High-resolution genetic mapping of maize pan-genome sequence anchors

文献类型： 外文期刊

第一作者： Lu, Fei

作者： Lu, Fei;Romay, Maria C.;Glaubitz, Jeffrey C.;Elshire, Robert J.;Buckler, Edward S.;Bradbury, Peter J.;Buckler, Edward S.;Wang, Tianyu;Li, Yu;Li, Yongxiang;Semagn, Kassa;Zhang, Xuecai;Hernandez, Alvaro G.;Mikel, Mark A.;Mikel, Mark A.;Soifer, Ilya;Barad, Omer

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关键词： COPY NUMBER VARIATION;TRANSPOSABLE ELEMENTS;WIDE ASSOCIATION;WHOLE-GENOME;EVOLUTION;POPULATION;DIVERSITY;PLANTS;DUPLICATION;ALIGNMENT

期刊名称：NATURE COMMUNICATIONS （ 影响因子：14.919； 五年影响因子：15.805 ）

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收录情况： SCI

摘要： In addition to single-nucleotide polymorphisms, structural variation is abundant in many plant genomes. The structural variation across a species can be represented by a 'pan-genome', which is essential to fully understand the genetic control of phenotypes. However, the pan-genome's complexity hinders its accurate assembly via sequence alignment. Here we demonstrate an approach to facilitate pan-genome construction in maize. By performing 18 trillion association tests we map 26 million tags generated by reduced representation sequencing of 14,129 maize inbred lines. Using machine-learning models we select 4.4 million accurately mapped tags as sequence anchors, 1.1 million of which are presence/absence variations. Structural variations exhibit enriched association with phenotypic traits, indicating that it is a significant source of adaptive variation in maize. The ability to efficiently map ultrahigh-density pan-genome sequence anchors enables fine characterization of structural variation and will advance both genetic research and breeding in many crops.

分类号： N

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