Genome Mining of Streptomyces sp. YIM 130001 Isolated From Lichen Affords New Thiopeptide Antibiotic

Olha Schneider, Nebojsa Simic, Finn Lillelund Aachmann, Christian Rueckert, Kare Andre Kristiansen, Joern Kalinowski, Yi Jiang, Lisong Wang, Cheng-Lin Jiang, Rahmi Lale, Sergey B. Zotchev (Corresponding author)

    Publications: Contribution to journalArticlePeer Reviewed

    Abstract

    Streptomyces bacteria are recognized as an important source for antibiotics with broad applications in human medicine and animal health. Here, we report the isolation of a new lichen-associating Streptomyces sp. YIM 130001 from the tropical rainforest in Xishuangbanna (Yunnan, China), which displayed antibacterial activity against Bacillus subtilis. The draft genome sequence of this isolate strain revealed 18 putative biosynthetic gene clusters (BGCs) for secondary metabolites, which is an unusually low number compared to a typical streptomycete. Inactivation of a lantibiotic dehydrogenase-encoding gene from the BGC presumed to govern biosynthesis of a thiopeptide resulted in the loss of bioactivity. Using comparative HPLC analysis, two peaks in the chromatogram were identified in the extract from the wild-type strain, which were missing in the extract from the mutant. The compounds corresponding to the identified peaks were purified, and structure of one compound was elucidated using NMR. The compound, designated geninthiocin B, showed high similarity to several 35-membered macrocyclic thiopeptides geninthiocin, Val-geninthiocin and berninamycin A. Bioinformatics analysis of the geninthiocin B BGC revealed its close homology to that of berninamycins.

    Original languageEnglish
    Article number3139
    Number of pages12
    JournalFrontiers in Microbiology
    Volume9
    DOIs
    Publication statusPublished - 19 Dec 2018

    Austrian Fields of Science 2012

    • 104013 Natural product chemistry
    • 106014 Genomics
    • 106022 Microbiology

    Keywords

    • new Streptomyces sp. from lichen
    • antibacterial activity
    • genome mining
    • new thiopeptide antibiotic
    • berninamycins
    • TERMINAL AMIDE FORMATION
    • GENE-CLUSTER
    • BIOSYNTHESIS
    • ACTIVATION
    • METABOLITES
    • DISCOVERY
    • SEQUENCE

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