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InDels Identification and Association Analysis with Spike and Awn Length in Chinese Wheat Mini-Core Collection

文献类型： 外文期刊

作者： Wang, Zhenyu 1 ; Deng, Zhongyin 1 ; Kong, Xingchen 1 ; Wang, Fang 1 ; Guan, Jiantao 1 ; Cui, Dada 1 ; Sun, Guoliang 1 ; Liao, Ruyi 1 ; Fu, Mingxue 1 ; Che, Yuqing 1 ; Hao, Chenyang 1 ; Geng, Shuaifeng 1 ; Zhang, Xueyong 1 ; Zhou, Peng 1 ; Mao, Long 1 ; Liu, Shaoshuai 1 ; Li, Aili 1 ;

作者机构： 1.Chinese Acad Agr Sci, Inst Crop Sci, Natl Key Facil Crop Gene Resources & Genet Improv, Beijing 100081, Peoples R China

关键词： InDel; GWAS; spike length; awn; TaAGL6

期刊名称：INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES （ 影响因子：6.208； 五年影响因子：6.628 ）

ISSN：

年卷期： 2022 年 23 卷 10 期

页码：

收录情况： SCI

摘要： Diversity surveys of germplasm are important for gaining insight into the genomic basis for crop improvement; especially InDels, which are poorly understood in hexaploid common wheat. Here, we describe a map of 89,923 InDels from exome sequencing of 262 accessions of a Chinese wheat mini-core collection. Population structure analysis, principal component analysis and selective sweep analysis between landraces and cultivars were performed. Further genome-wide association study (GWAS) identified five QTL (Quantitative Trait Loci) that were associated with spike length, two of them, on chromosomes 2B and 6A, were detected in 10 phenotypic data sets. Assisted with RNA-seq data, we identified 14 and 21 genes, respectively that expressed in spike and rachis within the two QTL regions that can be further investigated for candidate genes discovery. Moreover, InDels were found to be associated with awn length on chromosomes 5A, 6B and 4A, which overlapped with previously reported genetic loci B1 (Tipped 1), B2 (Tipped 2) and Hd (Hooded). One of the genes TaAGL6 that was previously shown to affect floral organ development was found at the B2 locus to affect awn length development. Our study shows that trait-associated InDels may contribute to wheat improvement and may be valuable molecular markers for future wheat breeding

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