基于重测序信息的金针菇菌株资源遗传多样性及群体结构分析

通过对来自国内外的28份金针菇菌株资源的重测序共计检测到SNP位点1 241 583个,InDel位点623 670个。通过筛选分型,1 474个高质量SNP标记（多态信息含量指数PIC介于0.101-0.966之间）被用于金针菇资源群体多样性和结构分析。经计算,菌株间遗传距离在0.057-0.631之间。UPGMA进化树拓扑结构显示栽培菌株是其与野生菌株混合分支的一个亚支,自然栽培和工厂化栽培菌株可各自聚成一支,符合金针菇育种历史。群体结构结果显示金针菇种质资源包含5个亚群。主成分分析显示菌株在二主分之间的位置及互相间距离基本符合进化树分类、群体结构和遗传距离。本研究为金针菇分子标记和基因型的确定提供序列基础,也为后续资源保护利用、重要农艺性状的基因定位和基于分子标记的聚合育种提供理论依据。

Analyses of population diversity and structure of Flammulina filiformis strains based on whole genome resequencing data

Twenty-eight strains of Flammulina filiformis from China and abroad were used for genome resequencing. In total, 1 241 583 SNP and 623 670 InDel sites were detected by mapping with reference genome. The screened 1 474 high-quality SNP sites with PIC (polymorphism information content) ranged from 0.101 to 0.966 were applicated for further analysis on genetic distance, UPGMA phylogenetic trees, population structure, and PCA between strains. The result showed that genetic distance between strains were 0.057-0.631. UPGMA tree showed the cultivation strains was a subclade within a large mixed clade of wild and cultivation strains, and seasonal cultivation and industry cultivation strains can be distinguished, consisting with the history of breeding cultivation of F. filiformis. Five subpopulations were detected by STRUCTRUE software. The PCA result were consistent with the analysis based on other mathematical methods.