Table 2.
Anaerobic fungal composition at genus level for the the rumen fluid (A) and fibrous content (B) samples from dairy cows each fed different ratios of grass silage (GS) to maize silage (MS), e.g., GS67MS33 is a diet containing 67 % grass silage and 33 % maize silage.
| (A) | |||||||
| Diet | DNA extraction methods |
Relative abundance (%) |
|||||
| Piromyces | Neocallimastix | Cyllamyces | Anaeromyces | Orpinomyces | Unidentified fungi | ||
| GS100 | RBB I | 0.05 | nd | 0.1 | nd | nd | 71.41 |
| RBB II | nd∗ | nd | 0.21 | nd | nd | 52.22 | |
| PBB I | nd | nd | 0.07 | nd | nd | 80.24 | |
| PBB II | nd | nd | 0.19 | nd | nd | 78.09 | |
| FDSS I | 0.28 | 0.09 | 0.28 | nd | nd | 63.88 | |
| FDSS II | nd | 0.08 | nd | nd | nd | 79.97 | |
| PQIAmini I | nd | nd | nd | nd | nd | 86.47 | |
| PQIAmini II | nd | nd | nd | nd | nd | 88.59 | |
| GS67MS33 | RBB | nd | nd | nd | nd | nd | 55.11 |
| PBB | nd | nd | nd | nd | nd | 31.84 | |
| FDSS | nd | nd | nd | 0.03 | nd | 76.36 | |
| PQIAmini | nd | nd | nd | nd | nd | 66.77 | |
| GS33MS67 | RBB | 0.16 | 0.31 | nd | nd | nd | 31.42 |
| PBB | nd | nd | nd | nd | nd | 60.51 | |
| FDSS | 0.1 | nd | 0.05 | 0.05 | nd | 35.23 | |
| PQIAmini | nd | nd | nd | nd | nd | 53.51 | |
| MS100 | RBB | nd | 0.03 | nd | nd | nd | 66.4 |
| PBB | nd | 0.04 | nd | nd | nd | 32.77 | |
| FDSS | nd | 0.02 | nd | nd | nd | 75.03 | |
| PQIAmini | nd | nd | nd | nd | nd | 75.18 | |
| (B) | |||||||
| GS100 | RBB I | nd∗ | 0.99 | nd | nd | nd | 2.97 |
| RBB II | nd | nd | nd | nd | nd | 19.2 | |
| PBB I | 0.06 | nd | nd | nd | nd | 16.56 | |
| PBB II | 2.81 | 1.25 | 2.5 | nd | nd | 14.38 | |
| FDSS I | 1.59 | 0.79 | 3.17 | nd | nd | 6.35 | |
| FDSS II | 1.23 | 3.7 | 1.23 | nd | nd | 13.58 | |
| PQIAmini I | 1.54 | 3.08 | 3.08 | nd | nd | 27.69 | |
| PQIAmini II | 1.16 | 2.33 | 1.16 | 1.16 | nd | 30.23 | |
| GS67MS33 | RBB | 0.86 | 3.45 | 0.86 | 5.17 | nd | 18.1 |
| PBB | 1.56 | nd | nd | 1.56 | nd | 73.44 | |
| FDSS | 1.22 | nd | 2.44 | 0.61 | nd | 6.1 | |
| PQIAmini | nd | 0.88 | 0.88 | nd | nd | 36.84 | |
| GS33MS67 | RBB | nd | nd | nd | nd | 0.6 | 1.79 |
| PBB | 0.73 | 1.22 | nd | nd | nd | 1.46 | |
| FDSS | 1.61 | 8.06 | nd | nd | nd | nd | |
| PQIAmini | 0.83 | 1.65 | nd | nd | nd | 7.44 | |
| MS100 | RBB | nd | 0.37 | nd | nd | nd | 42.61 |
| PBB | 31.51 | 1.37 | nd | nd | nd | 39.73 | |
| FDSS | nd | nd | nd | nd | nd | 17.89 | |
| PQIAmini | nd | 0.54 | nd | nd | nd | 63.39 | |
The unidentified fungi represent aerobic and anaerobic fungi that could not be classified to the genus level, and the remaining fraction (not indicated in the table) belongs to fungi that could not be classified at the phylum level. DNA extraction technical replicates for the GS100 samples are denoted I and II. ∗nd, not detected.