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Table 2 QTL mapping results based on Kruskal-Wallis (KW) and Multiple-QTL Model mapping (MQM) analysis

From: Genic SNP markers and legume synteny reveal candidate genes underlying QTL for Macrophomina phaseolina resistance and maturity in cowpea [Vigna unguiculata (L) Walp.]

      

KW

MQM

 

Experiment

QTL

LG†

QTL interval

Consensus LG and map position (cM)†

Marker closest to QTL peak

Significance level

LOD

LOD threshold

R 2

Marker annotation

Riverside 2007

Mac-1

2

5.2 - 21.8

2 (77.4)

1_0709

0.01

1.77

2.0

14.5

MATE efflux family protein

Greenhouse 1

Mac-1

2

6.8 - 21.8

2 (75.2)

1_0551

0.005

2.74

2.0

20.9

Endo-xyloglucan transferase

Greenhouse 2

Mac-1

2

5.2 - 21.8

2 (77.4)

1_0709

0.05

1.82

2.0

14.4

MATE efflux family protein

Riverside 2006

Mac-2

3

8.1 - 25.9

3 (1.3)

1_0853

0.001

3.11

2.1

26.5

Pectin esterase inhibitor

Riverside 2007

Mac-2

3

8.1 - 25.9

3 (1.3)

1_0853

0.0001

5.76

2.1

40.0

Pectin esterase inhibitor

Riverside 2008

Mac-2

3

8.1 - 25.9

3 (1.3)

1_0853

0.005

1.73

2.1

8.0

Pectin esterase inhibitor

Greenhouse 1

Mac-2

3

8.1 - 25.9

3 (1.3)

1_0853

0.005

1.45

2.1

11.6

Pectin esterase inhibitor

Riverside 2006

Mac-3

3

68.3 - 84.2

3 (42.3)

1_0604

0.005

1.24

2.1

10.6

Pectin acetylesterase precursor

Riverside 2007

Mac-3

3

58.2 - 84.2

3 (42.3)

1_0604

0.005

1.16

2.1

9.7

Pectin acetylesterase precursor

Riverside 2006

Mac-4 ¶

3

109.0 - 116.2

3 (64.2)

1_0464

0.05

1.61

2.1

13.3

Ribosomal protein L7Ae

Riverside 2007

Mac-4 ¶

3

109.0 - 116.2

3 (63.0)

1_0201

0.05

1.18

2.1

9.9

Cell growth defect factor 1

Riverside 2008

Mac-4 ¶

3

97.9 - 116.2

3 (63.0)

1_0201

0.05

1.21

2.1

6.1

Cell growth defect factor 1

Riverside 2006

Mac-5

11

6.1 - 14.4

3 (-)

ACA-CAT13‡

0.005

2.26

1.5

18.1

-

Riverside 2007

Mac-5

11

6.1 - 14.4

3 (70.8)

1_0079

0.01

1.22

1.5

10.3

CA2+- binding protein 1

Riverside 2008

Mac-5

11

9.1 - 13.9

3 (74.0)

1_0496

0.1

1.40

1.5

6.7

MLP-like protein 423

Riverside 2006

Mac-6

5

17.2 - 23.2

4 (57.5)

1_0699

0.01

2.27

2.1

18.2

Tropine dehydrogenase

Riverside 2007

Mac-6

5

8.9 - 23.2

4 (59.3)

1_0804

0.005

1.99

2.1

16.2

Light harvesting complex PSII

Riverside 2008

Mac-6

5

7.4 - 20.5

4 (-)

ACT-CAT8

0.05

1.61

2.1

7.7

-

Riverside 2006

Mac-7

5

31.8 - 49.1

4 (41.0)

1_0678

0.01

2.44

2.1

19.4

UDP-glycosyltransferase

Riverside 2007

Mac-7

5

27.5 - 49.1

4 (41.0)

1_0678

0.0005

2.44

2.1

19.4

UDP-glycosyltransferase

Riverside 2008

Mac-7

5

41.2 - 53.8

4 (34.2)

1_0153

0.0005

2.91

2.1

13.3

lipase class 3 family protein

Riverside 2006

Mac-8

6

28.4 - 40.0

5 (-)

AAG-CTC9

0.005

2.20

2.1

18.0

-

Riverside 2007

Mac-8

6

27.9 - 43.3

5 (29.7)

1_0030

0.05

1.01

2.1

8.6

60S ribosomal protein L10

Riverside 2008

Mac-8

6

29.8 - 41.2

5 (29.7)

AAG-CTC9

0.005

2.64

2.1

12.1

-

Greenhouse 1

Mac-8

6

36.1 - 44.5

5 (29.7)

1_0030

0.05

1.23

2.1

9.9

60S ribosomal protein L10

Riverside 2008

Mac-9

6

53.5 - 63.2

5 (44.6)

1_0032

0.005

2.12

2.1

12.1

Protein transport protein SEC61

Greenhouse 1

Mac-9

6

53.5 - 71.4

5 (40.9)

1_1533

0.05

1.29

2.1

10.4

Integral membrane Yip1 family protein

Greenhouse 2

Mac-9

6

53.5 - 70.7

5 (40.9)

1_1533

0.05

1.01

2.1

8.3

Integral membrane Yip1 family protein

  1. † LG = IT93K-503-1 × CB46 RIL population linkage group based on AFLP + SNP map, Consensus LG = corresponding linkage group in the cowpea consensus genetic map, consensus map position represents position of the marker closest to the QTL peak based on mapping in the RIL population
  2. ‡ cM position on the consensus map and annotations for AFLP markers were not determined
  3. ¶ Mac-4 was included as a suggestive QTL since it did not meet the significance thresholds in either the Kruskal-Wallis or MQM analysis
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BMC Genomics

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