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Table 6 Summary of favorable allele in 244 wheat accessions

From: Genome-wide association study of resistance to stripe rust (Puccinia striiformis f. sp. tritici) in Sichuan wheat

SNP marker Alleles Chr.a Position (bp) Associated traits Favorable alleles t-testb Frequency
Landrace Cultivar
AX-110375459 C/T 1A 55,931,144 DS TT * 0.30 0.07
AX-108930953 C/T 1B 670,418,012 DS CC * 0.05 0.73
AX-111488534 T/C 1B 670,550,099 IT & DS CC * & *** 0.90 0.05
AX-109329567 A/G 3D 595,680,421 IT GG *** 0.01 0.09
AX-111623511 A/G 5A 101,053,846 IT AA *** 0.59 0.32
AX-109907430 T/C 5A 566,772,733 DS CC ** 0.38 0.17
AX-111051502 C/T 5B 554,577,408 DS TT ****** 0.89 0.15
AX-110123238 G/C 5B 589,800,894 DS CC * 0.11 0.42
AX-108943926 A/G 6A 24,724,553 DS GG * 0.43 0.23
AX-109937061 C/T 6B 28,634,217 DS TT ** 0.20 0.47
AX-109348608 G/A 7A 81,528,245 IT GG *** 0.25 0.64
AX-110518451 G/A 7B 711,405,854 IT GG ***** 0.06 0.33
Total frequency        4.19 3.67
  1. IT, infection type; DS, disease severity
  2. a, chromosome
  3. b, significant difference in IT or/and DS between accessions with and without favorable alleles
  4. *, significant at P < 0.5; **, significant at P < 0.01; ***, significant at P < 0.001; *****, significant at P < 0.00001; ******, significant at P < 0.000001