Table 2.
Loci for black point resistance in 166 wheat accessions identified by both the Tassel v5.0 and FarmCPU
| Markera | Chrb | Physical intervalc (bp) | Environment d | SNPe | P-valuef | R 2g (%) | QTL/geneh |
|---|---|---|---|---|---|---|---|
| IWB22408 | 2A | 709,831,643-709,831,743 | E1, E2, E3, E4, E6 | T/C | 1.2–9.8 E−04 | 7.9–14.7 | QBp.caas-2AL [23]; QPPO.caas-2AL [55] |
| PPO-A1 | 2A | 712,188,721–712,187,200 | E1, E2, E3, E4, E6 | – | 2.4–5.5 E−04 | 9.9–11.6 | PPO-A1 [56] |
| AX_108,951,749 | 2B | 714,389,068–714,388,998 | E2, E3, E4, E6 | T/C | 2.0–7.3 E−04 | 8.8–11.5 | QBp.caas-2BL [23] |
| AX_111,053,669 | 3A | 9,605,904–9,605,974 | E2, E3, E4, E6 | A/G | 2.4–8.6 E−04 | 8.3–10.4 | |
| AX_108826477 | 3B | 58,767,930–58,768,000 | E1, E3 | A/C | 1.5–9.7 E−04 | 7.9–11.0 | |
| AX_108,797,097 | 3B | 695,967,481–695,967,411 | E1, E2, E3, E6 | A/G | 1.2–9.6 E−04 | 8.0–11.9 | QBp.caas-3BL [23] |
| AX_110941533 | 3D | 4,066,092–4,066,162 | E2, E3, E4, E6 | A/C | 4.1–9.4 E−04 | 8.2–9.7 | |
| AX_108983386 | 4B | 6,961,084–6,961,154 | E5 | C/G | 1.7–9.4 E−05 | 8.0–10.5 | |
| AX_111488843 | 4B | 504,944,902–504,944,832 | E1, E2, E3, E6 | A/T | 7.0 E−06-2.6 E−04 | 9.9–15.5 | |
| IWB8709 | 5A | 32,887,598–32,887,698 | E3 | A/G | 1.9–5.3 E−04 | 8–8.9 | QBp.caas-5AS [23]; QPod.caas-5AS [57] |
| AX_109316564 | 5A | 535,780,381–535,780,311 | E1, E3, E6 | T/G | 4.8–9.9 E−04 | 8.1–11.4 | |
| IWA2223 | 5A | 592,276,555–592,276,708 | E1, E2, E3, E4, E6 | A/G | 3.4 E−06-9.4 E−04 | 8.0–18.0 | |
| IWA5214 | 5B | 302,177,272–302,177,428 | E2 | A/C | 8.60 E−04 | 8.1 | |
| AX_110617778 | 5B | 531,539,253–531,539,323 | E2, E3 | A/T | 1.4–9.5 E−04 | 8.0–11.5 | |
| AX_110056162 | 5B | 556,183,885–556,183,955 | E5 | T/C | 4.2–7.3 E−04 | 8.3–11.0 | |
| AX_108,821,301 | 6A | 94,2114,60–94,211,390 | E4 | C/G | 1.4–8.0 E−04 | 9.1–11.2 | QBp.caas-6A [23] |
| AX_110578177 | 6B | 676,210,414–676,210,344 | E1 | A/T | 4.2–5.1 E−04 | 8.6–8.9 | |
| AX_109359792 | 6D | 217,194,463–217,194,533 | E4 | A/G | 6.30 E−04 | 8.5 | |
| AX_111086566 | 7A | 88,862,791–88,862,721 | E1, E6 | T/C | 2.2–8.8 E−04 | 8.6–11.6 | |
| AX_108743156 | 7A | 136,398,412–136,398,482 | E4, E5, E6 | A/G | 5.0–9.8 E−04 | 7.9–9.2 | |
| AX_109,311,326 | 7A | 609,508,901–609,508,971 | E2 | T/C | 8.50 E−04 | 8.2 | QBp.caas-7AL.2 [23] |
| AX_111042346 | 7A | 670,876,731–670,876,661 | E5, E6 | C/G | 2.6–4.9 E−04 | 9.0–12.8 | |
| AX_109491960 | 7A | 70,8211,110–708,211,040 | E4 | A/C | 1.7–9.1 E−04 | 8.4–11.2 | |
| AX_108870509 | 7B | 729,224,017–729,224,087 | E1, E2, E3, E6 | A/G | 3.0 E−05-8.6 E−04 | 8.0–13.0 | |
| AX_109370330 | 7D | 129,917,622–129,917,692 | E1, E3 | A/C | 5.2–9.5 E−04 | 8.7–9.6 | |
| AX_109033824 | 7D | 615,826,844–615,826,914 | E5 | A/C | 8.30 E−04 | 8.2 |
aRepresentative markers at the resistance loci
bChr: Chromosome
cThe physical positions of SNP markers based on wheat genome sequences from the International Wheat Genome Sequencing Consortium (IWGSC, http://www.wheatgenome.org/)
dE1: Anyang 2013; E2: Anyang 2014; E3: Anyang 2015; E4: Suixi 2013; E5: Suixi 2014; E6: Best linear unbiased prediction (BLUP) calculated from all five environments. The data from the results of Tassel v5.0
eFavorable allele (SNP) is underlined
fThe P-values were calculated by the Tassel v5.0
gPercentage of phenotypic variance explained by the MTA from the results of Tassel v5.0
hThe previously reported QTL or genes within the same chromosomal regions