Streptomyces are the primary producers of antimicrobial secondary metabolites. A Streptomyces species was isolated from the rhizosphere of rice plants. It was identified as Streptomyces rochei FE-3-1. The metabolites of the strain exhibited potent antagonistic activity against Pyricularia oryzae, Sclerotinia sclerotiorum and rhizoctonia solani. Whole genome sequencing and genome mining were performed to fully understand the main characteristics of the strain. The metabolic pathways and secondary metabolite gene clusters were identifed via AntiSMASH. From the known genes, the genes related to plant growth promotion, heavy metal resistance, and sulfate reduction were explored according to Prokka annotations. Finally, a comparative and pangenome analysis with eight closely related genomes was conducted. The result shows that the total size of the genome is 8,247,561 bp with 72.51 % G + C content. From a total of 7158 genes, 169 predicted RNA genes, including 67 tRNA, 18 rRNAs and 84 sRNA, and 14 genomic island were predicted. A total of 31 biosynthetic gene clusters (BGCs) were detected within the genome of Streptomyces rochei FE-3-1. From the alignment results, 17816 gene families were found in 9 genomes, of which 2920 genes constitute the core genome. The genotypic and phenotypic characteristics of Streptomyces rochei FE-3-1 show that it can produce abundant beneficial secondary metabolites with promising application prospects in the field of biotechnology.
Keywords: Streptomyces, Antagonistic activity, Whole genome sequencing, Genome mining, plant growth promotion. Less...