Genome-wide development of polymorphic microsatellite markers and their application in peanut breeding program

文献类型： 外文期刊

第一作者： Ma, Junjie

作者： Ma, Junjie;Zhao, Yuhan;Zhu, Lin;Zhou, Ximeng;Xia, Han;Hou, Lei;Li, Guanghui;Wang, Xingjun;Zhao, Chuanzhi;Ma, Junjie;Wang, Xingjun;Zhao, Yuhan;Zhu, Lin;Zhou, Ximeng;Xia, Han;Wang, Xingjun;Zhao, Chuanzhi;Chen, Hua;Zhuang, Weijian;Fu, Chun

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关键词： Arachis hypogaea. L; Crops; Genome sequence; Microsatellites; Molecular markers; Peanut breeding program; Peanut; Polymorphic microsatellite; Polymorphism; SSR

期刊名称：ELECTRONIC JOURNAL OF BIOTECHNOLOGY （ 影响因子：2.8； 五年影响因子：3.379 ）

ISSN： 0717-3458

年卷期： 2020 年 44 卷

页码：

收录情况： SCI

摘要： Background: Cultivated peanut (Arachis hypogaeo. L) represents one of the most important oil crops in the world. Although much effort has been expended to characterize microsatellites or Simple Sequence Repeats (SSRs) in peanut, the quantity and quality of the markers in breeding applications remain limited. Here, genome-wide SSR characterization and marker development were performed using the recently assembled genome of the cultivar Tifrunner. Results: In total, 512,900 microsatellites were identified from 2556.9-Mb genomic sequences. Based on the flanking sequences of the identified microsatellites, 7757 primer pairs (markers) were designed, and further evaluated in the assembled genomic sequences of the tetraploid Arachis cultivars, Tifrunner and Shitouqi, and the diploid ancestral species, A. duranensis and A. ipaensis. silica PCR analysis showed that the SSR markers had high amplification efficiency and polymorphism in four Arachis genotypes. Notably, nearly 60% of these markers were single-locus SSRs in tetraploid Arachis species, indicating they are more specific in distinguishing the alleles of the A and B sub-genomes of peanut. In addition, two markers closely related with purple testa color and 27 markers near to FAD2 genes were identified, which could be used for breeding varieties with purple testa and high-oleic acid content, respectively. Moreover, the potential application of these SSR markers in tracking introgressions from Arachis wild relatives was discussed. Conclusions: This study reported the development of genomic SSRs from assembled genomic sequences of the tetraploid Arachis Tifrunner, which will be useful for diversity analysis, genetic mapping and functional genomics studies in peanut. (C) 2020 Pontificia Universidad Catolica de Valparaiso. Production and hosting by Elsevier B.V. All rights reserved.

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[1]Genome-wide development of polymorphic microsatellite markers and their application in peanut breeding program. Ma, Junjie,Zhao, Yuhan,Zhu, Lin,Zhou, Ximeng,Xia, Han,Hou, Lei,Li, Guanghui,Wang, Xingjun,Zhao, Chuanzhi,Ma, Junjie,Wang, Xingjun,Zhao, Yuhan,Zhu, Lin,Zhou, Ximeng,Xia, Han,Wang, Xingjun,Zhao, Chuanzhi,Chen, Hua,Zhuang, Weijian,Fu, Chun. 2020

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