Genetic dissection of resistance to gray leaf spot by genome-wide association study in a multi-parent maize population

生物 候选基因 遗传学 全基因组关联研究 单核苷酸多态性 遗传关联 基因分型 数量性状位点 基因 人口 单倍型 生物技术 基因型 人口学 社会学
作者
Can Hu,Tianhui Kuang,Ranjan K. Shaw,Yudong Zhang,Jun Fan,Yaqi Bi,Fuyan Jiang,Ruijia Guo,Xingming Fan
出处
期刊:BMC Plant Biology [Springer Nature]
卷期号:24 (1) 被引量:3
标识
DOI:10.1186/s12870-023-04701-1
摘要

Abstract Background Understanding the genetic mechanisms underlying gray leaf spot (GLS) resistance in maize is crucial for breeding GLS-resistant inbred lines and commercial hybrids. Genome-wide association studies (GWAS) and gene functional annotation are valuable methods for identifying potential SNPs (single nucleotide polymorphism) and candidate genes associated with GLS resistance in maize. Results In this study, a total of 757 lines from five recombinant inbred line (RIL) populations of maize at the F 7 generation were used to construct an association mapping panel. SNPs obtained through genotyping-by-sequencing (GBS) were used to perform GWAS for GLS resistance using a linear mixture model in GEMMA. Candidate gene screening was performed by analyzing the 10 kb region upstream and downstream of the significantly associated SNPs linked to GLS resistance. Through GWAS analysis of multi-location phenotypic data, we identified ten candidate genes that were consistently detected in two locations or from one location along with best linear unbiased estimates (BLUE). One of these candidate genes, Zm00001d003257 that might impact GLS resistance by regulating gibberellin content, was further identified through haplotype-based association analysis, candidate gene expression analysis, and previous reports. Conclusions The discovery of the novel candidate gene provides valuable genomic resources for elucidating the genetic mechanisms underlying GLS resistance in maize. Additionally, these findings will contribute to the development of new genetic resources by utilizing molecular markers to facilitate the genetic improvement and breeding of maize for GLS resistance.
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