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Table 5 Abundances of differential functional categories 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

  Functional category H-RFI L-RFI P value
(mean ± SEM; cpm) (mean ± SEM; cpm)
Angus
 M-metatranscriptome RNA processing and modification 49.84 ± 10.56 195.48 ± 103.74 0.021
Charolais
 Metagenome Cell cycle control, cell division, and chromosome partitioning 12,909.00 ± 347.45 11,589.90 ± 301.67 0.008
 Metagenome Secondary metabolites biosynthesis, transport, and catabolism 12,971.28 ± 700.02 11,296.28 ± 508.41 0.033
 T-metatranscriptome Translation, ribosomal structure, and biogenesis 96,639.54 ± 3962.26 84,353.42 ± 3284.80 0.026
 T-metatranscriptome Transcription 50,431.27 ± 982.96 48,084.54 ± 739.42 0.025
 T-metatranscriptome Coenzyme transport and metabolism 32,933.44 ± 1089.03 35,990.82 ± 1219.48 0.046
 T-metatranscriptome Chromatin structure and dynamics 874.42 ± 160.48 1409.80 ± 122.53 0.041
 M-metatranscriptome Translation, ribosomal structure, and biogenesis 92,501.13 ± 4666.25 72,050.06 ± 3878.38 0.001
 M-metatranscriptome Coenzyme transport and metabolism 33,326.68 ± 825.36 38,128.97 ± 1781.97 0.014
Kinsella composite hybrid
 Metagenome Intracellular trafficking, secretion, and vesicular transport 16,275.15 ± 367.52 14,238.87 ± 417.81 0.001
 T-metatranscriptome Cell motility 24,372.19 ± 1793.06 33,107.68 ± 5178.07 0.044
 T-metatranscriptome Nucleotide transport and metabolism 28,338.08 ± 1255.51 24,255.68 ± 1009.29 0.010
 T-metatranscriptome Cytoskeleton 4102.77 ± 1936.53 4132.47 ± 3014.61 0.036
 M-metatranscriptome Cell motility 24,493.50 ± 1808.59 37,334.38 ± 6269.31 0.013
  1. cpm counts per million reads
  2. P values were obtaining between H- and L-RFI steers using DESeq2 within each breed