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Streptomyces lydicamycinicus sp. nov. and Its Secondary Metabolite Biosynthetic Gene Clusters for Polyketide and Nonribosomal Peptide Compounds

1
Biological Resource Center, National Institute of Technology and Evaluation (NBRC), 2-5-8 Kazusa-kamatari, Kisarazu, Chiba 292-0818, Japan
2
Biotechnology Research Center and Department of Biotechnology, Toyama Prefectural University, 5180 Kurokawa, Imizu, Toyama 939-0398, Japan
*
Author to whom correspondence should be addressed.
Microorganisms 2020, 8(3), 370; https://doi.org/10.3390/microorganisms8030370
Received: 23 January 2020 / Revised: 21 February 2020 / Accepted: 2 March 2020 / Published: 6 March 2020
(This article belongs to the Special Issue Natural Products from Streptomyces)
(1) Background: Streptomyces sp. TP-A0598 derived from seawater produces lydicamycin and its congeners. We aimed to investigate its taxonomic status; (2) Methods: A polyphasic approach and whole genome analysis are employed; (3) Results: Strain TP-A0598 contained ll-diaminopimelic acid, glutamic acid, glycine, and alanine in its peptidoglycan. The predominant menaquinones were MK-9(H6) and MK-9(H8), and the major fatty acids were C16:0, iso-C15:0, iso-C16:0, and anteiso-C15:0. Streptomyces sp. TP-A0598 showed a 16S rDNA sequence similarity value of 99.93% (1 nucleottide difference) to Streptomyces angustmyceticus NRRL B-2347T. The digital DNA–DNA hybridisation value between Streptomyces sp. TP-A0598 and its closely related type strains was 25%–46%. Differences in phenotypic characteristics between Streptomyces sp. TP-A0598 and its phylogenetically closest relative, S. angustmyceticus NBRC 3934T, suggested strain TP-A0598 to be a novel species. Streptomyces sp. TP-A0598 and S. angustmyceticus NBRC 3934T harboured nine and 13 biosynthetic gene clusters for polyketides and nonribosomal peptides, respectively, among which only five clusters were shared between them, whereas the others are specific for each strain; and (4) Conclusions: For strain TP-A0598, the name Streptomyces lydicamycinicus sp. nov. is proposed; the type strain is TP-A0598T (=NBRC 110027T). View Full-Text
Keywords: biosynthetic gene cluster; lydicamycin; polyketide; nonribosomal peptide; Streptomyces biosynthetic gene cluster; lydicamycin; polyketide; nonribosomal peptide; Streptomyces
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Komaki, H.; Hosoyama, A.; Igarashi, Y.; Tamura, T. Streptomyces lydicamycinicus sp. nov. and Its Secondary Metabolite Biosynthetic Gene Clusters for Polyketide and Nonribosomal Peptide Compounds. Microorganisms 2020, 8, 370.

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