Ganoderma tsugae is an endemic medicinal mushroom in Northeast China, providing important source of pharmaceutical product. Comparing with other Ganoderma species, wild G. tsugae can utilize coniferous wood. However, functional genes related to medicinal component synthesis and the genetic mechanism of conifer substrate utilization is still obscure. Here, we assembled a high-quality G. tsugae genome with 18 contigs and 98.5% BUSCO genes and performed the comparative genomics with other Ganoderma species. G. tsugae diverged from their common ancestor of G. lingzhi and G. sinense about 21 million years ago. Genes in G. tsugae-specific and G. tsugae-expanded gene families, such as salh, phea, cyp53a1, and cyp102a, and positively selected genes, such as glpk and amie, were functionally enriched in plant-pathogen interaction, benzoate degradation, and fanconi anemia pathway. Those functional genes might contribute to conifer substrate utilization of G. tsugae. Meanwhile, gene families in the terpene synthesis were identified and genome-wide SNP variants were detected in population. Finally, the study provided valuable genomic resources and offered useful hints for the functional gene mapping and investigation of key gene contributing to conifer cultivation substrate utilization and medicinal component biosynthesis.

松芝灵芝是东北地区特有的药用菌，是医药产品的重要来源。与其他比较灵芝 物种, 野生 杉木可以利用针叶木。然而，与药用成分合成相关的功能基因和针叶树底物利用的遗传机制尚不清楚。在这里，我们组装了一个高质量的杉木 具有 18 个重叠群和 98.5% BUSCO 基因的基因组，并与其他基因组进行比较基因组学 灵芝 物种。 杉木 与他们共同的祖先不同 灵芝 和 香茅大约 2100 万年前。基因在杉木- 具体和 杉木- 扩展的基因家族，例如 萨尔, 菲亚, cyp53a1， 和 cyp102a, 和积极选择的基因, 如 格列克 和 艾米, 在植物病原体相互作用、苯甲酸盐降解和范可尼贫血途径中功能丰富。这些功能基因可能有助于针叶树底物利用杉木. 同时，鉴定了萜烯合成中的基因家族，并在人群中检测到全基因组SNP变异。最后，该研究为针叶树栽培基质利用和药用成分生物合成的功能基因定位和关键基因的研究提供了宝贵的基因组资源，并提供了有益的启示。