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<p>High-quality rice with a desirable glume-opening angle (GOA) promotes outcrossing rate and enhances seed production in hybrid rice. In this research, a genome-wide association analysis was conducted on the GOA in 440 rice accessions. The study revealed 9 new quantitative trait loci associated with the GOA by using both general linear model and mixed linear model, which we named <i>qGOA1</i>, <i>qGOA2</i>, <i>qGOA4</i>, <i>qGOA5.1</i>, <i>qGOA6</i>, <i>qGOA8</i>, <i>qGOA10.1</i>, <i>qGOA10.2</i>, and <i>qGOA11</i>. Furthermore, two candidate genes associated with GOA in QTL <i>qGOA4</i> were predicted by non-synonymous SNPs and functional annotation. The genes <i>LOC_Os04g03890</i> and <i>LOC_Os04g04750</i> encode cytochrome P450 and peroxidase precursor, which potentially regulating the GOA in rice. Haplotype analysis found that <i>LOC_Os04g03890</i> and <i>LOC_Os04g04750</i> are elite alleles caused large GOA, which we renamed as <i>LARGE GLUME-OPENING ANGLE 1</i> (<i>LGA1</i>) and <i>LGA2</i>. Elite alleles of <i>LGA1</i> and <i>LGA2</i> can be used to further improve the GOA in CMS lines via pyramiding breeding for increasing the outcrossing rate and yield in hybrid rice breeding or seed production.</p>

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Identification of elite alleles associated with glume-opening angle in rice natural population

  • 期刊论文

  • 发表日期：

    2025年3月20日

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  • Yingying Zhao,
  • Hui Jiang,
  • Chunyu Jing,
  • Tianhu Li,
  • Yanan Zhang,
  • Zhengbo Liu,
  • Yinping Chang,
  • Mingyu Du,
  • Hao Sun,
  • Jinghan Sun,
  • Yang Ang,
  • Xianping Cheng,
  • Erbao Liu

摘要

High-quality rice with a desirable glume-opening angle (GOA) promotes outcrossing rate and enhances seed production in hybrid rice. In this research, a genome-wide association analysis was conducted on the GOA in 440 rice accessions. The study revealed 9 new quantitative trait loci associated with the GOA by using both general linear model and mixed linear model, which we named qGOA1, qGOA2, qGOA4, qGOA5.1, qGOA6, qGOA8, qGOA10.1, qGOA10.2, and qGOA11. Furthermore, two candidate genes associated with GOA in QTL qGOA4 were predicted by non-synonymous SNPs and functional annotation. The genes LOC_Os04g03890 and LOC_Os04g04750 encode cytochrome P450 and peroxidase precursor, which potentially regulating the GOA in rice. Haplotype analysis found that LOC_Os04g03890 and LOC_Os04g04750 are elite alleles caused large GOA, which we renamed as LARGE GLUME-OPENING ANGLE 1 (LGA1) and LGA2. Elite alleles of LGA1 and LGA2 can be used to further improve the GOA in CMS lines via pyramiding breeding for increasing the outcrossing rate and yield in hybrid rice breeding or seed production.