Complete genome sequencing and in silico genome mining reveal the promising metabolic potential in Streptomyces strain CS-7

Khorshed Alam; Jinfang Hao; Lin Zhong; Guoqing Fan; Qing Ouyang; Md Mahmudul Islam; Saiful Islam; Hongluan Sun; Youming Zhang; Ruijuan Li; Aiying Li

doi:10.3389/fmicb.2022.939919

Complete genome sequencing and in silico genome mining reveal the promising metabolic potential in Streptomyces strain CS-7

Front Microbiol. 2022 Oct 5:13:939919. doi: 10.3389/fmicb.2022.939919. eCollection 2022.

Authors

Khorshed Alam¹, Jinfang Hao¹, Lin Zhong¹, Guoqing Fan¹, Qing Ouyang¹, Md Mahmudul Islam², Saiful Islam³, Hongluan Sun¹, Youming Zhang^{1

4}, Ruijuan Li¹, Aiying Li¹

Affiliations

¹ Helmholtz International Lab for Anti-infectives, Shandong University-Helmholtz Institute of Biotechnology, State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China.
² Department of Microbiology, Rajshahi Institute of Biosciences (RIB), Affiliated University of Rajshahi, Rajshahi, Bangladesh.
³ Bangladesh Council of Scientific and Industrial Research (BCSIR), Chattogram Laboratories, Chattogram, Bangladesh.
⁴ Chinese Academy of Sciences, Key Laboratory of Quantitative Engineering Biology, Shenzhen Institute of Synthetic Biology, Shenzhen Institute of Advanced Technology, Shenzhen, China.

Abstract

Gram-positive Streptomyces bacteria can produce valuable secondary metabolites. Streptomyces genomes include huge unknown silent natural product (NP) biosynthetic gene clusters (BGCs), making them a potential drug discovery repository. To collect antibiotic-producing bacteria from unexplored areas, we identified Streptomyces sp. CS-7 from mountain soil samples in Changsha, P.R. China, which showed strong antibacterial activity. Complete genome sequencing and prediction in silico revealed that its 8.4 Mbp genome contains a total of 36 BGCs for NPs. We purified two important antibiotics from this strain, which were structurally elucidated to be mayamycin and mayamycin B active against Staphylococcus aureus. We identified functionally a BGC for the biosynthesis of these two compounds by BGC direct cloning and heterologous expression in Streptomyces albus. The data here supported this Streptomyces species, especially from unexplored habitats, having a high potential for new NPs.

Keywords: Streptomyces; biosynthetic gene cluster; genome mining; mayamycin; natural products.