Table 2.
Quantification and relative abundances of main populations of rumen microorganisms evaluated by qPCR and RNA-sequencing.
| qPCR |
RNA-Seq | |||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| DNA |
cDNA |
ssu RNA/DNA ratio |
Relative abundance |
|||||||||||||||||
| Copies/μg DNA ± SD | Relative abundance | Copies/μg cDNA ± SD | Relative abundance | |||||||||||||||||
| Bacteria (16S) Bacteria (16S) |
1.20 × 1010 ± 3.53 × 109 | 99.56% | 5.35 × 1010 ± 2.05 × 109 | 76.07% | 4.46 | 77.73% | ||||||||||||||
| Methanogenic archaea (16S) Euryarcheota (16S) |
2.12 × 107 ± 2.88 × 106 | 0.18% | 1.20 × 108 ± 1.41 × 103 | 0.17% | 5.66 | 0.68% | ||||||||||||||
| Protozoa (18S) Intramacronucleata (18S) |
3.08 × 107± 1.17 × 107 | 0.25% | 1.67 × 1010 ± 1.06 × 106 | 23.74% | 542.2 | 20.45% | ||||||||||||||
| Neocallimastigomycota (ITS1) Neocallimastigomycota (18S) |
1.47 × 106 ± 4.63 × 105 | 0.01% | 1.20 × 106 ± 1.34 × 101 | 0.02% | 0.82 | 0.61% | ||||||||||||||
Relative abundances are given as a percentage of total ssu copies (qPCR) or total ssu reads (RNA-Seq). For qPCR results, each value is the mean (n = 6) ± standard deviation. The precise denomination of microbial groups and the gene targeted are indicated in the first column, in italics for RNA-Seq data.