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Table 1 Peak SNP associated with resistance to the two Hg Types (race 3 and race 4) identified by GWAS and evaluation of beneficial alleles

From: Genetic characteristics of soybean resistance to HG type 0 and HG type 1.2.3.5.7 of the cyst nematode analyzed by genome-wide association mapping

SNP Chromosome Physical position -log10(P) Minor Allele Frequency R2 of Model with SNP (%) Resistant allele Susceptible alleles Average FI of accessions with resistant allele Average FI of accessions with susceptible allele Average FI of population Hg Type1
rs8009636 Gm01 8009636 5.87 0.07 10.58 A C 51.44 90.14 58.23 race 4
rs21804864 Gm02 21804864 6.54 0.04 6.21 T C 24 53.22 53.14 race 3
rs949365 Gm04 949365 6.25 0.05 7.49 A C 12 61.56 53.14 race 3
rs46050545 Gm04 46050545 7.2 0.11 12.93 A T 17 123.34 53.14 race 3
rs26781135 Gm05 26781135 7.21 0.04 9.78 C T 53.58 145.55 58.23 race 4
rs33843704 Gm05 33843704 8.21 0.08 7.4 T C 14 95.36 53.14 race 3
rs36404700 Gm07 36404700 10.7 0.13 10.03 G A 13 92.45 53.14 race 3
rs8050006 Gm08 8050006 6.57 0.1 10.4 C A 18 56.33 53.14 race 3
rs8050006 Gm08 8050006 9.11 0.16 14.29 C A 7.53 56 53.14 race 4
rs41643371 Gm08 41643371 5.58 0.01 8.77 C G 54.13 98.22 58.23 race 4
rs34608484 Gm09 34608484 7.55 0.05 9.26 C A 20 78.26 53.14 race 3
rs33488383 Gm11 33488383 7.43 0.04 10.73 C A 20 86.75 53.14 race 3
rs30581306 Gm14 30581306 7.76 0.05 12.62 C A 50.54 115.44 58.23 race 4
rs43617172 Gm14 43617172 8.07 0.1 10.65 C T 12 84.22 53.14 race 3
rs33704130 Gm16 33704130 8.41 0.07 11.66 A C 24 114 53.14 race 3
rs33704130 Gm16 33704130 6.47 0.07 12.66 A C 53 124.14 58.23 race 4
rs17238884 Gm17 17238884 7.19 0.42 13.53 T A 53.65 87.47 58.23 race 4
rs1643660 Gm18 1643660 7.13 0.1 15.4 G C 18 25 53.14 race 3
rs2085816 Gm20 2085816 6.1 0.48 6.85 G A 23 87 53.14 race 3
  1. 1: race 3 equals to Hg type 0; race 4 equals to Hg type 1,2,3,5,7