Rice3K56 is a high-quality SNP array for genome-based genetic studies and breeding in rice (Oryza sativa L.)

文献类型： 外文期刊

第一作者： Zhang, Chaopu

作者： Zhang, Chaopu;Li, Min;Liang, Lunping;Xiang, Jun;Zhang, Chenyang;Li, Yizhen;Liang, Jing;Zhang, Fanlin;Li, Hua;Shi, Yingyao;Li, Zhikang;Wang, Wensheng;Zhang, Fan;Zheng, Tianqing;Fu, Binying;Xu, Jianlong;Li, Zhikang;Wang, Wensheng;Wang, Wensheng;Tian, Bingchuan

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关键词： Genotyping; Genetic analysis; Molecular breeding

期刊名称：CROP JOURNAL （ 影响因子：6.6； 五年影响因子：6.5 ）

ISSN： 2095-5421

年卷期： 2023 年 11 卷 3 期

页码：

收录情况： SCI

摘要： Single nucleotide polymorphism (SNP) genotyping arrays provide an optimal high-throughput platform for genetic research and molecular breeding programs in both animals and plants. In this study, a high-quality and custom-designed Rice3K56 SNP array was developed with the resequencing data of 3024 rice accessions worldwide, which was then tested extensively in 192 representative rice samples. Printed on the GeneTitan chips of Affymetrix Axiom each containing 56,606 SNP markers, the Rice3K56 array has a high genotyping reliability (99.6%), high and uniform genome coverage (an aver-age of 6.7-kb between adjacent SNPs), abundant polymorphic information and easy automation, com-pared with previously developed rice SNP arrays. When applied in rice varietal differentiation, population diversity analysis, gene mapping of 13 complex traits by a genome-wide association study analysis (GWAS), and genome selection experiments in a recombinant inbred line and a multi-parent advanced generation inter-cross populations, these properties of the Rice3K56 array were well demon-strated for its power and great potential to be a highly efficient tool for rice genetic research and geno-mic breeding.& COPY; 2022 Crop Science Society of China and Institute of Crop Science, CAAS. Production and hosting by Elsevier B.V. on behalf of KeAi Communications Co., Ltd. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).

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