Institute of Plant Protection, Sichuan Academy of Agricultural Sciences, Key Laboratory of Integrated Pest Management On Crops in Southwest, Ministry of Agriculture, Chengdu, People's Republic of China.
Key Laboratory of Coarse Cereal Processing, Ministry of Agriculture and Rural Affairs, School of Food and Biological Engineering, Chengdu University, Chengdu, People's Republic of China.
Sci Rep. 2021 Jan 28;11(1):2569. doi: 10.1038/s41598-021-82040-7.
Trametes species are efficient wood decomposers that are widespread throughout the world. Mitogenomes have been widely used to understand the phylogeny and evolution of fungi. Up to now, two mitogenomes from the Trametes genus have been revealed. In the present study, the complete mitogenomes of two novel Trametes species, Trametes versicolor and T. coccinea, were assembled and compared with other Polyporales mitogenomes. Both species contained circular DNA molecules, with sizes of 67,318 bp and 99,976 bp, respectively. Comparative mitogenomic analysis indicated that the gene number, length and base composition varied between the four Trametes mitogenomes we tested. In addition, all of the core protein coding genes in Trametes species were identified and subjected to purifying selection. The mitogenome of T. coccinea contained the largest number of introns among the four Trametes species tested, and introns were considered the main factors contributing to size variations of Polyporales. Several novel introns were detected in the Trametes species we assembled, and introns identified in Polyporales were found to undergo frequent loss/gain events. Large-scale gene rearrangements were detected between closely related Trametes species, including gene inversions, insertions, and migrations. A well-supported phylogenetic tree for 77 Basidiomycetes was obtained based on the combined mitochondrial gene set using 2 phylogenetic inference methods. The results showed that mitochondrial genes are effective molecular markers for understanding the phylogeny of Basidiomycetes. This study is the first to report the mitogenome rearrangement and intron dynamics of Trametes species, which shed light on the evolution of Trametes and other related species.
担子菌纲物种是高效的木材分解者，广泛分布于世界各地。线粒体基因组已被广泛用于了解真菌的系统发育和进化。迄今为止，已经揭示了两个来自担子菌纲的线粒体基因组。在本研究中，组装并比较了两种新型担子菌，绒盖牛肝菌和红绒盖牛肝菌的完整线粒体基因组与其他多孔菌目线粒体基因组。这两个物种都含有圆形 DNA 分子，大小分别为 67318bp 和 99976bp。比较线粒体基因组分析表明，我们测试的四个担子菌目线粒体基因组中的基因数量、长度和碱基组成存在差异。此外，所有担子菌目物种的核心蛋白编码基因都被鉴定出来，并受到纯化选择的影响。在我们测试的四个担子菌目中，红绒盖牛肝菌的线粒体基因组包含最多的内含子，而内含子被认为是导致多孔菌目大小变异的主要因素。在所组装的担子菌目中检测到了几个新的内含子，并且在多孔菌目中发现内含子经历了频繁的丢失/获得事件。在密切相关的担子菌目中检测到了大规模的基因重排，包括基因反转、插入和迁移。基于两种系统发育推断方法，使用组合线粒体基因集获得了 77 个担子菌的高度支持的系统发育树。结果表明，线粒体基因是了解担子菌系统发育的有效分子标记。本研究首次报道了担子菌属物种的线粒体基因组重排和内含子动态，这为担子菌属和其他相关物种的进化提供了新的见解。
