± 0.05 | 0.55 ± 0.08 | 0.55 ± 0.08 | |||
| Proteobacteria (Phylum) | |||||||
|
Alphaproteobacteria
(class) |
Farm12 | 0.07 ± 0.01 | 0.06 ± 0.01 | 0.05 ± 0.02 | 0.08 ± 0.01 | ||
| Farm9 | 0.14 ± 0.04 | 0.15 ± 0.03 | 0.08 ± 0.03 | 0.07 ± 0.02 | |||
|
Deltaproteobacteria
(class) |
Farm12 | NF | NF | NF | NF | ||
| Farm9 | 0.03 ± 0.01 | 0.05 ± 0.01 | 0.03 ± 0.01 | 0.05 ± 0.01 | |||
|
RF32
(order) |
Farm12 | 0.11 ± 0.02 | 0.11 ± 0.02 | 0.15 ± 0.03 | 0.09 ± 0.02 | * | |
| Farm9 | 0.16 ± 0.05 | 0.18 ± 0.02 | 0.11 ± 0.03 | 0.11 ± 0.03 | |||
| Ruminobacter | Farm12 | NF | NF | NF | NF | ||
| Farm9 | 0.05 ± 0.02 | 0.09 ± 0.02 | NF | NF | |||
|
Succinivibrionaceae
(family) |
Farm12 | 4.48 ± 0.76 | 8.11 ± 2.05 | *** | 5.92 ± 1.80 | 8.02 ± 1.45 | *** |
| Farm9 | 1.41 ± 0.28 | 2.68 ± 0.92 | *** | 0.85 ± 0.32 | 0.66 ± 0.30 | * | |
‡ P-value comparing bacterial abundance of high and low milk production within parity
The magnitude of the P-value (*** P<0.001; ** P<0.01; * P<0.05)
NF Not found