The genome of Lyophyllum shimeji provides insight into the initial evolution of ectomycorrhizal fungal genomes.

IF 3.9 2区 生物学 Q1 GENETICS & HEREDITY DNA Research Pub Date : 2023-02-01 DOI:10.1093/dnares/dsac053
Yuuki Kobayashi, Tomoko F Shibata, Hideki Hirakawa, Tomoaki Nishiyama, Akiyoshi Yamada, Mitsuyasu Hasebe, Shuji Shigenobu, Masayoshi Kawaguchi
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Abstract

Mycorrhizae are one of the most fundamental symbioses between plants and fungi, with ectomycorrhizae being the most widespread in boreal forest ecosystems. Ectomycorrhizal fungi are hypothesized to have evolved convergently from saprotrophic ancestors in several fungal clades, especially members of the subdivision Agaricomycotina. Studies on fungal genomes have identified several typical characteristics of mycorrhizal fungi, such as genome size expansion and decreases in plant cell-wall degrading enzymes (PCWDEs). However, genomic changes concerning the evolutionary transition to the ectomycorrhizal lifestyle are largely unknown. In this study, we sequenced the genome of Lyophyllum shimeji, an ectomycorrhizal fungus that is phylogenetically related to saprotrophic species and retains some saprotroph-like traits. We found that the genome of Ly. shimeji strain AT787 lacks both incremental increases in genome size and reduced numbers of PCWDEs. Our findings suggest that the previously reported common genomic traits of mycorrhizal fungi are not essential for the ectomycorrhizal lifestyle, but are a result of abolishing saprotrophic activity. Since Ly. shimeji is commercially consumed as an edible mushroom, the newly available genomic information may also impact research designed to enhance the cultivation of this mushroom.

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Lyophyllum shimeji的基因组为外生菌根真菌基因组的初始进化提供了见解。
菌根是植物和真菌之间最基本的共生生物之一,外生菌根在北方森林生态系统中分布最广。外生菌根真菌被认为是在几个真菌分支中从腐坏性祖先进化而来的,特别是木链菌门的成员。真菌基因组的研究已经确定了菌根真菌的几个典型特征,如基因组大小扩大和植物细胞壁降解酶(PCWDEs)的减少。然而,与向外菌根生活方式的进化过渡有关的基因组变化在很大程度上是未知的。在这项研究中,我们对Lyophyllum shimeji的基因组进行了测序,Lyophyllum shimeji是一种外生菌根真菌,在系统发育上与腐养物种相关,并保留了一些类似腐养的性状。我们发现Ly的基因组。shimeji菌株AT787既缺乏基因组大小的增量增加,也缺乏pcwde数量的减少。我们的研究结果表明,以前报道的菌根真菌的共同基因组特征并不是外生菌根生活方式所必需的,而是消除腐养活动的结果。因为供应。Shimeji作为一种食用菌在商业上消费,新获得的基因组信息也可能影响旨在加强这种蘑菇种植的研究。
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来源期刊
DNA Research
DNA Research 生物-遗传学
CiteScore
6.00
自引率
4.90%
发文量
39
审稿时长
4.5 months
期刊介绍: DNA Research is an internationally peer-reviewed journal which aims at publishing papers of highest quality in broad aspects of DNA and genome-related research. Emphasis will be made on the following subjects: 1) Sequencing and characterization of genomes/important genomic regions, 2) Comprehensive analysis of the functions of genes, gene families and genomes, 3) Techniques and equipments useful for structural and functional analysis of genes, gene families and genomes, 4) Computer algorithms and/or their applications relevant to structural and functional analysis of genes and genomes. The journal also welcomes novel findings in other scientific disciplines related to genomes.
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