Key Laboratory of Agricultural Microbiomics and Precision Application (MARA), Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Key Laboratory of Agricultural Microbiome (MARA), State Key Laboratory of Applied Microbiology Southern China, Guangdong Microbial Culture Collection Center (GDMCC), Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou 510070, China.
Key Laboratory of Agricultural Microbiomics and Precision Application (MARA), Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Key Laboratory of Agricultural Microbiome (MARA), State Key Laboratory of Applied Microbiology Southern China, Guangdong Microbial Culture Collection Center (GDMCC), Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou 510070, China; College of Plant Protection, South China Agricultural University, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Guangzhou 510642, China.
Gene. 2023 May 5;863:147286. doi: 10.1016/j.gene.2023.147286. Epub 2023 Feb 17.
Tomato bacterial wilt (TBW) caused by Ralstonia solanacearum is one of the most destructive soil-borne diseases. Myxococcus xanthus R31, isolated from healthy tomato rhizosphere soil using the R. solanacearum baiting method, exhibiting good biocontrol efficacy against TBW. However, the genomic information and evolutionary features of R31 are largely unclear. Here, the high-quality genome assembly of R31 was presented. Using Nanopore sequencing technology, we assembled the 9.25 Mb complete genome of R31 and identified several extracellular enzyme proteins, including carbohydrate-active enzymes (CAZymes) and peptidases. We also performed a comparative genome analysis of R31 and 17 other strains of M. xanthus with genome sequences in the NCBI database to gain insights into myxobacteria predation and genome size expansion. Average nucleotide identity and digital DNA-DNA hybridization calculation and phylogenetic analysis indicated that R31 was closely related to the species M. xanthus. Further comparative genomics analysis suggested that, in addition to characteristics of predatory microorganisms, R31 contains many strain-specific genes, which may provide a genetic basis for its proficient predatory ability. This study provides new insights into R31 and other closely related species and facilitates studies using genetic approaches to further elucidate the predation mechanism of myxobacteria.
番茄青枯病（TBW）是由茄青枯雷尔氏菌引起的最具破坏性的土传病害之一。黄杆菌属 R31 是通过用茄青枯雷尔氏菌诱饵法从健康的番茄根际土壤中分离得到的，对 TBW 具有良好的生物防治效果。然而，R31 的基因组信息和进化特征在很大程度上尚不清楚。在这里，我们呈现了 R31 的高质量基因组组装。使用纳米孔测序技术，我们组装了 R31 的 9.25 Mb 完整基因组，并鉴定了几种细胞外酶蛋白，包括碳水化合物活性酶（CAZymes）和肽酶。我们还对 R31 和 NCBI 数据库中具有基因组序列的 17 株其他黄杆菌属菌株进行了比较基因组分析，以深入了解粘细菌的捕食和基因组大小扩张。平均核苷酸同一性和数字 DNA-DNA 杂交计算和系统发育分析表明，R31 与物种黄杆菌属关系密切。进一步的比较基因组学分析表明，除了捕食微生物的特征外，R31 还包含许多菌株特异性基因，这可能为其高效捕食能力提供了遗传基础。本研究为 R31 和其他密切相关的物种提供了新的见解，并促进了使用遗传方法进一步阐明粘细菌捕食机制的研究。
