Skip to main content

Table 5 Association mapping for resistance to common rust of maize in the Drought Tolerant Maize for Africa panel of maize inbred lines

From: Combined linkage and association mapping reveal QTL for host plant resistance to common rust (Puccinia sorghi) in tropical maize

Trait a

QTL

SNP markerb

Bin

Pos.

BA09A

BA09B

Kenya09

BA10

BA11

Celaya12

P d

R2,e

P d

R2,e

P d

R2,e

P d

R2,e

P d

R2,e

P d

R2,e

FDR

rp1.1

PZE-101149049

1.06

192,154,274

n.s.

–

n.s.

–

n.s.

–

1.62 × 10 − 05

7.6

3.46 × 10− 02

2.3

n.s.

–

 

PZE-101149055

1.06

192,158,701

n.s.

–

n.s.

–

n.s.

–

2.44 × 10 − 05

7.4

3.28 × 10− 02

2.4

n.s.

–

 

PZE-101149110

1.06

192,280,029

n.s.

–

n.s.

–

n.s.

–

1.64 × 10 − 05

7.6

3.58 × 10− 02

2.3

n.s.

–

rp3.1

PZE-103064079

3.04

97,422,248

2.04 × 10− 04

4.72

5.13 × 10− 03

2.8

6.66 × 10− 03

2.5

3.11 × 10–03

3

2.94 × 10 − 05

6.4

8.81x 10-03

2.34

rp3.2

PZE-103072633

3.04

115,864,889

n.s.

–

n.s.

–

n.s.

–

n.s.

–

9.10 × 10 − 06

8.2

1.86x 10-02

1.85

rp6.1

PZE-106060721

6.04

111,526,964

n.s.

–

n.s.

–

2.54 × 10 −05

7

n.s.

–

n.s.

–

n.s.

–

rp8.2

PZE-108085787

8.05

141,439,732

n.s.

–

n.s.

–

n.s.

–

n.s.

–

1.49 × 10 − 05

6.7

n.s.

–

MDR

rp1.1

PZE-101149049

1.06

192,154,274

n.s.

–

n.s.

–

∕

∕

1.92 × 10 −05

7.7

n.s.

–

n.s.

–

 

PZE-101149110

1.06

192,280,029

n.s.

–

n.s.

–

∕

∕

1.89 × 10 −05

7.7

n.s.

–

n.s.

–

rp3.1

PZE-103063977

3.04

97,261,544

2.19 × 10−04

4.83

9.30 × 10−03

2.51

∕

∕

2.97 × 10−03

3.1

6.77 × 10 −06

7.4

1.75 x 10-02

1.98

 

PZE-103063980

3.04

97,261,646

2.19 × 10− 04

4.83

9.30 × 10− 03

2.51

∕

∕

2.80 × 10−03

3.1

8.34 × 10 − 06

7.3

1.75 x 10-02

1.98

 

PZE-103064079

3.04

97,422,248

1.89 × 10−04

4.99

4.92 × 10− 03

3

∕

∕

2.31 × 10−03

3.3

5.65 × 10 −06

7.7

8.70-03

2.46

 

PZA-002742001

3.04

97,441,784

1.26 × 10−03

3.74

n.s.

–

∕

∕

1.90 × 10−02

1.9

1.61 × 10 −05

6.8

4.09 x 10-02

1.50

rp8.2

PZE-108085787

8.05

141,439,732

2.30 × 10− 02

1.78

n.s.

–

∕

∕

n.s.

–

9.03 × 10 −06

7.1

n.s.

–

AUDPC

rp1.1

PZE-101149049

1.06

192,154,274

n.s.

–

n.s.

–

∕

∕

1.07 × 10 −05

8.2

4.05 × 10− 02

2.3

n.s.

–

 

PZE-101149055

1.06

192,158,701

n.s.

–

n.s.

–

∕

∕

2.19 × 10 −05

7.7

3.03 × 10− 02

2.5

n.s.

–

 

PZE-101149110

1.06

192,280,029

n.s.

–

n.s.

–

∕

∕

1.06 × 10 −05

8.2

4.17 × 10− 02

2.2

n.s.

–

rp3.1

PZE-103063942

3.04

97,157,105

2.71 × 10−04

5.79

n.s.

