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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
  1. GL = Green liquid, DL = Dry liquid, GS = Green solid, DS = Dry solid.