iScience
Volume 24, Issue 12, 17 December 2021, 103410
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Article
Re-classification of Streptomyces venezuelae strains and mining secondary metabolite biosynthetic gene clusters

https://doi.org/10.1016/j.isci.2021.103410Get rights and content
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Highlights

  • Seven out of ten Streptomyces venezuelae strains were misclassified

  • 59secondary metabolites productions were identified from the ten strains

  • Athv28 converts glutamine to ADPC, the most important anthelvencin precursor

Summary

Streptomyces species have attracted considerable interest as a reservoir of medically important secondary metabolites, which are even diverse and different between strains. Here, we reassess ten Streptomyces venezuelae strains by presenting the highly resolved classification, using 16S rRNA sequencing, MALDI-TOF MS protein profiling, and whole-genome sequencing. The results revealed that seven of the ten strains were misclassified as S. venezuelae species. Secondary metabolite biosynthetic gene cluster (smBGC) mining and targeted LC-MS/MS based metabolite screening of S. venezuelae and misclassified strains identified in total 59 secondary metabolites production. In addition, a comparison of pyrrolamide-type antibiotic BGCs of four misclassified strains, followed by functional genomics, revealed that athv28 is critical in the synthesis of the anthelvencin precursor, 5-amino-3,4-dihydro-2H-pyrrole-2-carboxylate (ADPC). Our findings illustrate the importance of the accurate classification and better utilization of misclassified Streptomyces strains to discover smBGCs and their secondary metabolite products.

Subject areas

Microbiology
Microbial genomics
Phylogeny
Metabolomics

Data and code availability

  • The genome sequence datasets used in this study are available at NCBI database (accession numbers are listed in Key resources table).

  • This manuscript does not report original code.

  • Any additional information required to reanalyze the data reported in this paper is available from the lead contact upon request.

Cited by (0)

8

These authors contributed equally

9

Lead contact