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

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cg.contributor.affiliationShanghai Academy of Agricultural Sciencesen
cg.contributor.affiliationThe Islamia University of Bahawalpuren
cg.contributor.affiliationInternational Maize and Wheat Improvement Centeren
cg.contributor.affiliationShenyang Agricultural Universityen
cg.contributor.donorNational Natural Science Foundation of Chinaen
cg.contributor.donorShanghai Agriculture Applied Technology Development Programen
cg.contributor.donorNational Agricultural Science and Technology Major Projectsen
cg.contributor.donorCGIAR Trust Funden
cg.contributor.initiativeAccelerated Breeding
cg.creator.identifierPrasanna Boddupalli: 0000-0002-5761-2273
cg.creator.identifierXUECAI ZHANG: 0000-0001-5498-6387
cg.creator.identifier敖 张: 0000-0003-1304-2181
cg.howPublishedFormally Publisheden
cg.identifier.doihttps://doi.org/10.3389/fgene.2024.1431043en
cg.isijournalISI Journalen
cg.issn1664-8021en
cg.journalFrontiers in Geneticsen
cg.reviewStatusPeer Reviewen
cg.subject.actionAreaGenetic Innovation
cg.subject.impactAreaNutrition, health and food security
dc.contributor.authorJingtao Quen
dc.contributor.authorDiansi Yuen
dc.contributor.authorWei Guen
dc.contributor.authorMuhammad Hayder Bin Khaliden
dc.contributor.authorHuiyun Kuangen
dc.contributor.authorDongdong Dangen
dc.contributor.authorHui Wangen
dc.contributor.authorPrasanna, Boddupalli M.en
dc.contributor.authorXuecai Zhangen
dc.contributor.authorAo Zhangen
dc.contributor.authorHongjian Zhengen
dc.contributor.authorYuan Guanen
dc.date.accessioned2024-11-21T17:36:05Zen
dc.date.available2024-11-21T17:36:05Zen
dc.identifier.urihttps://hdl.handle.net/10568/162557
dc.titleGenetic architecture of kernel-related traits in sweet and waxy maize revealed by genome-wide association analysisen
dcterms.abstractIntroduction 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.en
dcterms.accessRightsOpen Access
dcterms.available2024-09
dcterms.bibliographicCitationQu, J., Yu, D., Gu, W., Khalid, M. H. B., Kuang, H., Dang, D., Wang, H., Prasanna, B., Zhang, X., Zhang, A., Zheng, H., & Guan, Y. (2024). Genetic architecture of kernel-related traits in sweet and waxy maize revealed by genome-wide association analysis. Frontiers in Genetics, 15, art 1431043. https://doi.org/10.3389/fgene.2024.1431043en
dcterms.hasVersionhttps://hdl.handle.net/10883/35004en
dcterms.issued2024-09-27
dcterms.languageen
dcterms.licenseCC-BY-4.0
dcterms.publisherFrontiers Mediaen
dcterms.subjectkernelsen
dcterms.subjecthigh-throughput sequencingen
dcterms.subjectgenome-wide association studiesen
dcterms.subjectmarker-assisted selectionen
dcterms.subjectmaizeen
dcterms.typeJournal Article

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