Luo Cheng-Ying, Lu Yao, Su Lei, Liu Jia-Jia, Miao Jia-Yun, Lin Yi-Cen, Lin Lian-Bing
Faculty of Life Science and Technology, Kunming University of Science and Technology, Kunming, 650500, China.
Gastrodia Industry Development Center of Yiliang County, Zhaotong, 657000, China.
BMC Genomics. 2025 Mar 31;26(1):324. doi: 10.1186/s12864-024-10897-9.
On the one hand, Armillaria is regarded as a plant disease that causes serious root rot of forest trees, on the other hand, Armillaria is also an important symbiotic fungi of the valuable Chinese herb Gastrodia elata. Currently, the whole genome database of Armillaria is relatively limited, and it is expected that a more comprehensive understanding of the symbiotic interactions between Armillaria and G. elata can be achieved through genome-wide comparisons and functional annotations. Whole genome sequencing of Armillaria gallica M3 strain was performed using Oxford Nanopore Technologies sequencing platform, and the sequencing data were used to perform genome assembly, gene prediction and functional annotation, carbohydrate-active enzymes, and host-pathogen interactions using bioinformatics methods.
In this study, we obtained an 83.33 M genome of A. gallica M3 strain, which consisted of 38 overlapping clusters with an N50 of 6,065,498 bp and a GC content of 47.43%. A total of 12,557 genes were identified in the genome of A. gallica M3, and the repetitive sequences accounted for about 44.36% of the genome. 42.26% of the genome was composed of glycoside hydrolases (GHs), 16.15% of the genome was composed of glycosyltransferases (GTs). In addition, 3412 genes in A. gallica M3 were involved in the host-pathogen interaction mechanism.
These results have elucidated the characteristics of A. gallica M3 from a genomic perspective to a certain extent. They help to analyze the inner mechanism of A. gallica M3 being able to symbiosis with G. elata at the genomic level, which is of great significance to the next related research of A. gallica M3.
一方面，蜜环菌被视为一种导致森林树木严重根腐病的植物病害，另一方面，蜜环菌也是名贵中药材天麻的重要共生真菌。目前，蜜环菌的全基因组数据库相对有限，期望通过全基因组比较和功能注释能够更全面地了解蜜环菌与天麻之间的共生相互作用。利用牛津纳米孔技术测序平台对高卢蜜环菌M3菌株进行全基因组测序，并使用生物信息学方法对测序数据进行基因组组装、基因预测与功能注释、碳水化合物活性酶以及宿主 - 病原体相互作用分析。
在本研究中，我们获得了高卢蜜环菌M3菌株83.33 M的基因组，其由38个重叠群组成，N50为6,065,498 bp，GC含量为47.43%。在高卢蜜环菌M3基因组中总共鉴定出12,557个基因，重复序列约占基因组的44.36%。基因组的42.26%由糖苷水解酶（GHs）组成，16.15%由糖基转移酶（GTs）组成。此外，高卢蜜环菌M3中有3412个基因参与宿主 - 病原体相互作用机制。
这些结果在一定程度上从基因组角度阐明了高卢蜜环菌M3的特征。它们有助于在基因组水平分析高卢蜜环菌M3与天麻共生的内在机制，这对高卢蜜环菌M3的下一步相关研究具有重要意义。
