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小麦耐低磷相关性状的全基因组关联分析
周思远, 毕惠惠, 程西永, 张旭睿, 闰永行, 王航辉, 毛培钧, 李海霞, 许海霞
0
(河南农业大学/省部共建小麦玉米作物学国家重点实验室/河南省粮食作物协同创新中心)
摘要:
通过对小麦耐低磷相关性状进行全基因组关联分析(GWAS, genome-wide association),挖掘与小麦耐低磷性显著 相关的单核苷酸多态性标记(SNP, single nucleotide polymorphism)位点及候选基因,为小麦耐低磷性状的遗传基础和分子机 制研究提供理论参考。本试验以 198 份黄淮麦区小麦品种(系)为试验材料,设置低磷和正常磷营养液水培试验,利用小麦 35K芯片对分布于小麦全基因组的 11896 个SNP,采用Q + K关联模型对小麦耐低磷性相关性状进行关联分析。结果表明,小 麦耐低磷性状表现出广泛的表型变异,变异系数为 15.65% - 26.59%,多态性信息含量 (PIC, polymorphic information content) 为 0.095 - 0.500。群体结构分析表明,试验所用自然群体可分为 2 个亚群,GWAS共检测到 67 个与小麦耐低磷相关性状显著关联 的SNP位点(P ≤ 0.001),这些位点分布在除 3A、3B和 3D以外的 18 条染色体上,单个SNP位点可解释 5.826% - 9.552%的表 型变异。在这些显著位点中有 4 个SNP位点同时关联到了 2 个不同的耐低磷性状。对 67 个SNP位点进行发掘,筛选到 7 个可 能 与 小 麦 耐 低 磷 性 有 关 的 候 选 基 因 。 TraesCS6A02G001000 和 TraesCS6A02G001100 在 锌 指 合 成 中 有 重 要 作 用 ; TraesCS6A02G118100 可能为低磷胁迫诱导基因;TraesCS5D02G536400、TraesCS1B02G154200 和TraesCS5D02G536500 与低 磷胁迫相关酶类基因家族有关;TraesCS1D02G231200 与植物DUF 538 基因有关,是植物胁迫相关调控蛋白候选基因。
关键词:  小麦  耐低磷相关性状  全基因组关联分析  SNP  候选基因
DOI:10.13430/j.cnki.jpgr.20190509001
投稿时间:2019-05-09修订日期:2019-09-23
基金项目:国家重点研发计划(2017YFD0100706); 转基因生物新品种培育重大专项(2016ZX08002003- 004)
Genome-Wide Association Study of Low-Phosphorus Tolerance Related Traits in Wheat
ZHOU Si-yuan, BI Hui-hui, CHENG Xi-yong, ZHANG Xu-rui, RUN Yong-hang, WANG Hang-hui, MAO Pei-jun, LI Hai-xia, XU Hai-xia
(Henan Agricultural University / National Key Laboratory of Wheat and Maize Crop Science / Collaborative Innovation Center of Henan Grain Crops)
Abstract:
To screen the single nucleotide polymorphism (SNP) loci and candidate genes associated with low-phosphorus stress in wheat, genome-wide association study (GWAS) of low-phosphorus related traits in common wheat was performed for understanding the genetic mechanism of low-phosphorus tolerance. In the study, 198 wheat varieties (lines) originated from the Huang-Huai area were used as test materials to evaluate the related traits in low phosphorus and normal phosphorus solution cultures. The wheat 35K Chip with 11896 SNP markers which were distributed in the whole genome of wheat were used to analyze the related traits of low-phosphorus tolerance. The mixed model of Q+K was chosen to determine the statistical associations between phenotypes and genotypes to evaluate the effects of population structure and related traits. The result showed that the low-phosphorus tolerance character of wheat had a wide range of phenotypic variation with the coefficient variation between 15.65% and 26.59%. The polymorphism information content (PIC) was between 0.095 and 0.500. Population structure analysis showed that the natural population in the experiment could be divided into two subgroups. GWAS analysis indicated that 67 SNP loci were significantly associated with low-phosphorus tolerance (p ≤ 0.001), which were located in 18 chromosomes except 3A, 3B and 3D chromosomes. Each SNP could explain 5.826% - 9.552% of phenotypic variation. Four SNP sites were simultaneously associated with 2 different low-phosphorus tolerance traits in these significant sites. Seven candidate genes may be related to the low-phosphorus tolerance of wheat through analysis of the 67 SNP sites. TraesCS6A02G001000 and TraesCS6A02G001100 play important roles in the synthesis of zinc finger. TraesCS6A02G118100 may be induced by low-phosphorus stress. TraesCS5D02G536400, TraesCS1B02G154200 and TraesCS5D02G536500 are related to the family of low-phosphorus stress-related enzymes. TraesCS1D02G231200 is related to DUF538 and its product can be a putative candidate for common stress-related protein in plant.
Key words:  wheat  low-phosphorus tolerance related traits  GWAS  SNP  candidate gene

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