Skip to main content

Table 3 Representative markers for quantitative trait loci (QTL) of wheat pre-harvest sprouting resistance identified in at least two of the experiments using sprouting rates (%) evaluated in the fall 2011 (2011F), spring 2012 (2012S), fall 2012 (2012F) and spring 2013 (2013S) greenhouse experiments, the 2013 and 2014 Manhattan (2013MH and 2014MH) and 2013 and 2014 Hays (2013Hays and 2014Hays) field experiments, and using the best linear unbiased predictions (BLUP) of each accession from all the greenhouse (GH_BLUP) and field (Field_BLUP) experiments

From: Genome-wide association analysis on pre-harvest sprouting resistance and grain color in U.S. winter wheat

Chromosome

Marker name

Marker type

Chromosome position (cM)a

Positive allele frequency

p

R 2 (%)b

Experiment

1A

BS00011787_51

90K

34.28

0.49

3.30E-05

9.2

2013MH

1A

Kukri_c60564_136

90K

50.20

0.93

6.54E-05

9.1

2011F

1D

Ex_c6765_2118

90K

48.90

0.83

5.74E-04

6.7

2013S

1D

wsnp_Ku_c19622_29138795

90K

-

0.67

3.38E-04

7.3

2013S

1D

Xgwm337

SSR

-

0.18

4.98E-04

17.8

2012S

1.30E-04

13.3

2013S

4.70E-04

13.5

GH_BLUP

2D

BobWhite_c1477_315

90K

-

0.33

9.48E-04

6.2

2013S

2D

Xgwm539

SSR

-

0.11

5.00E-04

11.7

2013MH

6.00E-04

15.1

2014Hays

3.38E-04

16.7

Field_BLUP

3AS

wsnp_Ex_rep_c67702_66370241

9K

9.12

0.78

4.42E-05

9.5

2011F

3AS

wsnp_Ra_c2339_4506620

9K

9.12

0.38

5.28E-05

8.7

2013MH

5.66E-05

8.5

Field_BLUP

3AS

KASP-TaPHS1.1

STS

-

0.78

5.55E-05

9.3

2011F

3AS

Xbarc57.2

SSR

-

0.79

6.74E-06

14.0

2013MH

6.56E-06

14.2

2013Hays

9.46E-05

15.3

2014MH

2.00E-04

13.7

2014Hays

3.78E-06

15.9

Field_BLUP

3AL

wsnp_Ku_c5359_9531713

9K

L201.88

0.89

2.50E-04

7.6

2012S

3AL

Tamyb10-A1-66

STS

114.02

0.61

4.67E-07

12.1

2013MH

1.82E-05

9.2

2013Hays

3.00E-04

6.8

2014MH

2.83E-05

8.6

2014Hays

2.01E-06

10.9

Field_BLUP

3AL

Xwmc559-1

SSR

107.20

0.89

9.00E-04

10.4

2013Hays

3B

wsnp_BE446087B_Ta_2_1

9K

46.66

0.91

3.22E-05

9.3

2013Hays

3BL

Xbarc77

SSR

-

0.94

5.33E-04

12.3

2012S

4.00E-04

7.6

2013MH

2.00E-04

9.5

2014Hays

4.82E-04

8.1

Field_BLUP

3BL

Xgwm108

SSR

-

0.81

9.00E-04

7.0

2013MH

2.00E-04

7.5

2014MH

5.68E-04

7.3

Field_BLUP

3BL

Xgwm181

SSR

-

0.92

3.00E-04

12.2

2011F

3DS

BS00067117_51

90K

-

0.47

8.26E-06

11.1

2014MH

8.56E-05

7.4

2014Hays

3DS

Kukri_c50527_241

90K

-

0.35

8.46E-04

6.3

2012S

2.97E-05

9.7

2014MH

3DS

BobWhite_c3111_636

90K

-

0.32

1.15E-05

10.8

2014MH

8.88E-05

7.4

2014Hays

7.09E-05

8.3

Field_BLUP

3DL

BS00067163_51

90K

92.34

0.52

7.79E-05

8.3

2013MH

3DL

Tamyb10-D1-93

STS

-

0.56

6.00E-04

5.7

2013MH

3.00E-04

6.7

2013Hays

4A

Ex_c66324_1151

90K

76.97

0.42

3.67E-17

47.6

2012F

2.37E-05

9.9

2014MH

1.34E-12

31.5

GH_BLUP

4A

wsnp_Ex_rep_c66324_64493429

90K

76.97

0.43

1.51E-16

45.3

2012F

2.60E-05

9.8

2014MH

2.99E-12

30.4

GH_BLUP

4A

Xbarc236

SSR

92.92

0.23

7.41E-05

14.1

2012F

4A

Xwmc757

SSR

-

0.11

9.84E-04

11.9

2012S

5A

BobWhite_c4004_61

90K

35.36

0.83

2.62E-04

7.6

2013S

5A

Excalibur_c54774_408

90K

47.99

0.77

5.60E-04

6.7

2012S

6B.2

wsnp_Ex_c19525_28494827

90K

94.46

0.91

1.21E-05

10.2

2013MH

8.19E-06

10.8

2013Hays

2.81E-05

9.3

Field_BLUP

6B.2

Excalibur_c15109_942

90K

95.60

0.64

4.29E-04

7.0

2013S

6B

Xgwm88

SSR

-

0.91

9.55E-04

8.9

2012S

7A

wsnp_Ex_c26509_35755018

9K

69.63

0.95

1.41E-06

13.5

2011F

7A

Xwmc603

SSR

-

0.92

1.00E-04

25.4

2011F

7A

Xgwm130

SSR

-

0.94

5.00E-04

10.6

2013MH

1A/1D/3A/5B

Xbarc148

SSR

-

0.83

1.38E-08

22.8

2013MH

3.38E-05

11.9

2013Hays

2.22E-05

14.5

2014Hays

3.43E-06

14.7

Field_BLUP

5ABD

Xbarc232

SSR

-

0.92

6.00E-04

10.3

2013MH

4.40E-05

12.6

2014MH

3.97E-05

13.6

2014Hays

3.80E-04

10.9

Field_BLUP

  1. aThe positions of markers on W7984 reference sequence
  2. bPhenotypic variance explained by a significant marker significantly related to pre-harvest sprouting resistance