InDels Identification and Association Analysis with Spike and Awn Length in Chinese Wheat Mini-Core Collection.
InDels Identification and Association Analysis with Spike and Awn Length in Chinese Wheat Mini-Core Collection.
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DOI：
10.3390/ijms23105587
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发表时间：
2022-05-17
影响因子：
5.6
通讯作者：
中科院分区：
文献类型：
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作者：
种质多样性调查对于深入了解作物改良的基因组基础非常重要;特别是InDel，这在六倍体普通小麦中知之甚少。在这里，我们描述了来自中国小麦微核心种质的262份材料的外显子组测序的89，923个InDel图谱。对地方品种和栽培品种进行了群体结构分析、主成分分析和选择扫描分析。进一步的全基因组关联分析（GWAS）发现了5个与穗长相关的QTL（Quantitative Trait Loci），其中2个位于2B和6A染色体上，在10个表型数据集中检测到。在RNA-seq数据的辅助下，我们在两个QTL区域内分别鉴定了14个和21个在穗和轴中表达的基因，这些基因可以进一步研究以发现候选基因。此外，在染色体5A、6 B和4A上发现了与芒长相关的InDels，这些InDels与先前报道的遗传位点B1（Tipped 1）、B2（Tipped 2）和Hd（Hooded）重叠。在B2位点发现了一个先前显示影响花器官发育的基因TaAGL 6，其影响芒长度发育。本研究表明，与性状相关的InDels可能有助于小麦的改良，并可能成为未来小麦育种的有价值的分子标记
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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影响因子：
4.6
作者：
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通讯作者：
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影响因子：
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通讯作者：
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