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