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Table 2 SNP markers associated with the tuber yield per plant (TYP) and yam mosaic virus severity score.

From: Identification of quantitative trait nucleotides and candidate genes for tuber yield and mosaic virus tolerance in an elite population of white guinea yam (Dioscorea rotundata) using genome-wide association scan

Trait

Method

SNP marker

Chr

pos (bp)

QTN effect

LOD score

‘-log10(P)’

r2 (%)

MAF

Genotype for code 1

YMV

pLARmEB

chr03_6338751

3

6338751

-143.86

6.10

6.93

4.68

0.46

T

pKWmEB

chr05_30671001

5

30671001

-109.57

5.32

6.13

5.96

0.49

A

pLARmEB

chr10_1116193

10

1116193

206.37

5.24

6.05

3.87

0.26

A

pLARmEB

chr15_3906069

15

3906069

211.65

6.88

7.74

0.31

0.16

A

pKWmEB

chr15_3906069

15

3906069

174.41

6.15

6.99

0.33

0.16

A

pKWmEB

chr16_1482029

16

1482029

-100.04

5.00

5.80

3.29

0.49

T

TYP

mrMLM

chr04_23401186

4

23401186

-0.02

5.07

5.87

3.76

0.45

A

pLARmEB

chr04_8196378

4

8196378

-0.03

5.42

6.23

0.43

0.17

T

pLARmEB

chr04_18269860

4

18269860

-0.02

7.23

8.10

1.41

0.48

C

pKWmEB

chr04_6236404

4

6236404

-0.03

8.14

9.03

5.25

0.25

T

pLARmEB

chr05_24237388

5

24237388

-0.02

10.88

11.83

1.86

0.45

T

pKWmEB

chr05_24682916

5

24682916

0.03

10.00

10.94

8.47

0.39

A

pKWmEB

chr08_7046574

8

7046574

-0.01

5.41

6.23

7.38

0.21

A

pKWmEB

chr08_10135940

8

10135940

-0.02

5.59

6.41

1.64

0.26

C

pKWmEB

chr10_1571815

10

1571815

-0.03

6.28

7.12

0.86

0.15

C

pKWmEB

chr10_1317508

10

1317508

-0.01

6.39

7.24

2.41

0.41

T

FASTmrMLM

chr13_13467988

13

13467988

-0.02

6.04

6.87

2.93

0.41

T

FASTmrMLM

chr14_11301309

14

11301309

-0.08

7.04

7.91

1.08

0.11

A

pLARmEB

chr14_11128124

14

11128124

-0.04

5.19

5.99

1.78

0.15

G

pLARmEB

chr15_5858214

15

5858214

0.02

5.30

6.10

0.39

0.32

T

mrMLM

chr17_15363223

17

15363223

-0.06

5.44

6.25

0.01

0.10

T

pLARmEB

chr17_19041958

17

19041958

-0.02

5.11

5.91

0.16

0.14

C

pLARmEB

chr19_9446619

19

9446619

-0.03

5.16

5.96

0.70

0.09

G