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大豆叶柄夹角相关基因GmILPA1单倍型分析
陈玲玲1, 刘亭萱1, 谷勇哲2, 宋 健1, 王 俊1, 邱丽娟2,1
0
(1.长江大学,湖北荆州 434025;2.中国农业科学院作物科学研究所,北京 100081)
摘要:
GmILPA1是控制大豆叶柄夹角的重要基因,主要通过促进细胞的生长和分裂来影响叶枕形成,该基因突变后可使叶枕发育异常、叶柄夹角增大。然而,该基因在大豆种质资源的多态性变异与叶柄夹角的关系未见报道。本研究利用783份大豆种质资源的重测序数据,对该基因进行单倍型分析,挖掘GmILPA1基因序列的自然变异,分析与叶柄夹角的关系。结果表明在783份种质资源中共检测到32个多态性位点,包括13个SNPs和19个Indel,频率分别为1SNP/285 bp和1Indel/195 bp,共组成9种单倍型,其中Hap1为主要单倍型,Hap3具有两个非同义突变。分别对Hap1和Hap3类型的蛋白结构进行预测,结果表明Hap1与Hap3蛋白在二级结构上有四个α螺旋结构长度上的差异,三级结构预测模型几乎一致。不同单倍型的表型进行观察,发现叶柄夹角并无显著差异。单倍型分析表明,GmILPA1从地方品种到选育品种的多态性位点数目逐渐减少,单倍型分布类型也逐渐减少,说明GmILPA1基因由地方向选育驯化的过程中因正向选择作用而固定了有益变异,表现出瓶颈效应。
关键词:  大豆  叶柄夹角  GmILPA1  单核苷酸多态性  单倍型
DOI:10.13430/j.cnki.jpgr. 20210419003
投稿时间:2021-04-19修订日期:2021-06-04
基金项目:中国农业科学院科技创新工程和大豆种质资源保护与利用项目(2019NWB036-05);荆州市科技计划项目(2020CB21-28);现代作物生产省部共建协同创新中心
Haplotype Analysis of Petiole Angle Related Gene GmILPA1 in Soybean
CHEN Ling-ling1, LIU Ting-xuan1, GU Yong-zhe2, SONG Jian1, WANG Jun1, QIU Li-juan2,1
(1.Yangtze University, Hubei Jingzhou 434025;2.Institute of Crop Science , CAAS, Beijing 100081)
Abstract:
GmILPA1 (Glyma.11g026400) is an important gene that controls petiole angle by modulating the formation of leaf pillow by promoting cell growth and division in soybean. The mutation of gmilpa1 can cause abnormal development of leaf pillow and increase petiole angle. However, whether the polymorphic variations of this gene in Soybean Germplasm determines the petiole angle remains unknown. In this study, re-sequencing data derived from 783 soybean germplasm accessions was used to analyze the haplotype variation of the GmILPA1 gene. Thirty-two polymorphic loci including 13 SNPs and 19 indels were detected, with a frequency of 1 SNP / 285 bp and 1 indel / 195 bp, respectively. Out of nine haplotypes, Hap1 was found to be predominant and Hap3 showed two non-synonymous mutations. The results showed that there were four α - helix differences in the secondary structure between Hap1 and Hap3, whereas there was not detected difference on the stimulated crystal structure. No significant difference in petiole angle among different haplotypes was observed. The number of polymorphic loci and haplotype diversity of GmILPA1 were decreased in varieties in relative to the landraces. Collectively, gained from the genetic diversity analysis, this study revealed a fixation (bottleneck) of GmILPA1 elite allele in varieties due to positive selection in the process of soybean breeding.
Key words:  Soybean  Leaf petiole angle  GmILPA1  Single nucleotide polymorphism  Haplotype

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