Development and Validation of Multi-Locus GWAS-Based KASP Markers for Maize Ustilago maydis Resistance
文献类型： 外文期刊
作者： Shen, Tao 1 ; Gao, Huawei 1 ; Wang, Chao 2 ; Zheng, Yunxiao 2 ; Song, Weibin 2 ; Hou, Peng 3 ; Zhu, Liying 1 ; Zhao, Yongfeng 1 ; Song, Wei 4 ; Guo, Jinjie 1 ;
作者机构： 1.Hebei Agr Univ, Hebei Sub Ctr Natl Maize Improvement Ctr China, State Key Lab North China Crop Improvement & Regul, Coll Agron,Educ Minist,North China Key Lab Crop Ge, Baoding 071051, Peoples R China
2.China Agr Univ, Natl Maize Improvement Ctr, Dept Plant Genet & Breeding, State Key Lab Maize Biobreeding, Beijing 100107, Peoples R China
3.Chinese Acad Agr Sci, Inst Crop Sci, Key Lab Crop Physiol & Ecol, Minist Agr & Rural Affairs, Beijing 100081, Peoples R China
4.Inst Cereal & Oil Crops, Hebei Acad Agr & Forestry Sci, Key Lab Crop Genet & Breeding Hebei Prov, Shijiazhuang 050031, Peoples R China
关键词： corn smut; disease index; candidate genes; haplotype combinations; marker-assisted selection
期刊名称：PLANTS-BASEL （ 影响因子：4.1； 五年影响因子：4.5 ）
ISSN： 2223-7747
年卷期： 2025 年 14 卷 15 期
页码：
收录情况： SCI
摘要： Corn smut, caused by Ustilago maydis, significantly threatens maize production. This study evaluated 199 maize inbred lines at the seedling stage under greenhouse conditions for resistance to U. maydis, identifying 39 highly resistant lines. A genome-wide association study (GWAS) using the mrMLM model detected 19 significant single-nucleotide polymorphism (SNP) loci. Based on a linkage disequilibrium (LD) decay distance of 260 kb, 226 candidate genes were identified. Utilizing the significant loci chr1_244281660 and chr5_220156746, two kompetitive allele-specific PCR (KASP) markers were successfully developed. A PCR-based sequence-specific oligonucleotide probe hybridization technique applied to the 199 experimental lines and 60 validation lines confirmed polymorphism for both markers, with selection efficiencies of 48.12% and 43.33%, respectively. The tested materials were derived from foundational inbred lines of domestic and foreign origin. Analysis of 39 highly resistant lines showed that the advantageous alleles carrying thymine/cytosine (T/C) predominated at frequencies of 94.87% and 53.84%, respectively. The genotype TTCC conferred high resistance, while CCTT was highly susceptible. The resistance exhibited high heritability and significant gene-by-environment interaction. This work systematically dissects the genetic basis of common smut resistance in maize, identifies favorable alleles, and provides a novel KASP marker-based strategy for developing disease-resistant germplasm.
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