Table 2.
Focal single nucleotide polymorphisms linked with each quantitative trait locus associated with strawberry powdery mildew disease resistance identified through the Kruskal–Wallis analysis using the best linear unbiased estimation calculated across all phenotyping events
| QTL name | Linkage group | Closest SNP | Position (Mb) | H | Sig | Parent | Percentage change | PRE | Closest R/S gene (kb) | Type of gene | Gene name | Number R genes 100 kb |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| FaRPa1C | 1C | Affx.88811437 | 3.2 | 24.4 | ****** | Emily | − 8.6 | 9.8 | 76 | RLK | mrna11302.1-v1.0-hybrid | 2 |
| FaRPa2A | 2A | Affx.88826254 | 20.3 | 18.0 | **** | Hapil | − 10.3 | 15.6 | Inside | TMCC | mrna10588.1-v1.0-hybrid | 1 |
| FaRPa2C | 2C | Affx.88879339 | 23.3 | 11.2 | *** | Emily | − 6.2 | 8.9 | 0.7a | TMCCa | maker-LG6-augustus-gene-134.221-mRNA-1a | 1 |
| FaRPa3A | 3A | Affx.88831545 | 1.5 | 10.0 | ** | Fenella | − 5.6 | 10.1 | Inside | RLK | maker-LG3-augustus-gene-0.106-mRNA-1 | 4 |
| FaRPa4B | 4B | Affx.88857340 | 28.5 | 13.0 | *** | Redgauntlet | − 6.6 | 6.5 | 22 | RLK | maker-LG4-snap-gene-259.168 | 2 |
| FaRPa5B | 5B | Affx.88862333 | 8.6 | 15.2 | **** | Fenella | − 6.5 | 11.4 | 2 | TMCC | mrna25962.1-v1.0-hybrid | 2 |
| FaRPa6D1 | 6D | Affx.88880958 | 14.7 | 12.0 | *** | Fenella | − 5.9 | 16.7 | 68 | RLP | augustus_masked-LG6-processed-gene-174.28-mRNA-1 | 2 |
| FaRPa6D2 | 6D | Affx.88904022 | 38.9 | 23.3 | ***** | Redgauntlet | − 11.2 | 7.2 | 9 | RLK | maker-LG6-augustus-gene-381.175 | 3 |
| FaRPa7C | 7C | Affx.88899370 | 18.7 | 8.4 | ** | Redgauntlet | 6.3 | 6.6 | 0.5 | RLK | mrna21020.1-v1.0-hybrid | 3 |
| FaRPa7D1 | 7D | Affx.88902178 | 20.9 | 18.9 | **** | Emily | − 6.9 | 8.9 | NA | NA | NA | 0 |
| FaRPa7D2 | 7D | Affx.88898584 | 17.0 | 12.2 | *** | Hapil | − 6.4 | 18.0 | 72 | NBS | augustus_masked-LG7-processed-gene-159.7-mRNA-1 | 2 |
| FaRPa6C | 6C | Affx.88882971 | 21.8 | 16.7 b | ***** | Validation | NA | NA | 44 | RLP | mrna15948.1-v1.0-hybrid | 2 |
Closest resistance gene reported within 100 kbp if applicable. H denotes the Kruskal–Wallis test statistic. Sig denotes the significance value associated with the marker: *p < 0.05 **p < 0.01; ***p < 0.001; ****p < 0.0001; *****p < 0.00001; ******p < 0.000001. Bold entries denote a focal single nucleotide polymorphisms linked with quantitative trait loci associated with strawberry powdery mildew disease resistance identified through the targeted marker association study
aMapped to LG6 not LG2
bt test statistic from plink analysis