Table 3.
Association statistics of markers significantly associated with seven traits by Mixed Linear Model (MLM) with two different MAF thresholds (5% and 10%)
| ASSOCIATION STATISTICS | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| MAF >5% | MAF >10% | ||||||||
| Traita | Marker Index | SolCap ID | Geneb | Ch | Site bp | p value | R2 | p value | R2 |
| AsA | 2383 | solcap_snp_sl_20936 | Solyc03g112630.2.1 | 3 | 57066578 | 2.74E-04 | 0.140 | 1.30E-04 | 0.145 |
| 7588 | solcap_snp_sl_9377 | Solyc03g112670.2.1 | 3 | 57099944 | 2.74E-04 | 0.140 | 1.30E-04 | 0.145 | |
| 1241 | solcap_snp_sl_105 | Solyc05g052410.1.1 | 5 | 61782821 | 3.92E-04 | 0.179 | 4.35E-04 | 0.176 | |
| log (β-C) | 2022 | solcap_snp_sl_17063 | Solyc01g087600.2.1 | 1 | 74314683 | 3.61E-04 | 0.198 | 4.58E-04 | 0.173 |
| 2025 | solcap_snp_sl_17072 | Solyc01g087670.2.1 | 1 | 74360789 | 2.44E-04 | 0.206 | |||
| 2028 | solcap_snp_sl_17076 | Solyc01g087880.2.1 | 1 | 74515488 | 4.94E-04 | 0.192 | 2.48E-04 | 0.185 | |
| log (t-LYC) | 3525 | solcap_snp_sl_27094 | Solyc03g031480.2.1 | 3 | 8291198 | 1.82E-04 | 0.175 | ||
| 3526 | solcap_snp_sl_27099 | Solyc03g031820.2.1 | 3 | 8571009 | 1.82E-04 | 0.175 | |||
| 3104 | solcap_snp_sl_24679 | ND | 10 | 60360427 | 2.38E-04 | 0.203 | 9.66E-05 | 0.208 | |
| log (PHE) | 354 | solcap_snp_sl_100367 | Solyc08g082350.2.1 | 8 | 62345755 | 6.2E-04 | 0.147 | 7.62E-05 | 0.213 |
| 4365 | solcap_snp_sl_34253 | Solyc11g010170.1.1 | 11 | 3259108 | 5.13E-05 | 0.198 | 2.03E-04 | 0.150 | |
| log (FW) | 2992 | solcap_snp_sl_23884 | Solyc02g078790.2.1 | 2 | 38009446 | 4.49E-04 | 0.175 | ||
| 2272 | solcap_snp_sl_19779 | Solyc08g006170.1.1 | 8 | 886583 | 2.04E-04 | 0.165 | |||
| 2273 | solcap_snp_sl_19780 | Solyc08g006170.1.1 | 8 | 886634 | 2.04E-04 | 0.165 | |||
| 2274 | solcap_snp_sl_19782 | Solyc08g006170.1.1 | 8 | 887192 | 2.04E-04 | 0.165 | |||
| 2275 | solcap_snp_sl_19783 | ND | 8 | 887435 | 3.49E-06 | 0.239 | |||
| 1081 | solcap_snp_sl_44897 | Solyc11g071840.1.1 | 11 | 52280165 | 5.66E-04 | 0.132 | 1.57E-04 | 0.170 | |
| log (pH) | 2246 | solcap_snp_sl_19556 | Solyc11g017070.1.1 | 11 | 7863387 | 2.65E-04 | 0.168 | 5.27E-04 | 0.131 |
| log (TA) | 955 | solcap_snp_sl_54697 | Solyc01g107550.2.1 | 1 | 86813075 | 4.59E-06 | 0.254 | ||
| 2032 | solcap_snp_sl_17161 | Solyc02g084520.2.1 | 2 | 42190707 | 5.25E-04 | 0.156 | 4.83E-04 | 0.137 | |
| 443 | solcap_snp_sl_100446 | Solyc03g083440.2.1 | 3 | 46891412 | 6.52E-04 | 0.149 | |||
| 3999 | solcap_snp_sl_30911 | Solyc03g093310.2.1 | 3 | 47931799 | 4.15E-04 | 0.159 | |||
| 1210 | solcap_snp_sl_101075 | ND | 4 | 222976 | 1.98E-04 | 0.175 | |||
| 1010 | solcap_snp_sl_45282 | Solyc04g005510.2.1 | 4 | 344863 | 1.98E-04 | 0.175 | |||
Marker index, SolCAP ID, corresponding gene, locus position (Ch and site), p-value and marker R2 are reported for each marker.
a AsA: Ascorbic Acid, β-C: β-carotene, t-LYC:trans-lycopene, PHE:phenolics, FW: Fresh weight, TA: Titratable acidity. b ND = Not detected gene for the marker.