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Open AccessArticle

Comparative Genomic Insights into Secondary Metabolism Biosynthetic Gene Cluster Distributions of Marine Streptomyces

by Lin Xu 1,2,3,*, 1,2, 1,2, 1,2,3, 1,2 and Bing-Nan Han 1,2,*
1
Lab of Marine Functional Molecules, Zhejiang Sci-Tech University, Hangzhou 310018, China
2
College of Life Sciences and Medicine, Zhejiang Sci-Tech Univeristy, Hangzhou 310018, China
3
Key Laboratory of Marine Ecosystem and Biogeochemistry, State Oceanic Administration & Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou 310012, China
*
Authors to whom correspondence should be addressed.
Mar. Drugs 2019, 17(9), 498; https://doi.org/10.3390/md17090498
Received: 31 July 2019 / Revised: 19 August 2019 / Accepted: 21 August 2019 / Published: 26 August 2019
(This article belongs to the Special Issue Genome Mining and Marine Microbial Natural Products)
Bacterial secondary metabolites have huge application potential in multiple industries. Biosynthesis of bacterial secondary metabolites are commonly encoded in a set of genes that are organized in the secondary metabolism biosynthetic gene clusters (SMBGCs). The development of genome sequencing technology facilitates mining bacterial SMBGCs. Marine Streptomyces is a valuable resource of bacterial secondary metabolites. In this study, 87 marine Streptomyces genomes were obtained and carried out into comparative genomic analysis, which revealed their high genetic diversity due to pan-genomes owning 123,302 orthologous clusters. Phylogenomic analysis indicated that the majority of Marine Streptomyces were classified into three clades named Clade I, II, and III, containing 23, 38, and 22 strains, respectively. Genomic annotations revealed that SMBGCs in the genomes of marine Streptomyces ranged from 16 to 84. Statistical analysis pointed out that phylotypes and ecotypes were both associated with SMBGCs distribution patterns. The Clade I and marine sediment-derived Streptomyces harbored more specific SMBGCs, which consisted of several common ones; whereas the Clade II and marine invertebrate-derived Streptomyces have more SMBGCs, acting as more plentiful resources for mining secondary metabolites. This study is beneficial for broadening our knowledge about SMBGC distribution patterns in marine Streptomyces and developing their secondary metabolites in the future. View Full-Text
Keywords: Streptomyces; comparative genomics; secondary metabolites; biosynthetic gene clusters; phylotype; ecotype Streptomyces; comparative genomics; secondary metabolites; biosynthetic gene clusters; phylotype; ecotype
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MDPI and ACS Style

Xu, L.; Ye, K.-X.; Dai, W.-H.; Sun, C.; Xu, L.-H.; Han, B.-N. Comparative Genomic Insights into Secondary Metabolism Biosynthetic Gene Cluster Distributions of Marine Streptomyces. Mar. Drugs 2019, 17, 498.

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