| 苯磺隆胁迫下油菜萌发期相关性状的全基因组关联分析 |
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| 引用本文： | 周清元,王倩,叶桑,崔明圣,雷维,郜欢欢,赵愉风,徐新福,唐章林,李加纳,崔翠. 苯磺隆胁迫下油菜萌发期相关性状的全基因组关联分析[J]. 中国农业科学, 2019, 52(3): 399-413. DOI: 10.3864/j.issn.0578-1752.2019.03.002 |
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| 作者姓名： | 周清元 王倩 叶桑 崔明圣 雷维 郜欢欢 赵愉风 徐新福 唐章林 李加纳 崔翠 |
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| 作者单位： | 西南大学农学与生物科技学院,重庆400716 |
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| 基金项目： | 国家重点研发计划(2018YFD0100505);现代农业产业技术体系(CARS-12);重庆市社会事业与民生保障科技创新(cstc2015shmszx80026) |
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| 摘 要： | 目的 研究苯磺隆残留对油菜种子萌发的影响,运用全基因组关联分析（genome-wide association analysis,GWAS）揭示苯磺隆胁迫下油菜萌发期相关性状的遗传因子和候选基因,探究油菜在苯磺隆逆境胁迫下的生理形态所反映的基因调控机制,为耐苯磺隆油菜品种的研究提供参考。方法 以241份甘蓝型油菜品种（系）为材料、25 mg·L -1苯磺隆溶液为处理液、蒸馏水为对照进行发芽试验。发芽7 d测定并计算相对发芽率、相对根长和相对鲜重。结合芸薹属60K SNP芯片分析群体基因型,通过STRUCTURE软件和TASSEL软件分别对该群体进行群体结构分析以及亲缘关系和LD衰减分析。为有效排除假关联的影响,采用一般线性模型（GLM）和混合线性模型（MLM）中的6种模型进行比较,确定每个性状GWAS分析的最优模型。同时,利用TASSEL软件在最优模型下对241份材料的3个性状分别进行全基因组关联分析,根据关联SNP位点的LD区间序列预测候选基因。 结果 241份品种（系）群体可分为P1（94份材料）和P2（147份材料）2个亚群,其中约56.28%的材料之间的亲缘关系值为0。全基因组关联分析（K+PCA模型）共检测到16个与性状显著关联的SNP位点,这些位点可解释9.42%—13.14%的表型变异率。通过分析显著SNP位点的LD区间与甘蓝型油菜对应的区间序列,筛选出25个候选基因可能与油菜耐苯磺隆有关,其中9个为细胞色素P450家族基因,5个参与谷胱甘肽合成或代谢过程,2个为多药耐药相关蛋白基因。同时发现与相对发芽率显著相关的基因ATGSTU19编码谷胱甘肽转移酶,参与毒素分解过程,在各种胁迫反应中起重要作用。在相对根长和相对鲜重共同鉴定到的候选基因BnaC02g27690D功能未知。结论 共检测到16个SNP位点与耐苯磺隆性状显著关联,筛选出25个候选基因可能与油菜耐苯磺隆有关。
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| 关 键 词： | 油菜 萌发期 苯磺隆 全基因组关联分析 |
| 收稿时间： | 2018-09-17 |
Genome-Wide Association Analysis of Tribenuron-Methyl Tolerance Related Traits in Brassica napus L. Under Germination |
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| ZHOU QingYuan,WANG Qian,YE Sang,CUI MinSheng,LEI Wei,GAO HuanHuan,ZHAO YuFeng,XU XinFu,TANG ZhangLin,LI JiaNa,CUI Cui. Genome-Wide Association Analysis of Tribenuron-Methyl Tolerance Related Traits in Brassica napus L. Under Germination[J]. Scientia Agricultura Sinica, 2019, 52(3): 399-413. DOI: 10.3864/j.issn.0578-1752.2019.03.002 |
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| Authors: | ZHOU QingYuan WANG Qian YE Sang CUI MinSheng LEI Wei GAO HuanHuan ZHAO YuFeng XU XinFu TANG ZhangLin LI JiaNa CUI Cui |
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| Affiliation: | College of Agronomy and Biotechnology, Southwest University, Chongqing 400716 |
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| Abstract: | 【Objective】 To investigate the effect of residual tribenuron-methyl in soil on seed germination, genome-wide association analysis (GWAS) of 52157 SNPs with genome-wide coverage was used to identify the candidate genes for the germinating traits of rapeseed under tribenuron-methyl stress. The results of this study may provide a theoretical basis for tribenuron-methyl tolerance in oilseed rape.【Method】 In the germination experiment, 241 rape varieties (lines) were treated with tribenuron-methyl solution of 25 mg·L -1, and distilled water was added to the control. At the 7th day of germination, the phenotypic data including relative germination rate, relative root length and relative fresh weight were measured and calculated. Using the TASSEL software, tribenuron-methyl tolerance related traits were explored in B. napus under germination with a 60K Brassica Illumina ? Infinium SNP array. Then, the structure of the population was analyzed by the software STRUCTURE, and the genetic relationship and LD attenuation were analyzed by the software TASSEL, respectively. In order to determine the optimal model for GWAS analysis of each trait, 6 models involved the general linear model and mixed linear model were used to analyze and compare the effects of group structure and relationship. The software TASSEL was employed to analyze the relative values of the 3 traits under the optimal model. Meanwhile, the candidate genes were predicted based on the LD interval sequence of the associated SNP locus. 【Result】 The population structure analysis showed the population could be divided into two subgroups, P1 with 94 materials and P2 with 147 materials. Meanwhile, the result of genetic relationship analysis showed that about 56.28% of the materials had no kinship relationship. In the optimal GWAS model (K+PCA), we found that 16 SNP loci significantly associated with 3 traits including relative root length, relative fresh weight and relative germination rate, and each locus explained phenotypic variations ranging from 9.42% to 13.14%. By analyzing the LD interval of the significant SNP locus and the corresponding interval sequence of Brassica napus, twenty-five candidate genes related to tribenuron-methyl tolerance were screened out in the LD interval of these significant SNP loci, in which nine of them belonged to cytochrome P450 gene families, five were involved in glutathione synthesis or metabolic processes, and two were multidrug-tolerance associated protein. At the same time, it was revealed that the gene ATGSTU19 significantly related to germination rate encodes glutathione transferase, which participates in the process of toxin decomposition and plays an important role in various stress responses. In addition, BnaC02g27690D was identified at relative root length and relative fresh weight. However, its function was not clear. 【Conclusion】 In this study, 16 SNP loci were detected to be significantly associated with tribenuron-methyl tolerance, and 25 candidate genes were screened out. |
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| Keywords: | Brassica napus L. germination tribenuron-methyl tolerance GWAS |
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