Table 3. Candidate gene assessment.
The table shows the validation tests on mutants in 23 potential candidate genes for each of the four measures of lesion formation: size, yellowness, greenness, and eccentricity. The number of SNPs classified as significant above the 95th percentile threshold for that trait for that gene is shown as well as the significance of the difference between the insertion mutant and the wild type across all Botrytis isolates (P – Plant) or an interaction with Botrytis isolates (P – Plant:Isolate). Significance was tested using the models mentioned in “Materials and Methods.” Nominal P values between 0.1 and 0.05 are provided if at least one other trait showed significance below 0.05. NS, Not significant.
| Arabidopsis Genome Initiative Code | Gene | Mutant | No. of SNPs in the Coding Region | Size | Yellow | Green | Eccentricity | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| No. of Unique SNPs above 95 | P – Plant | P – Plant:Isolate | No. of Unique SNPs above 95 | P – Plant | P – Plant:Isolate | No. of Unique SNPs above 95 | P – Plant | P – Plant:Isolate | No. of Unique SNPs above 95 | P – Plant | P – Plant:Isolate | ||||
| AT2G25540 | CESA10 | cesA10-1 | 11 | 2 | 0.005 | NS | 4 | 0.053 | NS | 2 | NS | NS | 3 | NS | NS |
| AT2G39940 | COI1 | coi1-1 | 4 | 0 | <0.001 | 0.096 | 4 | <0.001 | NS | 0 | <0.001 | NS | 0 | NS | NS |
| AT1G01060 | LHY | lhy-20 | 2 | 2 | 0.006 | 0.093 | 2 | NS | NS | 2 | 0.028 | 0.014 | 1 | NS | NS |
| AT3G26830 | PAD3 | pad3-1 | 1 | 1 | <0.001 | 0.014 | 0 | 0.004 | NS | 0 | 0.008 | 0.069 | 0 | NS | NS |
| AT3G52430 | PAD4 | pad4-1 | 6 | 0 | 0.002 | 0.062 | 0 | NS | NS | 1 | 0.010 | 0.019 | 4 | NS | NS |
| AT4G39350 | CESA2 | CS818491 | 8 | 3 | 0.020 | NS | 2 | NS | NS | 2 | 0.067 | NS | 0 | 0.090 | NS |
| AT1G22070 | TGA3 | tga3-2 | 1 | 0 | NS | NS | 0 | NS | NS | 0 | NS | NS | 1 | NS | NS |
| AT4G17010 | AT4G17010 | CS861804 | 7 | 3 | NS | NS | 4 | 0.048 | NS | 2 | NS | NS | 1 | 0.020 | NS |
| AT1G14690 | MAP65 | CS872894 | 10 | 0 | NS | NS | 0 | NS | 0.076 | 0 | NS | NS | 0 | NS | NS |
| AT4G01883 | – | CS67496 | 6 | 0 | 0.083 | NS | 0 | NS | NS | 2 | 0.056 | NS | 0 | 0.043 | NS |
| AT4G14420 | AT4G14420 | N508498 | 6 | 2 | 0.046 | NS | 1 | NS | NS | 2 | 0.003 | NS | 2 | NS | NS |
| AT4G14400 | ACD6 | N559132 | 20 | 3 | NS | NS | 5 | NS | NS | 15 | 0.047 | NS | 0 | NS | NS |
| AT4G14368 | – | N574598 | 16 | 3 | NS | NS | 0 | NS | NS | 6 | NS | NS | 0 | NS | NS |
| AT1G31260 | ZIP10 | N604586 | 9 | 5 | NS | NS | 3 | NS | NS | 0 | NS | NS | 6 | NS | NS |
| AT4G01860 | – | N606172 | 13 | 1 | NS | NS | 0 | NS | NS | 6 | NS | NS | 0 | NS | NS |
| AT2G32150 | – | N640067 | 6 | 0 | NS | NS | 0 | NS | NS | 1 | NS | NS | 0 | NS | NS |
| AT4G01880 | – | CS857701 | 4 | 0 | 0.012 | NS | 1 | 0.037 | NS | 1 | 0.079 | NS | 0 | NS | NS |
| N608769 | |||||||||||||||
| AT3G46640 | LUX | lux | 5 | 0 | NS | NS | 0 | NS | NS | 4 | NS | NS | 0 | 0.046 | NS |
| AT3G45780 | PHOT1 | phot1 | 6 | 3 | NS | 0.052 | 1 | NS | NS | 5 | NS | NS | 0 | NS | NS |
| AT4G18130 | PHYE | phyE-2 | 3 | 3 | 0.002 | NS | 0 | 0.024 | NS | 0 | NS | NS | 0 | NS | NS |
| AT4G39030 | SID1 | sid1 | 9 | 0 | NS | 0.014 | 0 | NS | NS | 8 | NS | NS | 0 | NS | NS |
| AT5G67370 | CGLD27 | N529971 | 4 | 0 | NS | NS | 3 | NS | NS | 1 | NS | NS | 0 | NS | NS |
| AT5G45950 | – | N582692 | 5 | 1 | NS | NS | 4 | NS | NS | 0 | NS | NS | 0 | NS | NS |
| AT1G20910 | – | N641443 | 5 | 0 | NS | 0.023 | 0 | NS | NS | 5 | NS | NS | 1 | NS | NS |
| AT5G13550 | SULTR4;1 | N662135 | 5 | 0 | NS | NS | 0 | NS | NS | 0 | NS | NS | 5 | 0.094 | NS |