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Table 4 Comparisons of alpha-diversity indices1 between beef cattle with different RFI values

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

 

Angus (n = 16)

Charolais (n = 16) (mean ± SEM)

Kinsella composite hybrid (n = 16)

Bacteria

 Chao1

  L-RFI

317.03 ± 11.83

319.87 ± 12.95

381.88 ± 37.60

  H-RFI

337.64 ± 21.82

326.69 ± 16.70

358.74 ± 27.93

  P value2

NS

NS

NS

 Shannon evenness

  L-RFI

0.57 ± 0.01

0.59 ± 0.01

0.57 ± 0.01

  H-RFI

0.58 ± 0.01

0.55 ± 0.02

0.54 ± 0.01

  P value2

NS

0.03

NS

 Simpson evenness

  L-RFI

0.05 ± 0.00

0.05 ± 0.01

0.05 ± 0.00

  H-RFI

0.05 ± 0.00

0.04 ± 0.00

0.04 ± 0.00

  P value2

NS

NS

NS

 Shannon index

  L-RFI

3.17 ± 0.05

3.28 ± 0.06

3.21 ± 0.04

  H-RFI

3.18 ± 0.06

3.06 ± 0.10

3.01 ± 0.07

  P value2

NS

NS

0.04

 Inverse Simpson

  L-RFI

12.26 ± 0.96

13.89 ± 1.22

13.18 ± 0.74

  H-RFI

12.78 ± 0.97

10.96 ± 1.31

10.53 ± 1.14

  P value2

NS

NS

NS

Archaea

 Chao1

  L-RFI

25.88 ± 1.03

28.06 ± 2.36

24.17 ± 0.95

  H-RFI

24.25 ± 1.22

24.65 ± 1.38

25.31 ± 1.32

  P value2

NS

NS

NS

 Shannon evenness

  L-RFI

0.64 ± 0.02

0.62 ± 0.02

0.66 ± 0.02

  H-RFI

0.64 ± 0.02

0.66 ± 0.01

0.65 ± 0.01

  P value2

NS

NS

NS

 Simpson evenness

  L-RFI

0.22 ± 0.02

0.20 ± 0.01

0.24 ± 0.02

  H-RFI

0.23 ± 0.02

0.26 ± 0.02

0.24 ± 0.01

  P value2

NS

0.03

NS

 Shannon index

  L-RFI

2.00 ± 0.07

1.95 ± 0.06

2.07 ± 0.07

  H-RFI

1.98 ± 0.07

2.07 ± 0.04

2.05 ± 0.03

  P value2

NS

NS

NA

 Inverse Simpson

  L-RFI

5.21 ± 0.51

4.74 ± 0.37

5.67 ± 0.46

  H-RFI

5.19 ± 0.50

5.93 ± 0.36

5.48 ± 0.14

  P value2

NS

0.03

NS

  1. NS not significant with P value not less than 0.05
  2. 1To make alpha-diversity indices comparable among samples, the number of sequences per sample was normalized to the lowest reads number for bacteria (n = 274,885) and archaea (n = 4263), respectively
  3. 2P values were obtained between H- and L-RFI groups within each breed using the Kruskal-Wallis rank-sum test