Table 2 Relative abundance (%) of the top bacterial genera in the faecal samples from mothers and piglets of high and low health status comparing illumina and nanopore results

Symphothece

PCC-7002

1.91

9.08

2.80

8.62

0.04

0.66

0.09

0.34

Muribaculaceae

4.84

6.07

5.10

5.39

0.48

0.54

0.45

0.48

Prevotella

7.80

4.88

6.94

5.92

2.26

1.20

1.21

1.28

Treponema

4.76

0.82

4.16

1.02

0.57

0.05

0.38

0.07

Lactobacillus

4.99

4.75

3.95

7.59

7.23

5.01

7.48

11.02

Oscillospiraceae

UCG-002

2.10

5.56

2.04

6.25

2.39

6.10

2.92

5.52

Clostridium

sensu stricto 1

4.37

1.01

6.97

1.25

7.65

1.51

11.26

3.33

Rikenellaceae

RC9 group

4.49

3.86

4.19

4.10

8.46

18.96

10.57

19.90

Phascolarctobacterium

2.82

5.00

2.71

4.43

2.26

3.88

2.24

3.08

Christensenellaceae

R7 group

3.32

5.89

2.74

3.53

6.60

9.19

4.65

5.93

Escherichia-Shigella

0.13

4.91

0.23

4.30

0.29

8.00

1.66

8.60

Clostridia vadinBB60 group

1.41

4.41

1.06

4.08

1.31

5.22

1.47

3.63

Oscillospiraceae

UCG-005

3.58

1.18

3.14

0.64

7.35

2.79

5.85

1.97

Terrisporobacter

3.23

0.10

3.57

0.06

4.99

0.16

5.13

0.96