Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota.
Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota.
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DOI：
10.1126/sciadv.abd0079
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发表时间：
2020-11
期刊：
影响因子：
13.6
通讯作者：
Rokas A
中科院分区：
文献类型：
--
作者：
Shen XX;Steenwyk JL;LaBella AL;Opulente DA;Zhou X;Kominek J;Li Y;Groenewald M;Hittinger CT;Rokas A
1107个基因组产生了一个强大的系统基因组时间表，并揭示了最大的真菌门中截然不同的进化模式。子囊菌门是最大和研究最充分的真菌门，包括三个亚门：酵母菌亚门(发芽酵母)、丝状真菌亚门(丝状真菌)和丝状酵母菌亚门(分裂酵母)。尽管它很重要，但我们缺乏全面的基因组规模的系统学，也缺乏对这一门中基因组进化模式的相似和差异的了解。通过研究酵母菌亚门(332种)、平革菌亚门(761亚种)和丝菌亚门(14种)的1107个基因组，我们推断了一个强大的全基因组系统发育，解决了几个有争议的关系，并估计子囊菌门最后的共同祖先可能起源于埃迪卡拉纪。基因组性质的比较表明，酵母菌和酵母菌在基因组性质上有很大的不同，从而能够推断进化的方向。与酵母菌相比，酵母菌通常具有较小的基因组、较低的鸟嘌呤-胞嘧啶含量、较少的基因数量和较高的分子序列进化速率。这些结果为理解最大真菌门的多样性和生态生活方式提供了一个强大的进化框架。
The 1107 genomes yield a robust phylogenomic timetree and reveal contrasting modes of evolution in the largest fungal phylum. Ascomycota, the largest and most well-studied phylum of fungi, contains three subphyla: Saccharomycotina (budding yeasts), Pezizomycotina (filamentous fungi), and Taphrinomycotina (fission yeasts). Despite its importance, we lack a comprehensive genome-scale phylogeny or understanding of the similarities and differences in the mode of genome evolution within this phylum. By examining 1107 genomes from Saccharomycotina (332), Pezizomycotina (761), and Taphrinomycotina (14) species, we inferred a robust genome-wide phylogeny that resolves several contentious relationships and estimated that the Ascomycota last common ancestor likely originated in the Ediacaran period. Comparisons of genomic properties revealed that Saccharomycotina and Pezizomycotina differ greatly in their genome properties and enabled inference of the direction of evolutionary change. The Saccharomycotina typically have smaller genomes, lower guanine-cytosine contents, lower numbers of genes, and higher rates of molecular sequence evolution compared with Pezizomycotina. These results provide a robust evolutionary framework for understanding the diversity and ecological lifestyles of the largest fungal phylum.