花生果壳厚度和网纹的主效位点挖掘与候选基因预测
Identification of Major Loci and Candidate Genes for Shell Thickness and Reticulation Thickness in Peanut (Arachis hypogaea L.)
赵明浩 1崔顺立 1李秀坤 1刘盈茹 1侯名语 1刘立峰1
作者信息
- 1. 河北农业大学农学院，保定，071000
- 折叠
摘要
花生（Arachis hypogaea L.）是一种重要的油料作物和经济作物。果壳厚度（ST）与网纹深浅（RT）是花生果壳的两个重要性状。果壳厚度直接影响出仁率、机械脱壳效率，网纹深浅则影响外观品质和商品价值。本研究以103份美国微核心种质为材料，利用全基因组关联分析（GWAS）方法检测与目标性状显著关联的SNP，根据LD衰减获得显著关联主效遗传位点，对区间内基因进行生物信息学分析进行候选基因预测。主要研究结果如下：GWAS群体表型结果显示，三个环境下ST的平均值为1.03-1.16 mm，变异系数为21.74-28.63%；RT性状的平均值范围为0.22-0.30 mm，变异系数范围为30.89-55.78%。GWAS分析结果显示，共检测到57个与ST和RT相关SNP位点（P<1.0×10-3）。24个位点与ST相关，其中位于10号染色体的AX-176800335在E1和E2环境中稳定表达，PVE最高达22.30%；33个位点与RT相关，14号染色体检测到19个SNP位点，且成簇出现，PVE最高为21.69%。ST与RT共筛选出9个显著关联SNP位点（P<1.0×10-4），根据LD衰减距离，分别在其上下游160Kb区间内检测注释基因，共检测到153个注释基因，60个与ST相关，93个与RT相关。利用生物信息学分析，筛选出6个基因作为ST的候选基因；筛选出2个基因作为RT的候选基因。这8个候选基因为后续果壳相关性状的分子调控研究奠定了理论和材料基础。
Abstract
Peanut (Arachis hypogaea L.) is an important oil and cash crop. Shell thickness (ST) and reticulation thickness (RT) are two important agronomic traits of peanut. Shell thickness directly affects the shelling percentage and mechanical shelling efficiency, while reticulation thickness affects the appearance quality and commercial value. In this study, we utilized a population of 103 U.S. mini-core accessions as materials to identify key loci and candidate genes related to ST and RT through genome-wide association study (GWAS). The main results are as follows: The phenotypic results of the GWAS population showed that the average values of ST ranged from 1.03 to 1.16 mm across three environments, with CV from 21.74% to 28.63%. The average values of RT ranged from 0.22 to 0.30 mm, with CV from 30.89% to 55.78%. GWAS analysis revealed that 57 SNP loci associated with ST and RT (P<1.0×10-3) were detected. Among these, 24 SNPs were related to ST, and one SNP on chromosome 10, AX-176800335, was consistently detected across two environments, with PVE of 22.30%. Thirty-three SNPs were related to RT, with 19 SNPs clustered on chromosome 14, explaining up to 21.69% of phenotypic variation. Nine SNPs were significantly related to ST and RT (P<1.0×10-4). Based on linkage disequilibrium (LD) decay distance, 153 annotated genes were examined within 160 Kb upstream and downstream regions of these SNPs, including 60 related to ST and 93 related to RT. By using bioinformatics analysis, 6 genes for ST and 2 genes for RT were selected as candidate genes. In conclusion, 8 candidate genes associated with ST and RT were detected, which provided a theoretical and material foundation for future research on the molecular regulation of shell-related traits in peanut.关键词
花生/果壳厚度/网纹/全基因组关联分析/候选基因Key words
Peanut/Shell thickness/Reticulation thickness/Genome-wide association study (GWAS)/Candidate gene引用本文复制引用
赵明浩,崔顺立,李秀坤,刘盈茹,侯名语,刘立峰.花生果壳厚度和网纹的主效位点挖掘与候选基因预测[EB/OL].(2026-04-22)[2026-04-24].http://www.paper.edu.cn/releasepaper/content/202604-162.学科分类
农作物/农业科学研究
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