Comparative genomics of marine sponge-derived Streptomyces spp. isolates SM17 and SM18 with their closest terrestrial relatives provides novel insights into environmental niche adaptations and secondary metabolite biosynthesis potential

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dc.contributor.authorAlmeida, Eduardo L.
dc.contributor.authorRincón, Andrés Felipe Carrillo
dc.contributor.authorJackson, Stephen A.
dc.contributor.authorDobson, Alan D. W.
dc.contributor.funderConselho Nacional de Desenvolvimento Científico e Tecnológicoen
dc.contributor.funderMarine Instituteen
dc.contributor.funderScience Foundation Irelanden
dc.contributor.funderEuropean Commissionen
dc.date.accessioned2019-09-09T10:41:13Z
dc.date.available2019-09-09T10:41:13Z
dc.date.issued2019-07-26
dc.description.abstractThe emergence of antibiotic resistant microorganisms has led to an increased need for the discovery and development of novel antimicrobial compounds. Frequent rediscovery of the same natural products (NPs) continues to decrease the likelihood of the discovery of new compounds from soil bacteria. Thus, efforts have shifted toward investigating microorganisms and their secondary metabolite biosynthesis potential, from diverse niche environments, such as those isolated from marine sponges. Here we investigated at the genomic level two Streptomyces spp. strains, namely SM17 and SM18, isolated from the marine sponge Haliclona simulans, with previously reported antimicrobial activity against clinically relevant pathogens; using single molecule real-time (SMRT) sequencing. We performed a series of comparative genomic analyses on SM17 and SM18 with their closest terrestrial relatives, namely S. albus J1074 and S. pratensis ATCC 33331 respectively; in an effort to provide further insights into potential environmental niche adaptations (ENAs) of marine sponge-associated Streptomyces, and on how these adaptations might be linked to their secondary metabolite biosynthesis potential. Prediction of secondary metabolite biosynthetic gene clusters (smBGCs) indicated that, even though the marine isolates are closely related to their terrestrial counterparts at a genomic level; they potentially produce different compounds. SM17 and SM18 displayed a better ability to grow in high salinity medium when compared to their terrestrial counterparts, and further analysis of their genomes indicated that they possess a pool of 29 potential ENA genes that are absent in S. albus J1074 and S. pratensis ATCC 33331. This ENA gene pool included functional categories of genes that are likely to be related to niche adaptations and which could be grouped based on potential biological functions such as osmotic stress, defense; transcriptional regulation; symbiotic interactions; antimicrobial compound production and resistance; ABC transporters; together with horizontal gene transfer and defense-related features.en
dc.description.sponsorshipMarine Institute (NMBLI project Grant-Aid Agreement PBA/MB/16/01) ; European Commission (Marine Biotechnology ERA/NET NEPTUNA project Contract No. PBA/MB/15/02); Science Foundation Ireland (SSPC-2)en
dc.description.statusPeer revieweden
dc.description.versionPublished Versionen
dc.format.mimetypeapplication/pdfen
dc.identifier.articleid1713en
dc.identifier.citationAlmeida, E. L., Rincón, A. F. C., Jackson, S. A. and Dobson, A. D. W. (2019) 'Comparative genomics of marine sponge-derived Streptomyces spp. isolates SM17 and SM18 with their closest terrestrial relatives provides novel insights into environmental niche adaptations and secondary metabolite biosynthesis potential', 10, 1713 (22p.). DOI: 10.3389/fmicb.2019.01713en
dc.identifier.doi10.3389/fmicb.2019.01713en
dc.identifier.eissn1664-302X
dc.identifier.endpage22en
dc.identifier.journaltitleFrontiers in Microbiologyen
dc.identifier.startpage1en
dc.identifier.urihttps://hdl.handle.net/10468/8470
dc.identifier.volume10en
dc.language.isoenen
dc.publisherFrontiers Mediaen
dc.relation.projectinfo:eu-repo/grantAgreement/SFI/SFI Research Centres/12/RC/2275/IE/Synthesis and Solid State Pharmaceutical Centre (SSPC)/en
dc.relation.projectinfo:eu-repo/grantAgreement/EC/FP7::SP1::KBBE/604814/EU/Marine Biotechnology ERA-NET/ERA-MBTen
dc.relation.urihttps://www.frontiersin.org/articles/10.3389/fmicb.2019.01713/full
dc.rightsCopyright © 2019 Almeida, Rincón, Jackson and Dobson. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.en
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/en
dc.subjectComparative genomicsen
dc.subjectStreptomycesen
dc.subjectEnvironmental adaptationen
dc.subjectMarine sponge associated bacteriaen
dc.subjectSecondary metabolite biosynthesisen
dc.subjectSingle-molecule real-time (SMRT) sequencingen
dc.titleComparative genomics of marine sponge-derived Streptomyces spp. isolates SM17 and SM18 with their closest terrestrial relatives provides novel insights into environmental niche adaptations and secondary metabolite biosynthesis potentialen
dc.typeArticle (peer-reviewed)en
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