Whole-Genome Sequencing and Fine Map Analysis of Pholiota nameko

作者：Yan He, Bo Liu, Xiaoqi Ouyang, Mingchuan He, Hongyan Hui, Bimei Tang, Liaoliao Feng, Min Ren, Guoliang Chen, Guangping Liu, Xiaolong He · 发表于：Journal of Fungi · 年份：2025 · DOI：10.3390/jof11020112 · 被引用次数：5 · 研究领域：Fungal Biology and Applications、Mycorrhizal Fungi and Plant Interactions、Biocrusts and Microbial Ecology

Pholiota nameko (T. Ito) S. Ito and S. Imai is an emerging wild mushroom species belonging to the genus Pholiota. Its unique brown–yellow appearance and significant biological activity have garnered increasing attention in recent years. However, there is a relative lack of research on the biological characteristics and genetics of P. nameko, which greatly limits the potential for an in-depth exploration of this mushroom in the research fields of molecular breeding and evolutionary biology. This study aimed to address that gap by employing Illumina and Nanopore sequencing technologies to perform whole-genome sequencing, de novo assembly, and annotation analysis of the P. nameko ZZ1 strain. Utilizing bioinformatics methods, we conducted a comprehensive analysis of the genomic characteristics of this strain and successfully identified candidate genes associated with its mating type, carbohydrate-active enzymes, virulence factors, pan-genome, and drug resistance functions. The genome of P. nameko ZZ1 is 24.58 Mb in size and comprises 33 contigs, with a contig N50 of 2.11 Mb. A hylogenetic analysis further elucidated the genetic relationship between P. nameko and other Pholiota, revealing a high degree of collinearity between P. nameko and ZZ1. In our enzyme analysis, we identified 246 enzymes in the ZZ1 genome, including 68 key carbohydrate-active enzymes (CAZymes), and predicted the presence of 11 laccases, highlighting the strain’s strong potential for cellulose degradation. We...