玉米叶向值的全基因组关联分析

彭勃,赵晓雷,王奕,袁文娅,李春辉,李永祥,张登峰,石云素,宋燕春,王天宇,黎裕

Genome-wide association studies of leaf orientation value in maize

Bo PENG,Xiao-Lei ZHAO,Yi WANG,Wen-Ya YUAN,Chun-Hui LI,Yong-Xiang LI,Deng-Feng ZHANG,Yun-Su SHI,Yan-Chun SONG,Tian-Yu WANG,Yu LI

表3 不同年份玉米叶向值全基因组关联分析检测的显著的SNP位点及其候选基因

Table 3 Significant SNPs and candidate genes associated with leaf orientation value identified by GWAS in two years

位点a Locusa Bin 年份 Year SNP 基因型 Genotype 物理位置b Physical position P值 P-value 贡献率 R2 (%) 峰值SNP 物理位置b Lead SNP physical position QTL区间b QTL region b 候选基因 Candidate gene 基因功能注释 Gene annotation -LD +LD 1 1.02 BLUP PUT-163a-149085801-877 [A/G] 28,638,770 9.25E-06 7.95 28,638,770 28,306,770 28,638,770 Zm00001d028265 细胞分裂素响应因子 Cytokinin response regulator 1 1.02 2017 PUT-163a-149085801-877 [A/G] 28,638,770 3.21E-06 8.73 2 1.07 BLUP PZE-101164453 [T/C] 210,517,983 3.22E-05 6.94 211,113,165 210,781,165 211,445,165 Zm00001d032050 细胞周期蛋白依赖性蛋白激酶 Regulation of cyclin-dependent protein serine/threonine kinase activity 2 1.07 BLUP PZE-101164815 [A/G] 210,772,541 1.16E-06 8.15 2 1.07 2017 PZE-101164815 [A/G] 210,772,541 9.67E-07 8.49 2 1.07 2018 PZE-101164815 [A/G] 210,772,541 2.71E-05 6.24 2 1.07 2017 SYN25384 [A/G] 211,113,165 3.97E-05 6.99 2 1.07 BLUP SYN25375 [T/C] 211,116,324 1.90E-05 7.32 2 1.07 2017 SYN25375 [T/C] 211,116,324 3.78E-05 6.93 3 1.07 BLUP PZE-101165699 [A/G] 211,785,378 2.04E-05 7.55 211,785,378 211,453,378 212,117,378 Zm00001d032078 细胞分裂周期相关蛋白激酶 Cell division cycle 2-related protein kinase 7 3 1.07 2017 PZE-101165699 [A/G] 211,785,378 3.02E-05 7.30 4 1.07 BLUP PZE-101166565 [A/G] 212,687,705 1.20E-06 7.65 212,687,705 212,355,705 213,019,705 Zm00001d032100 果胶酶/果胶酶抑制剂 Pectinesterase/pectinesterase inhibitor 13 4 1.07 2017 PZE-101166565 [A/G] 212,687,705 5.31E-06 6.93 4 1.07 2018 PZE-101166565 [A/G] 212,687,705 9.69E-06 6.67 5 1.08 BLUP PZE-101196520 [A/G] 248,302,322 1.38E-05 7.78 248,302,322 247,970,322 248,634,322 Zm00001d033047 含SPX结构域蛋白 SPX domain-containing protein 3 6 1.08 2017 PZE-101199858 [T/C] 252,942,320 2.99E-05 6.73 252,942,320 252,610,320 253,274,320 Zm00001d033180 油菜素内酯缺乏性矮秆基因 Brassinosteroid-deficient dwarf1,brd1 6 1.08 2017 PZE-101199859 [A/G] 252,942,792 2.99E-05 6.73 7 2.01 BLUP SYN9223 [A/G] 3,825,340 3.71E-05 7.11 3,825,340 3,526,340 4,124,340 Zm00001d001968 细胞周期相关蛋白 Cyclin-related 8 2.04 BLUP PZE-102062747 [A/C] 43,019,177 1.98E-05 7.91 43,019,177 42,720,177 43,318,177 Zm00001d003401 类似14-3-3蛋白 14-3-3-like protein GF14-6 9 2.04 BLUP SYN29642 [T/C] 50,700,996 3.50E-05 6.15 50,700,996 50,401,996 50,999,996 Zm00001d003626 NAC-转录因子 NAC-transcription factor 76 10 2.07 2017 PZE-102150850 [T/G] 203,858,592 3.50E-05 6.82 203,858,592 203,559,592 204,157,592 Zm00001d006293 NLP转录因子 NLP-transcription factor 17 11 2.07 BLUP PZE-102152182 [A/G] 205,338,006 3.24E-05 5.54 205,338,006 205,039,006 205,637,006 Zm00001d006348 生长调节因子 Growth-regulating factor 9 12 5.06 BLUP PZE-105142621 [A/G] 201,997,615 9.76E-06 7.70 201,997,615 201,615,615 202,379,615 Zm00001d017618 ABI3-VP1-转录因子 ABI3-VP1-transcription factor 16 12 5.06 2017 PZE-105142621 [A/G] 201,997,615 1.72E-05 7.52 13 7.02 BLUP PZE-107043106 [A/G] 87,913,892 3.32E-05 8.24 87,913,892 87,468,892 88,358,892 Zm00001d020041 参与细胞壁果胶代谢蛋白 Cell wall pectin metabolic process 14 10.03 2017 PZE-110020884 [T/C] 28,391,702 2.32E-05 7.65 28,391,702 27,697,702 29,085,702 Zm00001d023927 锌指CCCH结构域蛋白 Zinc finger CCCH domain-containing protein 30 15 10.04 BLUP PZE-110053328 [A/G] 100,750,723 4.02E-05 6.73 100,750,723 100,056,723 101,444,723 Zm00001d025033 TCP转录因子 TCP-transcription factor 40