Institute of Vegetable, Wuhan Academy of Agricultural Sciences, Wuhan, 430065, Hubei, People's Republic of China.
Institute of Applied Mycology, Huazhong Agricultural University, Wuhan, 430070, Hubei, People's Republic of China.
J Microbiol. 2023 Jan;61(1):83-93. doi: 10.1007/s12275-022-00003-7. Epub 2023 Feb 1.
The basidiomycetous edible mushroom Stropharia rugosoannulata has excellent nutrition, medicine, bioremediation, and biocontrol properties. S. rugosoannulata has been widely and easily cultivated using agricultural by-products showing strong lignocellulose degradation capacity. However, the unavailable high-quality genome information has hindered the research on gene function and molecular breeding of S. rugosoannulata. This study provided a high-quality genome assembly and annotation from S. rugosoannulata monokaryotic strain QGU27 based on combined Illumina-Nanopore data. The genome size was about 47.97 Mb and consisted of 20 scaffolds, with an N50 of 3.73 Mb and a GC content of 47.9%. The repetitive sequences accounted for 17.41% of the genome, mostly long terminal repeats (LTRs). A total of 15,726 coding gene sequences were putatively identified with the BUSCO score of 98.7%. There are 142 genes encoding plant cell wall degrading enzymes (PCWDEs) in the genome, and 52, 39, 30, 11, 8, and 2 genes related to lignin, cellulose, hemicellulose, pectin, chitin, and cutin degradation, respectively. Comparative genomic analysis revealed that S. rugosoannulata is superior in utilizing aldehyde-containing lignins and is possible to utilize algae during the cultivation.
担子菌门可食用蘑菇糙皮侧耳具有极好的营养、药用、生物修复和生物防治特性。糙皮侧耳使用农业副产品广泛而容易地进行栽培，具有很强的木质纤维素降解能力。然而，缺乏高质量的基因组信息阻碍了糙皮侧耳基因功能和分子育种的研究。本研究基于 Illumina-Nanopore 数据，从糙皮侧耳单核菌株 QGU27 提供了高质量的基因组组装和注释。基因组大小约为 47.97Mb，由 20 个支架组成，N50 为 3.73Mb，GC 含量为 47.9%。重复序列占基因组的 17.41%，主要是长末端重复（LTRs）。共鉴定出 15726 个编码基因序列，BUSCO 评分达到 98.7%。基因组中共有 142 个编码植物细胞壁降解酶（PCWDEs）的基因，分别有 52、39、30、11、8 和 2 个基因与木质素、纤维素、半纤维素、果胶、几丁质和角质降解有关。比较基因组分析表明，糙皮侧耳在利用含醛木质素方面具有优势，并且在培养过程中可能利用藻类。
