Table 1 Screening loci and gene counts for pepper traits identified through GWAS.

From: Genome-wide association study and candidate gene identification for agronomic traits in 182 upward-growing fruits of C. frutescens and C. annuum

Trait

Model

Chromosome

Number of SNPs

gene

− log10(p)

Plant height

EMMAX

NC_029977.1

13

26

5.000

NC_029978.1

3

NC_029980.1

1

NC_029981.1

5

NC_029982.1

2

NC_029984.1

1

NC_029985.1

13

NC_029986.1

4

NC_029987.1

1

NC_029988.1

1

NW_015960393.1

1

NW_015960461.1

1

NW_015960498.1

2

NW_015961641.1

1

Plant breadth

LMM

NC_029978.1

2

41

5.000

NC_029979.1

24

NC_029980.1

2

NC_029982.1

11

NC_029985.1

6

NC_029986.1

2

NW_015961225.1

8

Leaf length

EMMAX

NC_029987.1

10

6

5.0000

NC_029988.1

1

Leaf width

EMMAX

NC_029980.1

10

10

8.495

Petiole length

EMMAX

First stem node length/cm

LMM

NC_029978.1

1

20

5.000

NC_029979.1

1

NC_029982.1

10

NC_029988.1

10

NW_015960959.1

1

Stem thickness

EMMAX

NC_029977.1

3

7

5.000

NC_029980.1

3

NC_029981.1

3

NC_029985.1

2

NC_029986.1

1

Weight per fruit

LMM

NC_029977.1

5

46

9.495

NC_029979.1

12

NC_029980.1

5

NC_029981.1

1

NC_029982.1

4

NC_029983.1

22

NC_029987.1

3

NC_029988.1

188

NW_015961202.1

1

NW_015961228.1

2

Longitudinal diameter of fruit

LMM

NC_029977.1

7

62

9.495

NC_029979.1

8

NC_029982.1

5

NC_029983.1

7

NC_029985.1

2

NC_029987.1

6

NC_029988.1

37

NW_015960681.1

3

NW_015960900.1

1

Transverse diameter of fruit

LMM

NC_029979.1

12

28

8.495

NC_029980.1

11

NC_029982.1

2

NC_029988.1

3

Fruit peduncle length

LMM

NC_029977.1

5

64

5.000

NC_029979.1

18

NC_029980.1

27

NC_029981.1

3

NC_029982.1

1

NC_029983.1

10

NC_029985.1

2

NC_029986.1

1

NC_029987.1

18

NC_029988.1

2

NW_015960759.1

7

Thickness of flesh

EMMAX

Placenta size

LMM

NC_029979.1

7

50

9.495

NC_029987.1

114

Number of locules

EMMAX

NC_029977.1

2

31

5.000

NC_029979.1

4

NC_029980.1

1

NC_029981.1

4

NC_029983.1

3

NC_029984.1

10

NC_029985.1

2

NC_029986.1

9

NC_029988.1

4

NW_015960458.1

1

NW_015961180.1

6

NW_015961815.1

1

Branching type

EMMAX

Leaf surface

EMMAX

Leaf shape

EMMAX

Style length

EMMAX

NC_029977.1

3

26

5.000

NC_029979.1

5

NC_029983.1

2

NC_029984.1

15

NC_029987.1

1

NW_015961188.1

1

Flower color

EMMAX

Anther color

LMM

NC_029977.1

10

94

9.495

NC_029979.1

5

NC_029980.1

8

NC_029981.1

3

NC_029982.1

14

NC_029983.1

11

NC_029985.1

30

NC_029986.1

9

NC_029987.1

2

NC_029988.1

4

NW_015960838.1

8

NW_015961196.1

2

NW_015961290.1

5

NW_015961339.1

9

Pendage at blossom end

EMMAX

NC_029979.1

3

8

9.495

NC_029981.1

1

NC_029983.1

1

NC_029984.1

5

NC_029985.1

2

NC_029987.1

1

Color of immature fruit

EMMAX

Color of mature fruit

LMM

Persistent calyx at base of fruit

EMMAX

Fruit shoulder shape

EMMAX

Fruit shape

EMMAX