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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