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首页> 外文期刊>Genetic Resources and Crop Evolution >Genetic diversity analysis of Pakistan rice (Oryza sativa) germplasm using multiplexed single nucleotide polymorphism markers
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Genetic diversity analysis of Pakistan rice (Oryza sativa) germplasm using multiplexed single nucleotide polymorphism markers

机译：利用多重单核苷酸多态性标记分析巴基斯坦水稻种质资源的遗传多样性

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摘要

A broad base of genetic diversity is crucial to provide variation to withstand biotic and abiotic stresses and to continue to make yield improvements. Pakistan has a wide range of climates and rice is ranked second as a staple food; however, very little is known in terms of rice genetic diversity in Pakistan with respect to global germplasm. This research was performed to investigate the genetic diversity and structure of the most commonly grown rice varieties in Pakistan, including the aromatic Basmati varieties, along with accessions from other countries. One hundred and five rice accessions were analyzed, including 21 Pakistan accessions, 44 IRRI lines, 6 wild rices, and 34 global accessions representing all five groups of rice as a reference in this study. These accessions were genotyped with 373 multiplexed SNP markers using the Illumina GoldenGate assay RiceOPA2.1 run at the Genotyping Services Lab at IRRI. The overall call percentage of the 373 SNPs across 105 accessions was 98.7 %. Structure analysis, principal coordinate analysis, and clustering with Neighbor Joining and UPGMA separated the genotypes in five major groups: indica, japonica, wild, aromatic and aus, while the Structure analysis at K = 7 further divided the indica cluster into 4 indica sub-groups. The Pakistan varieties were found in both the indica and aromatic clusters, but with an overall lower genetic diversity than seen in germplasm from other countries. Information on the diversity of rice germplasm can help guide future initiatives to widen the genetic base of rice cultivation in Pakistan.
机译：广泛的遗传多样性基础对于提供抵御生物和非生物胁迫的变异并继续提高产量至关重要。巴基斯坦的气候范围很广，大米作为主食排名第二。然而，就全球种质而言，巴基斯坦水稻遗传多样性知之甚少。这项研究的目的是调查巴基斯坦最常见的水稻品种（包括芳香巴斯马蒂品种）的遗传多样性和结构，以及其他国家的种质。分析了一百零五种水稻品种，其中包括21种巴基斯坦种质，44条IRRI品系，6种野生稻和34种代表所有五类水稻的全球种质作为本研究的参考。使用在IRRI的基因分型服务实验室进行的Illumina GoldenGate分析RiceOPA2.1，使用373个多重SNP标记对这些种质进行基因分型。在105个登录号中，373个SNP的总呼出百分比为98.7％。结构分析，主坐标分析以及与相邻连接的聚类和UPGMA将基因型分为五个主要组：in稻，粳稻，野生，芳香族和澳大利亚，而在K = 7时的结构分析进一步将in稻簇分为4个in稻亚种。组。巴基斯坦品种在the和香簇中均发现，但总体遗传多样性低于其他国家的种质。关于水稻种质多样性的信息可以帮助指导未来的举措，以扩大巴基斯坦水稻种植的遗传基础。

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