Table 1 Markers significantly associated with stripe rust field resistance in India, Kenya, Mexico and greenhouse resistance in two or more datasets, their positions, p values for the test of significance, additive effects, percentage variation explained, their designated linkage-disequilibrium based quantitative trait loci (QTL) and the percentage of lines with favorable alleles (FAs) at the QTL.

From: Genome-wide mapping and allelic fingerprinting provide insights into the genetics of resistance to wheat stripe rust in India, Kenya and Mexico

Marker

Chromo-some

Physical position (bps)

Genetic position (cM)

p value

Additive effect

Percentage variation explained (%)

Dataset

Designated QTL

Percentage of lines with FAs at the QTL (Number of FAs/Number of non-missing alleles)

1D_9038601

1DS

9038601

11

3.27E−18

6.65

1.06

Njoro OS1 panel 1718A

QYr.cim-1DS.1

2.8% (1,275/45,088)

1.79E−08

2.41

0.40

Njoro OS1 panel 1819A

2A_9121927

2AS

9121927

8.9

2.10E−04

0.53

1.76

Seedling panel 1718

QYr.cim-2AS.1

79.3% (41,293/52,067)

4.75E−05

0.49

3.66

Seedling panel 1415

2A_14418760

2AS

14418760

8.9

4.28E−07

1.39

3.29

Njoro MS2 panel 1314

4.15E−04

0.42

0.34

Seedling combined panel

1.52E−05

0.64

4.08

Seedling panel 1415

2A_14978553

2AS

14978553

8.9

8.54E−24

1.14

11.20

Toluca panel 1617

1.92E−23

2.20

11.46

Toluca panel 1819

2A_15449240

2AS

15449240

8.9

1.70E−05

1.52

2.31

Njoro MS1 panel 1415

7.52E−07

1.53

3.16

Njoro MS2 panel 1314

2A_17830617

2AS

17830617

8.9

2.41E−05

1.59

2.24

Njoro MS1 panel 1415

4.06E−24

1.10

11.36

Toluca panel 1617

2A_18495181

2AS

18495181

8.9

1.64E−11

6.34

5.32

Celaya panel 1415

4.89E−21

1.99

3.21

Toluca combined panel

2.91E−07

1.67

3.41

Toluca panel 1314

2.79E−23

2.17

11.38

Toluca panel 1819

2B_152503636

2BS

152503636

77.7

2.19E−05

1.01

2.15

Njoro MS1 panel 1516

QYr.cim-2BS.2

68.9% (31,980/46,417)

1.81E−08

4.88

4.02

Njoro MS1 panel 1819

1.34E−05

2.32

2.51

Njoro OS1 panel 1819

2B_153613233

2BS

153613233

77.7

2.56E−05

1.02

2.12

Njoro MS1 panel 1516

5.80E−08

4.82

3.75

Njoro MS1 panel 1819

2B_155142247

2BS

155142247

77.7

2.17E−09

9.23

4.24

Ludhiana panel 1415

QYr.cim-2BS.3

10.6% (5,479/51,732)

2.09E−12

5.03

0.71

Njoro OS1 panel 1718A

2B_155155706

2BS

155155706

77.7

2.17E−09

9.23

4.24

Ludhiana panel 1415

2.21E−08

9.11

3.66

Ludhiana panel 1718

1.44E−05

3.93

2.30

Njoro MS1 panel 1718

8.48E−07

11.81

2.95

Njoro MS2 panel 1718

2B_157266347

2BS

157266347

77.7

7.72E−09

9.06

3.88

Ludhiana panel 1718

1.41E−05

3.80

2.31

Njoro MS1 panel 1718

1.64E−12

5.08

0.71

Njoro OS1 panel 1718A

1.57E−07

4.85

3.52

Ludhiana panel 1819

2B_765454910

2BL

765454910

134

1.44E−12

0.44

1.21

Seedling combined panel

QYr.cim-2BL.2

14.1% (7,337/52,005)

6.59E−13

0.66

5.63

Seedling panel 1516

8.85E−12

0.61

5.27

Seedling panel 1617

2B_765461540

2BL

765461540

134

1.66E−17

0.65

1.72

Seedling combined panel

1.21E−18

0.92

8.39

Seedling panel 1516

2.07E−11

0.68

5.09

Seedling panel 1617

1.61E−07

0.49

3.49

Seedling panel 1819

2D_572256847

2DL

572256847

82.4

1.05E−12

5.19

6.28

Njoro MS1 panel 1819

QYr.cim-2DL.1

30% (14,395/48,053)

