Skip to main content

Table 3 Individual and overlapping QTL regions for semen traits in L1

From: Weighted single-step GWAS and gene network analysis reveal new candidate genes for semen traits in pigs

Chra

QTL region (Mb)b

Nb SNPc

Var (%)d

Var (%)

Var (%)

Var (%)

Candidate geneg

MOTe

PROMOT

lnNcells

ABN

1

135.51–136.31

17

1.2

1.2

-f

6.0

-h

1

255.48–256.28

17

1.2

–

–

1.5

–

1

290.90–291.84

25

1.0

–

–

1.3

–

1

305.18–305.98

23

–

–

4.6

–

–

3

28.53–29.33

18

1.0

–

–

2.9

–

4

28.25–29.05

12

2.5

6.4

–

5.9

–

4

84.90–85.73

21

1.4

2.5

–

–

–

4

123.12–124.20

30

1.8

1.0

–

1.3

–

5

17.61–18.47

26

7.5

3.0

–

–

SCN8A

6

8.24–9.13

20

2.6

1.1

–

–

–

8

16.06–16.86

20

3.2

1.7

–

–

–

9

139.53–140.63

23

–

1.8

4.3

5.6

PTGS2, PLA2G4A

10

10.58–11.45

23

1.2

1.5

1.0

6.9

–

12

6.23–7.03

32

3.4

–

–

–

DNAI2

12

40.76–41.56

17

1.2

1.7

–

–

 

13

143.61–144.69

13

1.2

1.0

–

–

IQCG

14

4.13–5.22

19

1.5

8.7

–

3.7

LOC102167830

14

72.83–73.63

16

–

–

6.8

–

–

14

99.70–100.51

25

1.7

1.2

–

–

–

15

61.93–62.73

15

3.5

–

–

–

–

  1. aChromosome
  2. bPosition of QTL region
  3. cNumber of SNPs within the QTL region
  4. dPercentage of genetic variance explained by the QTL region
  5. eSemen traits: MOT: sperm motility; PROMOT: sperm progressive motility; lnNcells: number of sperm cells per ejaculate; ABN: total morphological abnormalities
  6. fThe percentage of genetic variance explained by the QTL region is < 1%. When the variance is reported for more than one trait, the QTL region is overlapping across traits
  7. gBest candidate gene(s) in the region
  8. hNo candidate genes associated with the trait