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Table 4 Single Nucleotide Polymorphisms significantly associated with goat milk yield and resilience phenotypes at genome-* and chromosome-wide level

From: Genetic analysis of novel phenotypes for farm animal resilience to weather variability

Chr

Position (bp)

Trait

Beta effect ± SE

-log10(P)

pve (%)

Nearest genes

3

2,389,800

TMY

0.6580 ± 0.1501

4.93

0.18

HDAC4

4

42,384,455

TMY

0.7455 ± 0.1646

5.22

0.19

HECW1

8

39,875,253

TMY

1.1943 ± 0.1863

9.82*

0.37

SLC1A1; GLIS3

13

58,370,939

TMY

0.7424 ± 0.1484

6.24*

0.24

BMP7; TFAP2C

13

66,542,955

T

−0.0041 ± 0.0010

4.59

0.17

RPRD1B; LOC108637373

THI

−0.0025 ± 0.0006

4.53

0.16

14

69,473,160

TMY

−0.7232 ± 0.1597

5.22

0.19

LOC102186225

19

26,192,068

T

0.0040 ± 0.0009

4.64

0.17

TRNAS-UGA; KIF1C

19

26,578,715

T

0.0040 ± 0.0010

4.52

0.16

LOC102178853; ALOX12

19

26,610,550

T

0.0042 ± 0.0010

4.90

0.18

RNASEK

abs (T)

0.0156 ± 0.0015

24.55*

0.91

THI

0.0024 ± 0.0006

4.60

0.17

abs (THI)

0.0120 ± 0.0012

24.12*

0.89

TMY

3.6668 ± 0.1916

79.53*

2.78

19

26,662,221

T

0.0039 ± 0.0010

4.50

0.16

ASGR2

19

27,480,733

T

0.0043 ± 0.0009

5.40

0.20

ALOXE3

THI

0.0025 ± 0.0006

5.13

0.19

20

3,621,302

TMY

−0.7984 ± 0.1828

4.90

0.18

FGF18; SMIM23

20

10,173,528

TMY

0.8545 ± 0.1882

5.25

0.19

NAIP

24

52,818,318

abs (T)

−0.0074 ± 0.0017

4.74

0.17

LOC108633777; LOC108633778

  

abs (THI)

−0.0058 ± 0.0013

4.66

0.17

 
  1. TMY Total lifetime milk yield, T Performance change per unit of temperature (°C) change, THI Performance change per unit of temperature-humidity index change, abs Absolute value of corresponding performance change, Chr Chromosome, pve Percentage of explained phenotypic variance. Genome-wide significances are indicated with an asterisk *