{"title":"Genome-wide association study and molecular marker development for susceptibility to Gibberella ear rot in maize","authors":"Guangfei Zhou, Liang Ma, Caihong Zhao, Fugui Xie, Yang Xu, Qing Wang, Derong Hao, Xiquan Gao","doi":"10.1007/s00122-024-04711-z","DOIUrl":null,"url":null,"abstract":"<h3 data-test=\"abstract-sub-heading\">Key messages</h3><p>Sixty-nine quantitative trait nucleotides conferring maize resistance to Gibberella ear rot were detected, including eighteen novel loci. Four candidate genes were predicted, and four kompetitive allele-specific PCR markers were developed.</p><h3 data-test=\"abstract-sub-heading\">\n<b>Abstract</b>\n</h3><p>Maize Gibberella ear rot (GER), caused by <i>Fusarium graminearum</i>, is one of the most devastating diseases in maize-growing regions worldwide. Enhancing maize cultivar resistance to this disease requires a comprehensive understanding of the genetic basis of resistance to GER. In this study, 334 maize inbred lines were phenotyped for GER resistance in five environments and genotyped using the Affymetrix CGMB56K SNP Array, and a genome-wide association study of resistance to GER was performed using a 3V multi-locus random-SNP-effect mixed linear model. A total of 69 quantitative trait nucleotides (QTNs) conferring resistance to GER were detected, and all of them explained individually less than 10% of the phenotypic variation, suggesting that resistance to GER is controlled by multiple minor-effect genetic loci. A total of 348 genes located around the 200-kb genomic region of these 69 QTNs were identified, and four of them (<i>Zm00001d029648</i>, <i>Zm00001d031449</i>, <i>Zm00001d006397</i>, and <i>Zm00001d053145</i>) were considered candidate genes conferring susceptibility to GER based on gene expression patterns. Moreover, four kompetitive allele-specific PCR markers were developed based on the non-synonymous variation of these four candidate genes and validated in two genetic populations. This study provides useful genetic resources for improving resistance to GER in maize.</p>","PeriodicalId":22955,"journal":{"name":"Theoretical and Applied Genetics","volume":"25 1","pages":""},"PeriodicalIF":4.4000,"publicationDate":"2024-09-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Theoretical and Applied Genetics","FirstCategoryId":"97","ListUrlMain":"https://doi.org/10.1007/s00122-024-04711-z","RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"AGRONOMY","Score":null,"Total":0}
引用次数: 0
Key messages
Sixty-nine quantitative trait nucleotides conferring maize resistance to Gibberella ear rot were detected, including eighteen novel loci. Four candidate genes were predicted, and four kompetitive allele-specific PCR markers were developed.
Abstract
Maize Gibberella ear rot (GER), caused by Fusarium graminearum, is one of the most devastating diseases in maize-growing regions worldwide. Enhancing maize cultivar resistance to this disease requires a comprehensive understanding of the genetic basis of resistance to GER. In this study, 334 maize inbred lines were phenotyped for GER resistance in five environments and genotyped using the Affymetrix CGMB56K SNP Array, and a genome-wide association study of resistance to GER was performed using a 3V multi-locus random-SNP-effect mixed linear model. A total of 69 quantitative trait nucleotides (QTNs) conferring resistance to GER were detected, and all of them explained individually less than 10% of the phenotypic variation, suggesting that resistance to GER is controlled by multiple minor-effect genetic loci. A total of 348 genes located around the 200-kb genomic region of these 69 QTNs were identified, and four of them (Zm00001d029648, Zm00001d031449, Zm00001d006397, and Zm00001d053145) were considered candidate genes conferring susceptibility to GER based on gene expression patterns. Moreover, four kompetitive allele-specific PCR markers were developed based on the non-synonymous variation of these four candidate genes and validated in two genetic populations. This study provides useful genetic resources for improving resistance to GER in maize.
关键信息检测到69个数量性状核苷酸赋予玉米对吉伯菌穗腐病的抗性，其中包括18个新的位点。摘要由禾谷镰刀菌引起的玉米吉伯菌穗腐病（GER）是全球玉米种植区最具毁灭性的病害之一。要提高玉米品种对该病害的抗性，就必须全面了解玉米抗吉伯菌穗腐病的遗传基础。本研究利用 Affymetrix CGMB56K SNP 阵列对 334 个玉米近交系在 5 种环境中的 GER 抗性进行了表型分析和基因分型，并利用 3V 多焦点随机-SNP-效应混合线性模型对 GER 的抗性进行了全基因组关联研究。共检测到69个赋予GER抗性的数量性状核苷酸（QTNs），所有QTNs单独解释的表型变异均小于10%，表明GER抗性受多个次要效应遗传位点控制。在这69个QTN的200kb基因组区域周围共鉴定出348个基因，其中4个基因（Zm00001d029648、Zm00001d031449、Zm00001d006397和Zm00001d053145）根据基因表达模式被认为是GER易感性的候选基因。此外，还根据这四个候选基因的非同义变异开发了四个竞争性等位基因特异性 PCR 标记，并在两个遗传群体中进行了验证。这项研究为提高玉米对 GER 的抗性提供了有用的遗传资源。
期刊介绍：
Theoretical and Applied Genetics publishes original research and review articles in all key areas of modern plant genetics, plant genomics and plant biotechnology. All work needs to have a clear genetic component and significant impact on plant breeding. Theoretical considerations are only accepted in combination with new experimental data and/or if they indicate a relevant application in plant genetics or breeding. Emphasizing the practical, the journal focuses on research into leading crop plants and articles presenting innovative approaches.
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