4.79E−28

13.10

13.96

Njoro MS2 panel 1718

1.10E−27

4.05

1.64

Njoro OS1 panel 1718A

6.59E−06

1.87

2.67

Njoro OS1 panel 1819

2D_575686517

2DL

575686517

82.4

1.03E−12

5.18

6.29

Njoro MS1 panel 1819

1.32E−28

13.12

14.27

Njoro MS2 panel 1718

8.67E−29

4.12

1.71

Njoro OS1 panel 1718A

5.40E−06

1.91

2.71

Njoro OS1 panel 1819

2D_634645061

2DL

634645061

101.1

8.64E−10

10.30

4.71

Karnal panel 1819

QYr.cim-2DL.2

5.3% (2,648/50,079)

2.94E−07

3.75

3.01

Ludhiana panel 1617

3.27E−06

7.38

2.61

Ludhiana panel 1718

1.32E−07

7.01

3.56

Ludhiana panel 1819

1.30E−06

4.31

2.80

Njoro MS1 panel 1718

1.64E−14

2.59

0.72

Njoro OS1 panel 1819A

2.14E−05

3.05

2.26

Njoro OS2 panel 1819

5.11E−06

0.36

0.54

Seedling combined panel

2D_635168473

2DL

635168473

101.1

8.64E−10

10.31

4.71

Karnal panel 1819

4.37E−07

3.65

2.93

Ludhiana panel 1617

3.27E−06

7.38

2.61

Ludhiana panel 1718

1.32E−07

7.01

3.56

Ludhiana panel 1819

1.30E−06

4.31

2.80

Njoro MS1 panel 1718

7.36E−15

2.61

0.74

Njoro OS1 panel 1819A

2.14E−05

3.05

2.26

Njoro OS2 panel 1819

1.57E−05

0.34

0.49

Seedling combined panel

3A_699522923

3AL

699522923

131.9

1.28E−04

0.69

2.00

Njoro MS1 panel 1819

QYr.cim-3AL.2

13.4% (5,858/43,635)

2.90E−05

0.25

2.33

Njoro OS1 panel 1819

4A_738980353

4AL

738980353

134

1.15E−09

7.70

4.37

Ludhiana panel 1415

QYr.cim-4AL.1

15.9% (7,590/47,772)

2.81E−04

4.64

1.82

Ludhiana panel 1819

4A_741641265

4AL

741641265

140.5

1.13E−06

6.09

2.89

Ludhiana panel 1415

3.97E−04

4.89

1.61

Ludhiana panel 1718

2.23E−04

4.74

1.88

Ludhiana panel 1819

4D_1663785

4DS

1663785

–

2.34E−13

5.62

0.77

Njoro OS1 panel 1718A

QYr.cim-4DS.1

2.7% (1,287/47,458)

2.31E−08

2.28

0.40

Njoro OS1 panel 1819A

4D_3238140

4DS

3238140

–

9.13E−04

1.56

1.56

Njoro MS1 panel 1819

QYr.cim-4DS.2

32.7% (15,572/47,661)

4.09E−05

0.19

0.45

Seedling combined panel

4D_3288586

4DS

3288586

–

5.18E−04

1.53

1.69

Njoro MS1 panel 1819

7.34E−04

1.14

1.51

Njoro OS2 panel 1819

5A_705565647

5AL

705565647

128

2.68E−06

0.64

4.74

Seedling panel 1415

QYr.cim-5AL.1

9.8% (5,101/51,918)

1.93E−08

0.59

3.53

Seedling panel 1516

5A_706222318

5AL

706222318

128

2.68E−06

0.64

4.74

Seedling panel 1415

2.16E−08

0.59

3.51

Seedling panel 1516

3.69E−07

0.49

3.04

Seedling panel 1617

5A_708317841

5AL

708317841

128

3.89E−09

0.49

0.86

Seedling combined panel

2.22E−07

0.51

3.14

Seedling panel 1617

5B_531600857

5BL

531600857

86

9.40E−04

2.29

1.55

Njoro OS1 panel 1819

QYr.cim-5BL.1

82.5% (40,635/49,245)

1.28E−04

0.26

1.88

Toluca panel 1819

6B_129515254

6BS

129515254

52

6.46E−04

2.54

1.63

Karnal panel 1819

QYr.cim-6BS.1

94.2% (40,743/43,246)

1.16E−04

1.41

2.02

Ludhiana panel 1819

7.45E−05

0.63

2.12

Njoro OS1 panel 1819

6B_197242163

6BS

197242163

65

4.08E−04

3.41

0.20

Njoro OS1 panel 1718A

5.68E−04

3.05

1.57

Njoro OS2 panel 1819

6B_703287103

6BL

703287103

135

6.14E−04

1.70

0.19

Njoro OS1 panel 1718A

QYr.cim-6BL.2

80.4% (36,141/44,928)

1.90E−04

2.39

1.91

Njoro OS1 panel 1819

Back to article page