植物学报 ›› 2016, Vol. 51 ›› Issue (6): 737-742.DOI: 10.11983/CBB15204

• 研究报告 •    下一篇

水稻糯性相关基因的全基因组关联分析

杨行海1,2, 农保选1,2, 夏秀忠1,2, 张宗琼1,2, 曾宇1,2, 刘开强3, 邓国富3, 李丹婷1,2,,A;*()   

  1. 1广西农业科学院水稻研究所, 南宁 530007
    2广西水稻遗传育种重点实验室, 南宁 530007
    3广西农业科学院, 南宁 530007
  • 收稿日期:2015-11-11 接受日期:2016-03-25 出版日期:2016-11-01 发布日期:2016-12-02
  • 通讯作者: 李丹婷
  • 作者简介:

    # 共同第一作者

  • 基金资助:
    广西自然科学基金(No.2015GXNSFBA139054, No.2015GXNSFBA139080)、广西科学研究与技术开发计划(No;桂科重14121001-1-6)、广西八桂学者专项经费(No;桂人才通字[2011]4号)和广西农业科学院优势团队(No.2015YT15)

Genome-wide Association Study of Genes Related to Waxiness in Oryza sativa

Xinghai Yang1,2, Baoxuan Nong1,2, Xiuzhong Xia1,2, Zongqiong Zhang1,2, Yu Zeng1,2, Kaiqiang Liu3, Guofu Deng3, Danting Li1,2*   

  1. 1Rice Research Institute, Guangxi Academy of Agricultural Science, Nanning 530007, China
    2Guangxi Key Laboratory of Rice Research Genetics and Breeding, Nanning 530007, China
    3Guangxi Academy of Agricultural Science, Nanning 530007, China
  • Received:2015-11-11 Accepted:2016-03-25 Online:2016-11-01 Published:2016-12-02
  • Contact: Li Danting
  • About author:

    # Co-first authors

摘要:

利用1 090 071个SNP标记, 对419份广西地方稻种资源核心种质的糯性进行全基因组关联分析。结果表明, 运用混合线性模型, 在P<4.72×10-8 (4.72E-8)水平下, 检测到45个与糯性显著关联的SNP位点, 均位于第6号染色体上。通过筛选显著关联位点上、下游各150 kb区域内的基因, 共找到305个候选基因, 其中包含2个与淀粉合成酶相关的WxSSIIa基因; 同时在第6号染色体5.69-5.89 Mb区域发现4个与糯性显著关联的SNP位点, 该区域可能是影响水稻(Oryza sativa)糯性的重要候选区域。

Abstract:

We examined rice waxiness by genome-wide association study based on genotyping 1 090 071 single nucleotide polymorphism (SNP) variants across landraces in the core collection of 419 rice germplasm derived from Guangxi. We identified 45 significant associated loci located on chromosome 6 at P<4.72×10-8 (4.72E-8) in the compressed mixed linear model. Screening the genes in the candidate regions about 150 kb upstream and downstream of each significant loci revealed 305 candidate genes, including Wx and SSIIa related to starch synthase. Furthermore, 4 significant SNPs associated with waxiness were intensively located in the region of 5.69-5.89 Mb on chromosome 6. This region may be an important candidate region related to waxiness in rice.