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Genetic architecture of kernel-related traits in sweet and waxy maize revealed by genome-wide association analysis

文献类型： 外文期刊

作者： Qu, Jingtao 1 ; Yu, Diansi 1 ; Gu, Wei 1 ; Khalid, Muhammad Hayder Bin 2 ; Kuang, Huiyun 1 ; Dang, Dongdong 1 ; Wang, Hui 1 ; Prasanna, Boddupalli 3 ; Zhang, Xuecai 4 ; Zhang, Ao 5 ; Zheng, Hongjian 1 ; Guan, Yuan 1 ;

作者机构： 1.Shanghai Acad Agr Sci, CIMMYT China Specialty Maize Res Ctr, Crop Breeding & Cultivat Res Inst, Shanghai, Peoples R China

2.Islamia Univ Bahawalpur, Natl Res Ctr Intercropping, Bahawalpur, Pakistan

3.Int Maize & Wheat Improvement Ctr CIMMYT, Nairobi, Kenya

4.Int Maize & Wheat Improvement Ctr CIMMYT, Texcoco, Mexico

5.Shenyang Agr Univ, Coll Biosci & Biotechnol, Shenyang City Key Lab Maize Genom Select Breeding, Shenyang 110866, Peoples R China

关键词： kernel size; kernel weight; NGS; GWAS; GS

期刊名称：FRONTIERS IN GENETICS （ 影响因子：2.8； 五年影响因子：3.3 ）

ISSN：

年卷期： 2024 年 15 卷

页码：

收录情况： SCI

摘要： Introduction Maize (Zea mays L.) is one of the most important crops worldwide, the kernel size-related traits are the major components of maize grain yield.Methods To dissect the genetic architecture of four kernel-related traits of 100-kernel weight, kernel length, kernel width, and kernel diameter, a genome-wide association study (GWAS) was conducted in the waxy and sweet maize panel comprising of 447 maize inbred lines re-sequenced at the 5x coverage depth. GWAS analysis was carried out with the mixed linear model using 1,684,029 high-quality SNP markers.Results In total, 49 SNPs significantly associated with the four kernel-related traits were identified, including 46 SNPs on chromosome 3, two SNPs on chromosome 4, and one SNP on chromosome 7. Haplotype regression analysis identified 338 haplotypes that significantly affected these four kernel-related traits. Genomic selection (GS) results revealed that a set of 10,000 SNPs and a training population size of 30% are sufficient for the application of GS in waxy and sweet maize breeding for kernel weight and kernel size. Forty candidate genes associated with the four kernel-related traits were identified, including both Zm00001d000707 and Zm00001d044139 expressed in the kernel development tissues and stages with unknown functions.Discussion These significant SNPs and important haplotypes provide valuable information for developing functional markers for the implementation of marker-assisted selection in breeding. The molecular mechanism of Zm00001d000707 and Zm00001d044139 regulating these kernel-related traits needs to be investigated further.

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