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Table 3 Relative abundances of differential microbial taxa between RFI groups in three beef breeds

From: Comparative metagenomic and metatranscriptomic analyses reveal the breed effect on the rumen microbiome and its associations with feed efficiency in beef cattle

  Taxon H-RFI L-RFI P value1
(mean ± SEM) (%) (mean ± SEM) (%)
Angus
 Genus level Unnamed RF19 0.49 ± 0.08 1.31 ± 0.32 0.045
Charolais
 Phylum level Firmicutes 22.45 ± 2.14 28.56 ± 1.82 0.042
 Phylum level Chloroflexi 0.03 ± 0.01 0.05 ± 0.01 0.046
 Genus level Unclassified Clostridiales 3.05 ± 0.36 4.38 ± 0.25 0.008
 Genus level Unnamed Ruminococcaceae 1.20 ± 0.34 2.15 ± 0.32 0.040
 Genus level Unnamed S24-7 0.76 ± 0.20 1.84 ± 0.44 0.025
 Genus level Succiniclasticum 0.34 ± 0.15 0.91 ± 0.10 0.004
 Genus level Unnamed Mogibacteriaceae 0.38 ± 0.06 0.58 ± 0.05 0.023
 Genus level Moryella 0.29 ± 0.05 0.56 ± 0.04 0.002
 Genus level Unclassified Clostridia 0.20 ± 0.02 0.32 ± 0.04 0.012
 Genus level CF231 0.09 ± 0.02 0.21 ± 0.03 0.009
 Genus level Unclassified Lachnospiraceae 0.07 ± 0.01 0.11 ± 0.01 0.042
 Genus level p-75-a5 0.05 ± 0.01 0.10 ± 0.02 0.023
 Genus level Unclassified Mogibacteriaceae 0.05 ± 0.01 0.08 ± 0.01 0.049
 Genus level R4-45B 0.01 ± 0.01 0.04 ± 0.01 0.019
 Genus level Blautia 0.004 ± 0.001 0.013 ± 0.003 0.004
 Genus level Adlercreutzia 0.004 ± 0.001 0.007 ± 0.001 0.046
 Genus level Unclassified Christensenellaceae 0.004 ± 0.001 0.007 ± 0.001 0.043
 Genus level Unclassified Anaerolineae 0.003 ± 0.000 0.005 ± 0.001 0.018
 Species level Unclassified Methanomassiliicoccaceae 23.41 ± 1.31 14.65 ± 2.96 0.014
 Species level Unclassified Methanobrevibacter 5.48 ± 0.65 8.24 ± 1.05 0.033
 Species level Unclassified group11 10.72 ± 0.86 6.22 ± 1.69 0.019
 Species level Candidatus Methanomethylophilus alvus 4.46 ± 0.37 2.68 ± 0.75 0.027
Kinsella composite hybrid
 Genus level Unclassified Bacteroidales 1.04 ± 0.13 1.62 ± 0.09 0.003
 Genus level Unclassified Bacteroidetes 0.86 ± 0.16 1.73 ± 0.15 0.001
 Genus level Butyrivibrio 0.97 ± 0.12 1.58 ± 0.18 0.009
 Genus level Unnamed Victivallaceae 0.77 ± 0.17 1.70 ± 0.21 0.006
 Genus level Desulfovibrio 0.21 ± 0.03 0.43 ± 0.05 0.002
 Genus level Unnamed Mogibacteriaceae 0.24 ± 0.02 0.36 ± 0.05 0.042
 Genus level Unclassified Clostridia 0.20 ± 0.02 0.29 ± 0.02 0.009
 Genus level Unnamed Christensenellaceae 0.07 ± 0.01 0.25 ± 0.10 0.036
 Genus level Unclassified Paraprevotellaceae 0.18 ± 0.03 0.12 ± 0.01 0.015
 Genus level Shuttleworthia 0.26 ± 0.09 0.03 ± 0.01 0.008
 Genus level Unnamed Paraprevotellaceae 0.19 ± 0.04 0.10 ± 0.01 0.045
 Genus level Unclassified Aeromonadales 0.15 ± 0.07 0.01 ± 0.00 0.027
 Genus level Unnamed Spirochaetaceae 0.04 ± 0.01 0.10 ± 0.02 0.015
 Genus level Desulfobulbus 0.10 ± 0.03 0.03 ± 0.01 0.009
 Genus level Unclassified Verrucomicrobia 0.04 ± 0.01 0.07 ± 0.01 0.045
 Genus level Unnamed R4-45B 0.02 ± 0.01 0.07 ± 0.02 0.008
 Genus level Mitsuokella 0.05 ± 0.01 0.01 ± 0.00 0.029
 Genus level L7A_E11 0.01 ± 0.00 0.04 ± 0.01 0.006
 Genus level Roseburia 0.04 ± 0.01 0.01 ± 0.00 0.020
 Genus level Blautia 0.01 ± 0.00 0.04 ± 0.01 0.035
 Genus level Unclassified Lentisphaeria 0.01 ± 0.00 0.03 ± 0.01 0.005
 Genus level Unclassified Desulfovibrionaceae 0.01 ± 0.00 0.02 ± 0.01 0.039
 Species level Methanobrevibacter smithii 2.04 ± 0.17 2.95 ± 0.38 0.040
  1. 1P values were calculated between H- and L-RFI groups using t test within each breed, based on arcsine square root-transformed relative abundances
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Microbiome

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