Biosynthetic potential-based strain prioritization for natural product discovery: a showcase for diterpenoid-producing actinomycetes

Pengfei Xie, Ming Ma, Mostafa E Rateb, Khaled A Shaaban, Zhiguo Yu, Sheng-Xiong Huang, Li-Xing Zhao, Xiangcheng Zhu, Yijun Yan, Ryan M Peterson, Jeremy R Lohman, Dong Yang, Min Yin, Jeffrey D Rudolf, Yi Jiang, Yanwen Duan, Ben Shen, Mostafa Ezzat Mohamed Rateb

Research output: Contribution to journalArticlepeer-review

44 Citations (Scopus)


Natural products remain the best sources of drugs and drug leads and serve as outstanding small-molecule probes to dissect fundamental biological processes. A great challenge for the natural product community is to discover novel natural products efficiently and cost effectively. Here we report the development of a practical method to survey biosynthetic potential in microorganisms, thereby identifying the most promising strains and prioritizing them for natural product discovery. Central to our approach is the innovative preparation, by a two-tiered PCR method, of a pool of pathway-specific probes, thereby allowing the survey of all variants of the biosynthetic machineries for the targeted class of natural products. The utility of the method was demonstrated by surveying 100 strains, randomly selected from our actinomycete collection, for their biosynthetic potential of four classes of natural products, aromatic polyketides, reduced polyketides, nonribosomal peptides, and diterpenoids, identifying 16 talented strains. One of the talented strains, Streptomyces griseus CB00830, was finally chosen to showcase the discovery of the targeted classes of natural products, resulting in the isolation of three diterpenoids, six nonribosomal peptides and related metabolites, and three polyketides. Variations of this method should be applicable to the discovery of other classes of natural products.

Original languageEnglish
Pages (from-to)377-387
Number of pages11
JournalJournal of Natural Products
Issue number2
Early online date31 Jan 2014
Publication statusPublished - 28 Feb 2014

Bibliographical note

ACS AuthorChoice - This is an open access article published under an ACS AuthorChoice License, which permits copying and redistribution of the article or any adaptations for non-commercial purposes.

This work is supported in part by the Natural Products Library
Initiative at The Scripps Research Institute, NIH grant
GM086184 (to B.S.), the Chinese Ministry of Education 111
Project B08034 (to Y.D.), and National High Technology Joint
Research Program of China grant 2011ZX09401-001 (to Y.D.)


  • Actinobacteria
  • Biological Products
  • Diterpenes
  • Drug Discovery
  • Molecular Structure
  • Polyketide Synthases
  • Polyketides
  • Polymerase Chain Reaction
  • Streptomyces griseus


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