Table 1.
A subset of the 208 SNP loci found to be associated with resistance to NLB by nested association mapping
| SNP no. | Chromosome | Physical position (AGP v.1) | BPP | Average SNP effect | cM | Inside QTL CI | Candidate gene |
| 4 | 1 | 12136678 | 0.17 | −0.346 | 24.26 | Yes | Serine-threonine protein kinase (47) |
| 6 | 1 | 16387974 | 0.06 | −0.395 | 32.85 | Yes | Germin (11) |
| 8 | 1 | 21699987 | 0.13 | 0.490 | 38.21 | No | Antifreeze (41, 44–46) |
| 10 | 1 | 76772901 | 0.19 | −0.260 | 80.13 | Yes | Cytochrome P450 (48, 49) |
| 12 | 1 | 88927678 | 0.12 | −0.277 | 84.11 | Yes | Serine-threonine protein kinase (47) |
| 19 | 1 | 183754852 | 0.28 | −0.299 | 98.87 | Yes | Mov34/MPN/PAD-1 |
| 33 | 1 | 264713872 | 0.08 | −0.418 | 159.29 | No | Antifreeze (41, 44–46) |
| 35 | 1 | 280343673 | 0.10 | 0.300 | 174.88 | No | Basic leucine zipper transcription factor (52) |
| 40 | 1 | 289465566 | 0.08 | 0.239 | 186.39 | No | Antifreeze (41, 44–46) |
| 43 | 2 | 1210644 | 0.40 | −0.265 | −0.05 | No | Mlo (54, 55) |
| 44 | 2 | 1221350 | 0.06 | −0.233 | 0.00 | No | Mlo (54, 55) |
| 49 | 2 | 3852515 | 0.12 | 0.253 | 10.67 | Yes | Serine-threonine protein kinase (47) |
| 52 | 2 | 4500004 | 0.13 | 0.251 | 12.73 | No | Serine-threonine protein kinase (47) |
| 55 | 2 | 9394756 | 0.27 | −0.276 | 27.58 | Yes | RLK (35) |
| 64 | 2 | 160834095 | 0.20 | 0.607 | 82.36 | Yes | RLK (35) |
| 66 | 2 | 179024847 | 0.27 | 0.760 | 89.43 | No | BTB/POZ-like (53) |
| 71 | 3 | 3382179 | 0.15 | 0.389 | 11.08 | No | Antifreeze (41, 44–46) |
| 72 | 3 | 3382266 | 0.39 | 0.356 | 11.08 | No | Antifreeze (41, 44–46) |
| 93 | 4 | 177670891 | 0.75 | 0.572 | 89.12 | Yes | Antifreeze (41, 44–46)/PR transcriptional factor and ERF (50, 51) |
| 111 | 5 | 13659256 | 0.11 | 0.174 | 41.49 | No | Antifreeze (41, 44–46) |
| 125 | 5 | 190880589 | 0.07 | 0.251 | 100.08 | No | PR transcriptional factor and ERF (50, 51) |
| 126 | 5 | 191109424 | 0.06 | 0.267 | 100.26 | No | Serine-threonine protein kinase (47) |
| 129 | 5 | 203735206 | 0.12 | 0.305 | 114.14 | No | RLK (35) |
| 130 | 5 | 203735229 | 0.09 | 0.307 | 114.14 | No | RLK (35) |
| 132 | 5 | 204103356 | 0.08 | 0.442 | 114.92 | No | Antifreeze (41, 44–46) |
| 139 | 6 | 116055358 | 0.11 | −0.222 | 41.88 | Yes | RLK (35) |
| 143 | 6 | 138675782 | 0.07 | −0.274 | 53.79 | Yes | Antifreeze (41, 44–46) |
| 144 | 6 | 138675953 | 0.08 | −0.289 | 53.79 | Yes | Antifreeze (41, 44–46) |
| 145 | 6 | 148066145 | 0.08 | −0.395 | 59.98 | Yes | RLK (35) |
| 159 | 7 | 125153323 | 0.10 | −0.554 | 65.62 | No | Peptidase/serine-threonine protein kinase (47) |
| 162 | 7 | 135130480 | 0.10 | 0.412 | 73.54 | No | Basic leucine zipper transcription factor (52) |
| 173 | 7 | 153450268 | 0.07 | −0.252 | 93.05 | No | Antifreeze (41, 44–46) |
| 187 | 8 | 151397247 | 0.06 | −1.365 | 80.16 | Yes | ABC transporter (9) |
| 193 | 9 | 12502229 | 0.28 | −0.324 | 21.56 | Yes | RLK (35), CERK1 (36, 37), EFR (38) |
| 205 | 10 | 136256827 | 0.24 | −0.291 | 62.36 | Yes | Multiantimicrobial extrusion protein (56) |
The gene associations listed are those with plausible roles in plant defense based on the published literature. A complete list of resistance-associated SNPs with further details and corresponding genes is given in Dataset S1. cM, centimorgan imputed on NAM map; QTL CI, quantitative trait locus confidence interval; BPP, bootstrap posterior probability.