Fu Jing, Wu Xiaoqing, Zhang Chi, Tang Yuhan, Zhou Fangyuan, Zhang Xinjian, Fan Susu
Shandong Provincial Key Laboratory of Applied Microbiology, Ecology Institute, Qilu University of Technology (Shandong Academy of Sciences), Jinan 250103, China.
Institute of Ecology, Shandong Academy of Sciences, Jinan 250103, China.
Genes (Basel). 2024 Dec 21;15(12):1643. doi: 10.3390/genes15121643.
BACKGROUND/OBJECTIVES: Many fungi related to can degrade a wide range of pollutants and are widely distributed globally. SJ9 was enriched from fresh strawberry inter-root soil to yield fungi capable of degrading tetracycline, enrofloxacin, and tylosin.
SJ9 genome was sequenced, assembled, and annotated in this study utilizing bioinformatics software, PacBio, and the Illumina NovaSeq PE150 technology.
The genome size is 40.6 Mb, the N50 scaffold size is 4,534,389 bp, and the predicted number of coding genes is 8171. The TS63-9 genome has the highest resemblance to the SJ9 genome, according to a comparative genomic analysis of seven species. In addition, we annotated many genes encoding antibiotic-degrading enzymes in SJ9 through genomic databases, which also provided strong evidence for its ability to degrade antibiotics.
Through the correlation analysis of the whole-genome data of SJ9, we identified a number of genes capable of encoding antibiotic-degrading enzymes in its gene function annotation database. These antibiotic-related enzymes provide some evidence that SJ9 can degrade fluoroquinolone antibiotics, tetracycline antibiotics, and macrolide antibiotics. In summary, the complete genome sequence of SJ9 has now been published, and this resource constitutes a significant dataset that will inform forthcoming transcriptomic, proteomic, and metabolic investigations of this fungal species. In addition, genomic studies of other filamentous fungi can utilize it as a reference. Thanks to the discoveries made in this study, the future application of this fungus in industrial production will be more rapid.
背景/目的：许多与[具体内容缺失]相关的真菌能够降解多种污染物，且在全球广泛分布。SJ9是从新鲜草莓根际土壤中富集得到的，能够降解四环素、恩诺沙星和泰乐菌素的真菌。
本研究利用生物信息学软件、PacBio和Illumina NovaSeq PE150技术对SJ9基因组进行测序、组装和注释。
基因组大小为40.6 Mb，N50支架大小为4,534,389 bp，预测编码基因数量为8171个。根据对七个物种的比较基因组分析，TS63-9基因组与SJ9基因组的相似度最高。此外，我们通过基因组数据库在SJ9中注释了许多编码抗生素降解酶的基因，这也为其降解抗生素的能力提供了有力证据。
通过对SJ9全基因组数据的关联分析，我们在其基因功能注释数据库中鉴定出了一些能够编码抗生素降解酶的基因。这些与抗生素相关的酶为SJ9能够降解氟喹诺酮类抗生素、四环素类抗生素和大环内酯类抗生素提供了一些证据。总之，SJ9的完整基因组序列现已公布，这一资源构成了一个重要的数据集，将为该真菌即将开展的转录组学、蛋白质组学和代谢研究提供信息。此外，其他丝状真菌的基因组研究也可将其作为参考。得益于本研究的发现，这种真菌在工业生产中的未来应用将更加迅速。