–

∕

∕

1.40 × 10−02

3

3.18 × 10 −05

7.6

5.19 x 10-03

2.59

 

PZE-103063977

3.04

97,261,544

1.33 × 10−04

5.15

2.09 × 10− 02

1.85

∕

∕

6.84 × 10−03

2.6

8.42 × 10 −06

7.2

1.33 x 10-02

2.02

 

PZE-103063980

3.04

97,261,646

1.33 × 10−04

5.15

2.09 × 10− 02

1.85

∕

∕

6.63 × 10−03

2.6

1.03 × 10 −05

7.1

1.33 x 10-02

2.02

 

PZE-103064079

3.04

97,422,248

1.59 × 10−04

5.11

1.27 × 10− 02

2.19

∕

∕

5.70 × 10−03

2.7

8.08 × 10 −06

7.4

8.91 x 10-03

2.29

 

PZA-002742001

3.04

97,441,784

4.94 × 10−04

4.38

n.s.

–

∕

∕

3.24 × 10−02

1.6

1.53 × 10 −05

6.9

4.38 x 10-02

1.37

rp5.1

PZB00182.1

5.02

10,055,423

2.66 × 10 −05

7.38

n.s.

–

∕

∕

n.s.

–

1.22 × 10−02

3.1

n.s.

–

rp8.1

SYN30855

8.03

72,047,084

2.33 × 10 −08

12.7

2.42 × 10−02

–

∕

∕

n.s.

–

n.s.

–

n.s.

–

 

PZE-108044485

8.03

72,168,101

1.77 × 10 −05

7.93

n.s.

–

∕

∕

n.s.

–

n.s.

–

n.s.

–

 

PZE-108044552

8.03

72,223,299

1.69 × 10 −05

7.72

n.s.

–

∕

∕

n.s.

–

6.70 × 10−03

3.5

n.s.

–

 

PZE-108044562

8.03

72,238,277

2.16 × 10 −08

12.7

2.13 × 10−02

2.6

∕

∕

n.s.

–

6.24 × 10−04

5.2

n.s.

–

 

PZE-108045789

8.03

74,430,017

1.98 × 10 −08

13

2.49 × 10− 02

2.55

∕

∕

n.s.

 

2.12 × 10−04

6.1

n.s.

–

 

PZE-108045901

8.03

74,476,703

2.22 × 10 −08

12.7

2.25 × 10−02

2.56

∕

∕

n.s.

–

2.10 × 10− 02

2.7

n.s.

–

 

PZE-108047302

8.03

78,171,783

1.80 × 10 −05

7.7

n.s.

–

∕

∕

n.s.

–

n.s.

–

n.s.

–

 

PZE-108047365

8.03

78,293,010

1.47 × 10 −05

7.82

n.s.

–

∕

∕

n.s.

–

5.32 × 10−03

3.7

n.s.

–

 

PZE-108047455

8.03

78,555,578

1.57 × 10 −05

7.79

n.s.

–

∕

∕

n.s.

–

6.78 × 10−03

3.6

n.s.

–

 

PZE-108047486

8.03

78,677,089

1.63 × 10 −05

7.99

n.s.

–

∕

∕

n.s.

–

6.46 × 10−03

3.6

n.s.

–

 

PZE-108047488

8.03

78,684,842

1.74 × 10 −05

7.71

n.s.

–

∕

∕

n.s.

–

5.53 × 10−03

3.7

n.s.

–

 

PZE-108047536

8.03

78,758,640

1.46 × 10 −05

7.83

n.s.

–

∕

∕

n.s.

–

5.29 × 10−03

3.7

n.s.

–

rp8.2

PZE-108085787

8.05

141,439,732

1.95 × 10−02

1.86

6.30 × 10−02

1.16

∕

∕

n.s.

–

1.52 × 10 −05

6.7

n.s.

–

rp10.1

PZE-110093359

10.1

140,987,405

1.89 × 10 −05

8.78

2.57 × 10−02

2.73

∕

∕

n.s.

–

n.s.

–

n.s.

–

  1. aFDR final disease rating, MDR the mean of disease rating, AUDPC the area under disease progress curve
  2. bSignificant polymorphic sites for each SNP are shown in bold (P < 1.07 × 10−05 for 32,051 SNPs)
  3. cThe numbers of the line observed. dP value from association analysis carried out using the MLM incorporating population structure and kinship, using the integrated data from 5 locations. R2 values showing percentage phenotypic variation explained
  4. n.s. indicates not significant at α = 0.05