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Table 3 Leading SNPs associated with feed intake and efficiency in two laying periods

From: Genome-wide association studies for feed intake and efficiency in two laying periods of chickens

Traitsa

SNP

GGAb

Position

P valuec

MAFd

βe

CPV % (se)f

Candidate/nearest gene

Location (kb)g

FI1

rs14916642

1

168,476,105

1.40e−11*

0.42 (T/G)

−0.32

5.44 (0.07)

CAB39L

Intron 4

rs314523951

4

75,701,319

4.01e−7*

0.22 (T/C)

0.23

1.93 (0.03)

LDB2

U 55.53

FI2

rs315069556

1

170,920,135

1.44e−9*

0.41 (A/G)

−0.29

4.41 (0.06)

UFM1

U 38.06

rs316723909

27

3,464,323

3.91e−8*

0.09 (G/A)

0.38

2.37 (0.03)

GIP

U 3.78

rs315557710

1

159,514,826

2.35e−7*

0.45 (T/A)

−0.22

2.69 (0.04)

LOC427010

D 1510.07

RFI1

rs317358229

2

10,015,354

1.52e−5

0.31 (C/T)

−5.57

1.62 (0.02)

DIP2C

U 15.58

rs314206946

5

16,019,472

3.42e−6

0.33 (C/T)

5.83

1.82 (0.03)

LOC423119

intron 9

RFI2

rs315135692

27

3,247,383

6.89e−7*

0.30 (A/G)

9.43

1.77 (0.03)

LOC429785

exon 1

FCR1

rs13870350

1

56,004,454

6.33e−6

0.34 (A/G)

0.22

1.98 (0.03)

TBXAS1

intron 6

rs317101341

7

16,787,525

2.59e−6

0.05 (A/C)

0.45

1.69 (0.02)

CDCA7

D 42.52

FCR2

rs312620976

11

642,639

1.86e−6

0.21 (C/T)

0.24

1.85 (0.03)

CETP

D 16.04

  1. aFI1, RFI1 and FCR1, and FI2, RFI2 and FCR2 represent daily feed intake, residual feed intake and feed conversion ratio in laying periods between 37 and 40 weeks and between 57 and 60 weeks
  2. bChicken chromosome
  3. c* Indicates that the SNP P value reaches a genome-wise significance
  4. dAllele frequency of the first listed marker
  5. eEffect of allele substitution
  6. fContribution to phenotypic variance and standard error
  7. gU and D indicate that the SNP is upstream and downstream of a gene, respectively
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Genetics Selection Evolution

ISSN: 1297-9686