Discovery and biosynthetic assessment of 'Streptomyces ortus' sp. nov. isolated from a deep-sea sponge

Sam E. Williams; Catherine R. Back; Eleanor Best; Judith Mantell; James E. M. Stach; Tom A. Williams; Paul R. Race; Paul Curnow

doi:10.1099/mgen.0.000996

Discovery and biosynthetic assessment of 'Streptomyces ortus' sp. nov. isolated from a deep-sea sponge

Sam E. Williams
, Catherine R. Back
, Eleanor Best
, Judith Mantell
, James E. M. Stach
, Tom A. Williams
, Paul R. Race
, Paul Curnow

Department of Life Sciences

University of Bristol
University of Bristol
Newcastle University

Research output: Contribution to journal › Article › peer-review

8 Citations (SciVal)

Abstract

The deep sea is known to host novel bacteria with the potential to produce a diverse array of undiscovered natural products. Thus, understanding these bacteria is of broad interest in ecology and could also underpin applied drug discovery, specifically in the area of antimicrobials. Here, we isolate a new strain of Streptomyces from the tissue of the deep-sea sponge Polymastia corticata collected at a depth of 1869 m from the Gramberg Seamount in the Atlantic Ocean. This strain, which was given the initial designation A15ISP2-DRY2T, has a genome size of 9.29 Mb with a G+C content of 70.83 mol%. Phylogenomics determined that A15ISP2-DRY2T represents a novel species within the genus Streptomyces as part of the Streptomyces aurantiacus clade. The biosynthetic potential of A15ISP2-DRY2T was assessed relative to other members of the S . aurantiacus clade via comparative gene cluster family (GCF) analysis. This revealed a clear congruent relationship between phylogeny and GCF content. A15ISP2-DRY2T contains six unique GCFs absent elsewhere in the clade. Culture-based assays were used to demonstrate the antibacterial activity of A15ISP2-DRY2T against two drug-resistant human pathogens. Thus, we determine A15ISP2-DRY2T to be a novel bacterial species with considerable biosynthetic potential and propose the systematic name 'Streptomyces ortus' sp. nov.

Original language	English
Article number	000996
Journal	Microbial Genomics
Volume	9
Issue number	5
Early online date	11 May 2023
DOIs	https://doi.org/10.1099/mgen.0.000996
Publication status	Published - 31 Dec 2023

Data Availability Statement

All supporting data, code and protocols have been provided within the article or through supplementary data files. Three supplementary figures and eight supplementary tables are available with the online version of this article. 000996 © 2023 The Authors

Acknowledgements

The authors gratefully acknowledge the Material and Chemical Characterisation Facility (MC²) at the University of Bath ( doi. org/ 10. 15125/ mx6j- 3r54) for technical support and assistance in obtaining cryo- SEM images for the paper. The authors also thank Laura Robinson and Kate Hendry for sample collection during expedition JC094.

Funding

S.E.W. is supported by the Bristol Centre for Engineering Biology (BrisEngBio) under UKRI Biotechnology and Biological Sciences (BBSRC) award BB/W013959/1. Further grants that have supported this work include BBSRC grants BB/T001968/1 and BB/M025624/1, and the Medical Research Foundation grant MRF- 131- 0005- RG- RACE- C0853. E.B. was supported by the Wellcome Trust ISSF and Elizabeth Blackwell Institute clinical primer scheme. The TROPICS research cruise (expedition JC094) was funded by the European Research Council (ERC) via the ERC Consolidator Grant agreement number 278705. T.A.W. is supported by a Royal Society University Research Fellowship (URF\R\201024).

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Cite this

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title = "Discovery and biosynthetic assessment of 'Streptomyces ortus' sp. nov. isolated from a deep-sea sponge",

abstract = "The deep sea is known to host novel bacteria with the potential to produce a diverse array of undiscovered natural products. Thus, understanding these bacteria is of broad interest in ecology and could also underpin applied drug discovery, specifically in the area of antimicrobials. Here, we isolate a new strain of Streptomyces from the tissue of the deep-sea sponge Polymastia corticata collected at a depth of 1869 m from the Gramberg Seamount in the Atlantic Ocean. This strain, which was given the initial designation A15ISP2-DRY2T, has a genome size of 9.29 Mb with a G+C content of 70.83 mol\%. Phylogenomics determined that A15ISP2-DRY2T represents a novel species within the genus Streptomyces as part of the Streptomyces aurantiacus clade. The biosynthetic potential of A15ISP2-DRY2T was assessed relative to other members of the S . aurantiacus clade via comparative gene cluster family (GCF) analysis. This revealed a clear congruent relationship between phylogeny and GCF content. A15ISP2-DRY2T contains six unique GCFs absent elsewhere in the clade. Culture-based assays were used to demonstrate the antibacterial activity of A15ISP2-DRY2T against two drug-resistant human pathogens. Thus, we determine A15ISP2-DRY2T to be a novel bacterial species with considerable biosynthetic potential and propose the systematic name 'Streptomyces ortus' sp. nov.",

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Discovery and biosynthetic assessment of 'Streptomyces ortus' sp. nov. isolated from a deep-sea sponge

Abstract

Data Availability Statement

Acknowledgements

Funding

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