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利用272份全球籼稻微核心种质的重测序SNP基因型,对海南三亚、广东深圳、浙江杭州和湖北荆州4个地点收集到的垩白粒率和垩白度性状采用TASSEL软件进行全基因组关联分析,解析籼稻垩白的遗传基础和挖掘影响垩白粒率和垩白度的优异等位基因。结果表明,依据SNP数据,可将籼稻微核心种质分成3个亚群。4个地点分别检测到42个和44个与垩白粒率和垩白度显著关联的位点,位于全部12条染色体上。2个性状分别有21个和19个位点在2个以上环境下同时被检测到,这些位点中有12个位点同时影响垩白粒率和垩白度,11个位点附近都有已克隆的水稻品质相关基因。其中,第5染色体3.3~5.3 Mb区间在4个地点都被检测到与垩白粒率显著关联,以杭州点对垩白粒率的贡献最大,优异等位基因载体品种为IRGC121689;第12染色体的17.5~18.0 Mb区间在三亚和杭州都被检测到与垩白度显著关联,以三亚点的垩白度贡献最大,优异等位基因载体品种为IRGC122285。这些位点和品种资源可作水稻外观品质分子改良的重要基因和品种资源。
Using 272 SNP genotypes of the global indica microrecene germplasm, TASSEL software was used to carry out genome-wide association analysis on chalky grain rate and chalky traits collected from four sites in Sanya, Hainan Province, Hangzhou, Zhejiang Province and Jingzhou, Hubei Province. Analyze and analyze the genetic basis of indica chalky rice and excavate the excellent alleles that affect chalky grain rate and chalkiness. The results showed that based on the SNP data, the indica rice micronucleus germplasm can be divided into three subgroups. 42 sites and 44 sites that were significantly associated with chalky grain rate and chalkiness were detected in 4 sites, which were located on all 12 chromosomes. Twenty-one and nineteen loci were detected simultaneously in more than two environments. Twelve of these loci affected both chalky grain rate and chalkiness, and there were around 11 loci Cloned rice quality related genes. Among them, the range of 3.3-5.3 Mb on chromosome 5 was detected to be significantly associated with the percentage of chalky rice in Hangzhou, with Hangzhou being the largest contributor to the percentage of chalky rice. The best allele was IRGC121689. The chromosome 12 The interval from 17.5 to 18.0 Mb in Sanya and Hangzhou was significantly correlated with the degree of chalkiness. The chalkiness of Sanya spot was the largest. The excellent allele carrier was IRGC122285. These loci and variety resources can be used as important gene and variety resources for rice appearance quality and molecular improvement.