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Table 3 Marker-trait association (MTA) for important grain size and shape characters using GLM (Q model) and MLM (Q + K model) approach in D-genome synthetic hexaploids

From: Genome-wide association for grain morphology in synthetic hexaploid wheats using digital imaging analysis

Trait

Marker

Chra

Posb

MAFc

GLM

MLM

QTL/Gened

     

P

R 2

P

R 2

 

FFD

wPt-6530

1A

84.3

0.4

1.07E-03

5.2

   
 

wPt-1301

2D

104

0.38

1.12E-03

7

  

MQTL19 [41]e

 

wPt-6343

2D

104

0.32

2.52E-04

8.6

1.69E-03

7.7

MQTL19 [41]

 

wPt-8356

3B

45.2

0.27

9.73E-04

5.2

  

*QTkw.sfr-3B.1

 

wPt-1159

3B

53.2

0.35

1.64E-04

5.8

1.82E-03

4.2

 
 

wPt-8915

3B

58.4

0.27

1.19E-03

5.1

9.37E-04

5.6

DREB-3B[42]

 

wPt-1940

3B

68.6

0.19

4.04E-04

5

  

LDD-3B [42]

 

TaCkx-D1

3D

30.2

0.12

0.0029

4.1

  

Q56 [19]

 

wPt-1325

6B

102

0.36

1.20E-03

6.7

   
 

wPt-2518

6D

79.6

0.36

1.06E-03

5.6

  

*QGyld.agt-6D

 

wPt-3147

7B

0

0.44

5.34E-04

4.8

  

*Qyld.idw-7B

 

wPt-5846

7B

17.4

0.45

1.02E-03

4.3

   
 

wPt-2565

7D

1.37

0.25

8.44E-04

6.6

   
 

Wx-D1

7D

.

 

0.0156

2.7

   

HArea

TaCwi-A1

2A

10.5

0.25

8.00E-03

3.2

   
 

TaSus-B1

2B

51.6

0.19

0.0234

7.1

  

FdGogat-B [42]

 

wPt-6477

2B

70

0.37

9.24E-04

7.6

1.69E-03

4.9

*Qyld.e3-2B

 

wPt-8319

2D

104

0.26

7.46E-04

8.4

  

MQTL19 [41, 43]

 

wPt-7992

3A

59

0.42

1.18E-05

13.6

9.56E-04

9.7

Vp1-A [42]

 

wPt-4660

4A

39.8

0.39

9.78E-04

5.1

  

*QGyld.agt-4A

 

wPt-5694

4A

52.6

0.38

3.82E-04

8.9

8.80E-04

8.1

 
 

wPt-0117

4A

60

0.36

3.22E-04

9

  

*QGwt.crc-4A

Length

wPt-9277

2A

109

0.33

1.23E-04

8.5

  

*QGwt.crc-2A; Q09 [19]

 

wPt-9793

2A

109

0.32

2.21E-04

8.4

  

*QGwt.crc-2A

 

wPt-0150

4A

99.8

0.12

9.01E-04

8.9

   

Thickness

wPt-8644

1A

136

0.27

4.24E-04

5.8

1.24E-03

5.1

Q17 [19]

 

wPt-5556

2B

60.6

0.44

6.77E-05

7.5

9.22E-04

5.4

*Qyld.crc-2B

 

wPt-4125

2B

63.2

0.43

2.04E-04

6.6

   
 

wPt-5672

2B

63.2

0.44

1.32E-04

6.8

1.61E-03

4.9

 
 

wPt-6192

2B

63.2

0.36

5.88E-04

6.6

   
 

wPt-7757

2B

63.2

0.44

9.62E-05

7.2

1.18E-03

5.2

 
 

TaCkx-D1

3D

30.2

0.12

4.03E-05

7.6

3.03E-05

6.3

Q56 [19]

 

wPt-0485

3D

160

0.39

1.06E-04

9.8

1.91E-03

7.2

*Qyld.e4-3D

 

wPt-2923

3D

160

0.4

1.12E-04

9.7

  

*Qyld.e4-3D

VArea

wPt-5556

2B

60.6

0.44

2.30E-05

8.6

3.04E-04

6.6

 
 

wPt-4125

2B

63.2

0.43

9.68E-05

7.4

9.07E-04

5.6

 
 

wPt-5672

2B

63.2

0.44

5.14E-05

7.8

5.85E-04

6

 
 

wPt-6192

2B

63.2

0.36

2.82E-04

7.4

1.70E-03

5.6

 
 

wPt-7757

2B

63.2

0.44

3.77E-05

8.1

4.55E-04

6.2

 
 

wPt-8776

2B

108

0.15

4.78E-04

7.4

   
 

TaCkx-D1

3D

30.2

0.12

0.0029

4.1

  

Q56 [19]

 

wPt-0485

3D

160

0.39

2.05E-04

9

  

*Qyld.e4-3D

 

wPt-2923

3D

160

0.4

1.96E-04

9

  

