Complete genome sequence of two deep-sea streptomyces isolates from madeira archipelago and evaluation of their biosynthetic potential

The deep-sea constitutes a true unexplored frontier and a potential source of innovative drug scaffolds. Here, we present the genome sequence of two novel marine actinobacterial strains, MA3_2.13 and S07_1.15, isolated from deep-sea samples (sediments and sponge) and collected at Madeira archipelago (NE Atlantic Ocean; Portugal). The de novo assembly of both genomes was achieved using a hybrid strategy that combines short-reads (Illumina) and long-reads (PacBio) sequencing data. Phylogenetic analyses showed that strain MA3_2.13 is a new species of the Streptomyces genus, whereas strain S07_1.15 is closely related to the type strain of Streptomyces xinghaiensis. In silico analysis revealed that the total length of predicted biosynthetic gene clusters (BGCs) accounted for a high percentage of the MA3_2.13 genome, with several potential new metabolites identified. Strain S07_1.15 had, with a few exceptions, a predicted metabolic profile similar to S. xinghaiensis. In this work, we implemented a straightforward approach for generating high-quality genomes of new bacterial isolates and analyse in silico their potential to produce novel NPs. The inclusion of these in silico dereplication steps allows to minimize the rediscovery rates of traditional natural products screening methodologies and expedite the drug discovery process.This work was funded by FEDER—Fundo Europeu de Desenvolvimento Regional funds through the COMPETE 2020—Operacional Programme for Competitiveness and Internationalisation (POCI), Portugal 2020, and by Portuguese funds through FCT—Fundação para a Ciência e a Tecnologia/Ministério da Ciência, Tecnologia e Ensino Superior in the framework of the ACTIN-ODEEPSEA project POCI-01-0145-FEDER-031045 (PTDC/BIA-MIC/31045/2017). It was also partially funded by National Funds through FCT—Fundação para a Ciência e a Tecnologia, I.P., under the projects UIDB/04293/2020, UIDB/04423/2020 and UIDP/04423/2020. IR was supported by the FCT PhD grant SFRH/BD/136357/2018; AB-H was supported by the Oceanic Observatory of Madeira project (M1420-01-0145-FEDER-000001-Observatório Oceânico da Madeira-OOM) co-financed by the Madeira Regional Operational Programme (Madeira 14-20) under the Portugal 2020 strategy through the European Regional Development Fund; MFC was supported by the FCT CEEC program CEECIND/02968/2017; MVM was supported by the FCT contract DL57/2016/CP1355/CT0023