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Table 2 List of SNPs significantly associated with APR to the Ug99 race group in Kenya and Ethiopia. ‘Chromosome 0’ includes all unmapped SNP markers

From: Association mapping of North American spring wheat breeding germplasm reveals loci conferring resistance to Ug99 and other African stem rust races

SNPa

Chrb

Pos (cM)

P value

R2 (%)c

KenOff13d

KenMain13e

EthOff13f

EthOff14g

IWB1351

0

0.0

9.18E-04

1.4

-

-

-

+

IWB11987

0

0.0

2.71E-04

4.0

-

-

-

-

IWB13304

0

0.0

9.18E-04

1.4

-

-

-

+

IWB20617

0

0.0

8.92E-04

0.5

-

-

-

-

IWB40153

0

0.0

9.18E-04

1.4

-

-

-

+

IWB65634

0

0.0

2.18E-04

3.9

-

-

-

-

IWA3120

1B

90.3

9.07E-04

0.6

-

-

-

-

IWB21176

1B

90.3

9.64E-04

0.6

-

-

+

-

IWB31027

1B

90.3

9.64E-04

0.6

-

-

+

-

IWB56771

1B

90.3

9.34E-04

0.6

-

-

+

-

IWB59663

1B

90.3

9.64E-04

0.6

-

-

+

-

IWB49915

2A

122.5

9.18E-04

1.4

-

-

-

+

IWB49914

2A

123.6

9.18E-04

1.4

-

-

-

+

IWB22672

2A

159.7

9.98E-04

0.6

-

-

+

-

IWB2369

2B

48.5

7.68E-04

0.4

-

-

-

-

IWA4275

2B

105.9

8.75E-04

1.4

-

-

-

-

IWA8534

2B

126.1

1.80E-04

0.3

-

+

-

-

IWB23660

2B

126.3

1.79E-04

0.3

-

+

-

-

IWB25868

2B

126.3

3.11E-04

0.7

-

+

-

-

IWB69631

2B

126.3

3.11E-04

0.7

-

+

-

-

IWB25869

2B

126.5

3.11E-04

0.7

-

+

-

-

IWB32143

2B

157.2

5.05E-04

4.6

-

-

-

-

IWB8481

2D

9.2

8.44E-04

0.5

-

-

-

-

IWA5203

3B

11.5

7.97E-04

0.4

-

-

-

-

IWB30730

3B

11.5

7.74E-04

1.3

-

-

-

-

IWB12193

3B

11.6

3.24E-04

4.2

-

+

-

-

IWB49924

3B

11.6

5.65E-04

0.2

-

-

-

-

IWB65737

3B

11.6

9.15E-04

0.6

-

-

-

-

IWB60424

3B

13.8

5.02E-04

0.1

-

-

-

-

IWB36021

3B

14.1

8.31E-04

1.3

-

-

-

-

IWA2493

3B

32.2

1.49E-04

0.2

-

-

+

-

IWB40004

4A

30.9

9.12E-04

0.6

-

+

-

-

IWB52694

4A

43.4

9.96E-05

3.2

-

+

-

-

IWB46973

4A

47.0

8.26E-04

1.3

-

+

-

-

IWB56556

4A

47.0

7.54E-04

1.3

-

-

-

-

IWB67877

4A

47.0

8.34E-04

1.3

-

-

-

-

IWB47184

5A

69.6

3.44E-04

0.3

-

-

+

-

IWA233

6A

66.0

8.48E-04

1.3

-

+

-

-

IWB24757

6B

119.7

6.33E-04

1.1

-

-

-

-

IWB35697

6B

119.7

1.77E-05

1.3

-

-

+

+

IWB6474

6B

119.7

6.33E-04

1.1

-

-

-

-

IWB45581

6B

120.6

3.00E-04

0.6

-

-

-

-

IWB5070

7A

211.0

2.19E-04

3.9

-

-

-

-

IWB1874

7A

212.7

3.18E-04

0.3

-

-

-

-

IWB4830

7A

212.7

4.50E-04

4.5

-

-

+

-

IWB62560

7A

213.2

2.30E-04

0.6

-

-

-

-

IWB47548

7B

153.4

6.50E-04

0.3

-

-

-

-

IWA4175

7B

177.1

9.52E-04

0.6

-

-

-

-

  1. a Underlined SNP markers were detected during the ‘combined’ mapping approach but not during the ‘APR-specific’ mapping approach. SNP markers in bold were detected in both mapping approaches
  2. b Chr ‘0’ indicates unmapped SNPs that were significant in the analysis
  3. c R2 Indicates percent of phenotypic variation explained by the significant locus
  4. d–g The ‘+’ sign indicates that the SNP was also detected in GWAS results in each of the environments. The ‘-’ sign indicates that the SNP was detected only in combined analysis of all environments, and not in individual environments