*Qyld.e4-3D

Volume

wPt-5556

2B

60.6

0.44

2.14E-04

6.5

8.70E-04

5.6

 
 

wPt-4125

2B

63.2

0.43

3.88E-04

6

1.58E-03

5.1

 
 

wPt-5672

2B

63.2

0.44

3.24E-04

6

1.46E-03

5.1

 
 

wPt-7757

2B

63.2

0.44

2.84E-04

6.2

1.17E-03

5.3

 
 

wPt-6477

2B

70

0.37

 

0

1.86E-03

4.8

*Qyld.e3-2B

 

wPt-3697

3A

161

0.07

1.05E-03

7.2

   
 

wPt-0485

3D

160

0.39

1.03E-03

7.4

  

*Qyld.e4-3D

 

wPt-2923

3D

160

0.4

 

0

1.41E-03

5.2

*Qyld.e4-3D

 

wPt-4660

4A

39.8

0.39

5.67E-04

5.7

  

*QGyld.agt-4A

Weight

wPt-3870

1A

19.7

0.47

 

0

0.0094

4.8

*Qyld.e1-1A

 

TaCwi-A1

2A

10.5

0.25

0.023

3

   
 

wPt-5556

2B

60.6

0.44

4.80E-04

5.5

0.00307

4.1

 
 

wPt-4125

2B

63.2

0.43

6.83E-04

5.2

0.00408

3.9

 
 

wPt-5672

2B

63.2

0.44

3.60E-04

5.6

0.00238

4.3

 
 

wPt-7757

2B

63.2

0.44

5.12E-04

5.4

0.00279

4.1

 
 

wPt-2266

2B

116

0.05

1.10E-03

6.8

   
 

wPt-8356

3A

29.6

0.27

5.00E-04

6.4

0.00868

3.7

 
 

wPt-3697

3A

161

0.07

 

0

0.00762

4.9

 
 

wPt-0485

3D

160

0.39

6.76E-05

10.4

0.00441

6

*Qyld.e4-3D

 

wPt-2923

3D

160

0.4

7.35E-05

10.3

0.00477

5.9

*Qyld.e4-3D

 

wPt-8164

3D

166

0.41

7.35E-05

10.2

0.00329

6.7

*QGyld.agt-3D

 

wPt-0484

5B

156

0.08

1.19E-03

6.7

0.00869

5

Q30 [19]

 

wPt-7241

7B

222

0.37

4.69E-04

8.7

0.00917

5.1

 

Width

wPt-8644

1A

136

0.27

4.24E-04

5.8

1.24E-03

5.1

Q17 [19]

 

TaCwi-A1

2A

10.5

0.25

0.0146

2.7

0.0187

2.8

 
 

TaSus-B1

2B

51.4

0.19

0.003

6.6

  

FdGogat-B [42]

 

wPt-3561

2B

51.4

 

7.25E-04

7.9

  

FdGogat-B [42]

 

wPt-5556

2B

60.6

0.44

2.78E-05

8.5

2.49E-04

6.8

 
 

wPt-4125

2B

63.2

0.43

1.34E-04

7.1

7.70E-04

5.8

 
 

wPt-5672

2B

63.2

0.44

7.00E-05

7.6

5.01E-04

6.2

 
 

wPt-6192

2B

63.2

0.36

3.28E-04

7.3

1.63E-03

5.7

Q42 [19]

 

wPt-7757

2B

63.2

0.44

4.99E-05

8

4.13E-04

6.3

 
 

wPt-8776

2B

108

0.15

5.30E-04

7.4

  

QTkw.sfr-B1 [44]

 

wPt-7992

3A

59

0.42

3.37E-04

9.2

  

Vp1-A [42]

 

wPt-3697

3A

161

0.07

5.35E-04

7.9

  

*Qyld.e4-3D

 

wPt-0485

3D

160

0.39

1.09E-03

7.2

  

*Qyld.e4-3D

 

wPt-2923

3D

160

0.4

9.61E-04

7.3

   
 

wPt-5694

4A

52.6

0.38

6.25E-04

8.3

1.45E-03

7.3

 
 

wPt-0117

4A

60

0.36

2.44E-04

9.4

  

*QGwt.crc-4A

 

wPt-6498

5B

43.3

0.44

1.11E-03

5.6

  

*Qyld.e11-5B

 

TaGW2-A1

6A

36.1

0.18

0.0197

7.5

  

Q06 [19]

 

wPt-3226

7A

158

0.24

7.75E-04

5.8

  

*Qyld.e15-7A

  1. aChr Chromosome, bPos the marker position on the linkage map based on Detering et al. [39], cMAF Minor allele frequency, dQTL/Gene the previously reported QTLs or genes within the same chromosomal regions with reference. eMQTL refers to meta-QTLs for grain yield related traits described in Zhang et al. [41]. *QTLs without reference are extracted from the consensus maps of individual chromosomes as of June 2011 (http://ccg.murdoch.edu.au/cmap/ccg-live/cgi-bin/cmap/viewer?).
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