Table 3 Comparison of Ruminococcus flavefaciens percentage by real-time PCR and MG-RAST analysis for same samples processed by shotgun and amplicon sequencing
From: Comparative evaluation of rumen metagenome community using qPCR and MG-RAST
Ruminococcus flavefaciens(% ± SD) | ||||
|---|---|---|---|---|
Sample | qPCR | Shotgun | Amplicon | |
50% roughage | GL | 0.45 ± 0.002 | 0.18 ± 0.0009 | 0.35 ± 0.002 |
DL | 0.45 ± 0.002 | 0.10 ± 0.000 | 0.30 ± 0.0008 | |
GS | 1.33 ± 0.006 | 0.50 ± 0.0008 | 0.98 ± 0.0005 | |
DS | 0.58 ± 0.004 | 0.53 ± 0.0009 | 1.07 ± 0.008 | |
75% roughage | GL | 0.40 ± 0.002 | 0.20 ± 0.000 | 0.30 ± 0.000 |
DL | 0.48 ± 0.001 | 0.23 ± 0.0005 | 0.40 ± 0.000 | |
GS | 0.55 ± 0.004 | 0.35 ± 0.001 | 1.00 ± 0.000 | |
DS | 0.77 ± 0.004 | 0.38 ± 0.0005 | 1.00 ± 0.000 | |
100% roughage | GL | 0.20 ± 0.010 | 0.15 ± 0.0005 | 0.35 ± 0.001 |
DL | 0.25 ± 0.002 | 0.25 ± 0.0005 | 0.75 ± 0.001 | |
GS | 0.24 ± 0.0008 | 0.30 ± 0.000 | 0.85 ± 0.008 | |
DS | 0.63 ± 0.005 | 0.60 ± 0.0008 | 1.33 ± 0.005 | |