引进水稻种质穗部性状相关基因全基因组关联分析及利用探讨

doi:10.3969/j.issn.1001-7216.2014.06.011

中国水稻科学 ›› 2014, Vol. 28 ›› Issue (6): 649-658.DOI: 10.3969/j.issn.1001-7216.2014.06.011

引进水稻种质穗部性状相关基因全基因组关联分析及利用探讨

左示敏^1,2,康厚祥²,李前前¹,陈宗祥¹,张亚芳¹,刘文德²,王国梁²,陈红旗 ^{3, *} ,潘学彪 ^1,*

¹扬州大学江苏省作物遗传生理重点实验室/教育部植物功能基因组学重点实验室，江苏扬州 225009；²中国农业科学院植物保护研究所/植物病虫害生物学国家重点实验室，北京100193； ³中国水稻研究所水稻生物学国家重点实验室，杭州 310006；

收稿日期:2014-08-04 修回日期:2014-09-09 出版日期:2014-11-10 发布日期:2014-11-10
通讯作者: 陈红旗3, * ,潘学彪1,*
基金资助:
转基因生物新品种培育重大专项（2014ZX0800103B）；中国博士后科学基金资助项目（2013M540170）；江苏省自然科学基金资助项目（SBK201320708）。

Genomewide Association Analysis on Genes Controlling Panicle Traits of Varieties from International Rice Core Collection Bank and Its Breeding Utilization

ZUO Shimin ^1,2, KANG Houxiang ², LI Qianqian ¹, CHEN Zongxiang¹, ZHANG Yafang¹, LIU Wende², WANG Guoliang ², CHEN Hongqi ^{3, *} , PAN Xuebiao ^1,*

¹ Key Laboratory of Plant Functional Genomics of Jiangsu Province/Key Laboratory of Crop Genetics and Physiology of Jiangsu Province, Yangzhou University, Yangzhou 225009, China; ²State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China; ³ State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, China;

Received:2014-08-04 Revised:2014-09-09 Online:2014-11-10 Published:2014-11-10
Contact: CHEN Hongqi3, *, PAN Xuebiao1,*

摘要/Abstract

摘要： 对从国际水稻核心种质库中引进的315份水稻品种的5个穗部性状进行了全基因组关联分析，发现穗长和一次枝粳数受环境影响大，而粒长、粒宽和籽粒长宽比在不同环境下的变化较小。检测到与穗长、一次枝粳数、粒长、粒宽和籽粒长宽比显著关联的标记区域分别有7、5、10、8和6个，其中，粒型相关的11个区域和一次枝粳数相关的1个区域在两个环境中均被检测到。各品种携带的增效等位变异的个数与性状表型值呈显著线性相关。在所有关联位点中，香稻亚群（ARO）和热带粳稻（TRJ）亚群品种平均携带的增效等位变异数最多，最少的为温带粳稻（TEJ）亚群品种；我国水稻品种在其中6个关联位点上主要携带减效等位变异。筛选到具有30个以上增效等位变异的15份水稻种质，均属于TRJ亚群，来自11个不同国家。TRJ亚群品种在我国水稻高产、稳产育种中具有较高的应用价值，并讨论了利用TRJ亚群品种改良我国水稻穗部性状的方法。

关键词: 国际水稻核心种质, 穗部性状, 关联分析, 增效等位基因, 育种利用

Abstract: Genomewide association study (GWAS) on five panicle traits of 315 rice accessions introduced from international rice microcore germplasm bank was conducted. The panicle length (PL) and the primary rachis branch number (PBN) exhibited significant difference between the two plant locations, while grain length (GL), grain width (GW) and grain length to width ratio (GLWR) were not, indicating that PL and PBN are sensitive to environments. Totally 7, 5, 10, 8 and 6 chromosome regions or SNP (single nucleotide polymorphism) marker loci were significantly associated with PL, PBN, GL, GW and GLWR, respectively. Among them, eleven regions associated with grain shape and one region controlling PBN were consistence in two environments. Significant linear correlation was found between the average trait value and the number of favorable alleles carried by the cultivars in all associational loci. Among all associational loci, the cultivars in Aromatic (ARO) and tropical japonica (TRJ) subpopulations owned most favorable alleles, but those in temperate japonica (TEJ) subpopulation contained the least. The domestic varieties mainly harbored unfavorable alleles in 6 of associational loci detected. Totally 15 varieties from 11 different countries harbored more than 30 favorable alleles, which were fallen in TRJ subpopulation, demonstrating that the cultivars in TRJ subpopulation have high potential in rice breeding for high and stable yield. Based on these results, we discussed the approach to improve domestic rice panicle traits by using TRJ varieties.

Key words: international rice core germplasm, panicle traits, association analysis, favorable allele, breeding utilization

中图分类号:

左示敏1,2,康厚祥2,李前前1 ,陈宗祥1 ,张亚芳1,刘文德2,王国梁2,陈红旗3, * ,潘学彪1,* . 引进水稻种质穗部性状相关基因全基因组关联分析及利用探讨[J]. 中国水稻科学, 2014, 28(6): 649-658.

ZUO Shimin1,2, KANG Houxiang2, LI Qianqian1, CHEN Zongxiang1, ZHANG Yafang1, LIU Wende2, WANG Guoliang2, CHEN Hongqi3, *, PAN Xuebiao1,* . Genomewide Association Analysis on Genes Controlling Panicle Traits of Varieties from International Rice Core Collection Bank and Its Breeding Utilization[J]. Chinese Journal of Rice Science, 2014, 28(6): 649-658.

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引进水稻种质穗部性状相关基因全基因组关联分析及利用探讨

Genomewide Association Analysis on Genes Controlling Panicle Traits of Varieties from International Rice Core Collection Bank and Its Breeding Utilization

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