Genome-wide association study of ear tip barrenness in waxy maize.

IF 2 4区 农林科学 Q2 AGRONOMY Breeding Science Pub Date : 2023-06-01 Epub Date: 2023-06-27 DOI:10.1270/jsbbs.22056
Xudong Song, Guangfei Zhou, Zhenliang Zhang, Huiming Zhang, Lin Xue, Hui Wang, Mingliang Shi, Huhua Lu, Yuxiang Mao, Guoqing Chen, Xiaolan Huang, Hongjian Zheng, Derong Hao
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Abstract

Ear tip-barrenness (ETB), which results from aborted kernels or infertile florets at the ear tip, is an undesirable factor affecting the yield and quality of waxy maize. To uncover the genetic basis of ETB, a genome-wide association study (GWAS) was conducted using the genotype with 27,354 SNPs and phenotype with three environments. Five SNPs that distributed on chromosomes 1, 3 and 6, were identified to be significantly associated with ETB based on the threshold of false discovery rate (FDR) at 0.05. Among these significant loci, three SNPs were clustered together and colocalized with genomic regions previously reported. The average length of ETB decreased almost linearly from the inbred lines containing no favorable alleles across the three loci (1.75 cm) to those with one (1.18 cm), two (0.94 cm) and three (0.65 cm) favorable alleles. Moreover, three important genes, Zm00001d030028, Zm00001d041510 and Zm00001d038676 were predicted for three significant QTLs, respectively. These results promote the understanding genetic basis for ETB and will be useful for breeding waxy maize varieties with high-quality and high-yield.

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糯玉米穗尖不育的全基因组关联研究。
穗尖不育(ETB)是影响糯玉米产量和品质的一个不良因素,它是由穗尖败育或小花不育引起的。为了揭示ETB的遗传基础,使用具有27354个SNPs的基因型和具有三种环境的表型进行了全基因组关联研究(GWAS)。根据错误发现率阈值(FDR)为0.05,发现分布在第1、3和6号染色体上的5个SNP与ETB显著相关。在这些重要的基因座中,有三个SNP聚集在一起,并与先前报道的基因组区域共定位。ETB的平均长度从三个位点上不含有利等位基因的自交系(1.75cm)到有一个(1.18cm)、两个(0.94cm)和三个(0.65cm)有利等位突变的自交系几乎呈线性下降。此外,三个重要基因Zm00001d030028、Zm00001d041510和Zm00001C038676分别被预测为三个显著QTL。这些结果有助于加深对ETB遗传基础的认识,对选育优质高产糯玉米品种具有一定的指导意义。
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来源期刊
Breeding Science
Breeding Science 农林科学-农艺学
CiteScore
4.90
自引率
4.20%
发文量
37
审稿时长
1.5 months
期刊介绍: Breeding Science is published by the Japanese Society of Breeding. Breeding Science publishes research papers, notes and reviews related to breeding. Research Papers are standard original articles. Notes report new cultivars, breeding lines, germplasms, genetic stocks, mapping populations, database, software, and techniques significant and useful for breeding. Reviews summarize recent and historical events related breeding. Manuscripts should be submitted by corresponding author. Corresponding author must have obtained permission from all authors prior to submission. Correspondence, proofs, and charges of excess page and color figures should be handled by the corresponding author.
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