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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.

Genome of Ganoderma Species Provides Insights Into the Evolution, Conifers Substrate Utilization, and Terpene Synthesis for Ganoderma tsugae