Institute of Edible & Medicinal Mushroom, Fujian Academy of Agriculture Sciences, Fuzhou 350011, China.
College of Bee Science and Biomedicine, Fujian Agriculture and Forestry University, China.
Genomics. 2024 Sep;116(5):110924. doi: 10.1016/j.ygeno.2024.110924. Epub 2024 Aug 22.
The first dikaryotic genome of Ganoderma cultivar Zizhi S2 (56.76 Mb, 16,681 genes) has been sequenced recently. 98.15% of complete BUSCOs were recovered in this genome assembly and high-confidence annotation rate improved to 91.41%. Collinearity analysis displayed the nuclear genome were 80.2% and 93.84% similar to reference genome of G. sinense at nucleotide and amino acid levels, which presented 8,521 core genes and 880 unique orthologous gene groups. Among that, at least six functional genes (tef1-α, β-tubulin, rpb2, CaM, Mn-SOD and VeA) and a newly discovered fip gene were highly similar 99.27% ∼100% to those in reference genome. And the mt-LSU, mt-SSU and 13 PCGs in their mitogenome were also highly conserved with 99.27%-99.87% and 99.08%-100% identity, respectively. So that, this cultivar Zizhi S2 is confirmed conspecific with Ganoderma sinense (NCBI: txid1077348). The new fip gene (MN635280.1_336bp) existing a novel mutation which can be reflected on the phylogenetic tree and 3-dimensional model topology structure.
最近，已对栽培灵芝品种智芝 S2（56.76Mb，16681 个基因）的第一个双核体基因组进行了测序。该基因组组装中恢复了 98.15%的完整 BUSCOs，置信度高的注释率提高到了 91.41%。共线性分析显示，核基因组在核苷酸和氨基酸水平上与参考基因组 G. sinense 的相似性分别为 80.2%和 93.84%，这表明存在 8521 个核心基因和 880 个独特的直系同源基因群。其中，至少有六个功能基因（tef1-α、β-微管蛋白、rpb2、CaM、Mn-SOD 和 VeA）和一个新发现的 fip 基因与参考基因组高度相似，相似度为 99.27%~100%。此外，其线粒体基因组中的 mt-LSU、mt-SSU 和 13 个 PCGs 也高度保守，相似度分别为 99.27%-99.87%和 99.08%-100%。因此，该品种智芝 S2 被确认为与灵芝（NCBI：txid1077348）同一种。新的 fip 基因（MN635280.1_336bp）存在一个新的突变，可以反映在系统发育树和三维模型拓扑结构上。
