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Table 2 Single nucleotide polymorphism (SNP) markers significantly (P < 0.001) associated with stem rust resistance at two growth phases (HA and SM) using general linear model (GLM

From: Genome-wide association study on stem rust resistance in Kazakh spring barley lines

Marker Phase Chr. cM P R2 Allele MAF, % Effect
SCRI_RS_216088 HA 1H 122,2 1.0365E-5 0.19524 T/C C(0.12) T(−0.95)
BOPA1_4235-1617 HA 2H 132,6 4.7965E-4 0.1287 G/A G(0.23) G(0.60)
SCRI_RS_96016 HA 4H 59,5 7.6236E-4 0.11891 A/C C(0.14) A(−0.69)
BOPA2_12_10844 HA 5H 93,9 8.9373E-5 0.15758 A/C A(0.23) A(0.66)
SCRI_RS_189878 HA 6H 28,5 1.2523E-4 0.15157 T/C C(0.14) T(−0.78)
BOPA1_5448-298 HA 6H 44,1 6.4042E-4 0.12209 A/G G(0.18) A(−0.63)
BOPA1_8005-914 HA 6H 63,5 1.8827E-5 0.18494 A/G G(0.16) A(−0.81)
BOPA2_12_30637 HA 6H 63,5 1.8827E-5 0.18494 A/G G(0.16) A(−0.81)
BOPA1_7370-818 HA 6H 63,5 1.4199E-6* 0.22878 G/A A(0.14) G(−0.96)
SCRI_RS_152841 HA 6H 63,5 1.4199E-6* 0.22878 A/C C(0.14) A(−0.96)
BOPA1_6205-683 HA 6H 63,9 1.4318E-4 0.15073 A/G G(0.18) A(−0.70)
BOPA1_2026-302 HA U 0 5.9975E-5 0.16635 A/G G(0.17) A(−0.76)
BOPA1_5611-811 HA U 0 9.0519E-4 0.11825 G/A G(0.16) G(0.65)
BOPA2_12_30158 HA U 0 3.0675E-4 0.13688 A/G A(0.20) A(0.65)
BOPA1_5554-1971 HA U 0 1.4318E-4 0.15073 A/G G(0.18) A(−0.70)
BOPA2_12_21386 SM 3H 131,3 7.9601E-4 0.11937 C/A A(0.39) C(−1.05)
SCRI_RS_189710 SM 3H 135,6 9.1218E-4 0.11685 A/G G(0.32) A(1.09)
  1. P values indicated by star are significant after Bonferroni correction