Preprint Article Version 1 Preserved in Portico This version is not peer-reviewed

Isolation, Genomic and Metabolomic Characterization of Streptomyces tendae VITAKN with Quorum Sensing Inhibitory Activity from Southern India

Nabila Imthiyaz
,
Ilia Burgsdorf
,
Jessie James Limlingan Malit
ORCID logo ,
Subhasish Saha
ORCID logo ,
Roberta Teta
,
Daniela Ewe
,
Krishnan Kannabiran
ORCID logo ,
Pavel Hrouzek
,
Laura Steindler
,
Valeria Costantino
ORCID logo ,
Kumar Saurav
* ORCID logo
Version 1 : Received: 30 December 2019 / Approved: 31 December 2019 / Online: 31 December 2019 (02:59:59 CET)

A peer-reviewed article of this Preprint also exists.

Ishaque, N.M.; Burgsdorf, I.; Limlingan Malit, J.J.; Saha, S.; Teta, R.; Ewe, D.; Kannabiran, K.; Hrouzek, P.; Steindler, L.; Costantino, V.; Saurav, K. Isolation, Genomic and Metabolomic Characterization of Streptomyces tendae VITAKN with Quorum Sensing Inhibitory Activity from Southern India. Microorganisms 2020, 8, 121. Ishaque, N.M.; Burgsdorf, I.; Limlingan Malit, J.J.; Saha, S.; Teta, R.; Ewe, D.; Kannabiran, K.; Hrouzek, P.; Steindler, L.; Costantino, V.; Saurav, K. Isolation, Genomic and Metabolomic Characterization of Streptomyces tendae VITAKN with Quorum Sensing Inhibitory Activity from Southern India. Microorganisms 2020, 8, 121.

Abstract

Streptomyces, being one of the most promising genera due to its ability to synthesize a variety of bioactive secondary metabolites of pharmaceutical interest, here studied in relation to its genomic and metabolomic potential. Coinciding with the increase in sequenced data, mining of bacterial genomes for biosynthetic gene clusters (BGCs) has become a routine component of natural product discovery. Herein, we describe the isolation and characterization of a Streptomyces tendae VITAKN with quorum sensing inhibitory activity (QSI) that was isolated from southern coastal parts of India. The nearly complete genome consists of 8,621,231bp with a GC content of 72.2%. Utilizing the BiG-SCAPE-CORASON platform, a sequence similarity network predicted from this strain was evaluated through sequence similarity analysis with the MIBiG database and existing 3,365 BGCs predicted by antiSMASH analysis of publicly available complete Streptomyces genomes. Crude extract analyzed on LC-HRMS/MS and Global Natural Product Social Molecular Networking (GNPS) online workflow using dereplication resulted in the identification of cyclic dipeptides (2,5-diketopiperazines, DKPs) in the extract, which are known to possess QSI activity. Our results highlight the potential use of genomic mining coupled with LC-HRMS/MS and bionformatic tools (GNPS) as a potent approach for metabolome studies in discovering novel QSI lead compounds. This study also provides the biosynthetic diversity of these BGCs and an assessment of the predicted chemical space yet to be discovered.

Keywords

natural product; actinobacteria; quorum sensing inhibition (QSI); biosynthetic gene clusters (BGCs); global natural product social networking (GNPS); cyclic dipeptides (2,5-diketopiperazines, DKPs); LC-HRMS

Subject

Biology and Life Sciences, Immunology and Microbiology

Copyright: This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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