Comparative Genome Analyses of Serratia marcescens FS14 Reveals Its High Antagonistic Potential

Li, Pengpeng; Kwok, Amy Ho Yan; Jiang, Jingwei; Ran, Tingting; Xu, Dongqing; Wang, Weiwu; Leung, Frederick Chi-Ching

doi:10.1371/journal.pone.0123061

Cited by 51 publications

(36 citation statements)

References 73 publications

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“…25 In agreement with the chemical structure, multilocus sequence analysis (MLSA) performed with the amino acid sequences of eight protein homologs encoded on undecylprodigiosin red and prodigiosin pig clusters, and involved in biosynthesis the MBC precursor (RedWIOMNYV/ PigAFGHIKM) and precursors condensation (RedH/PigC), separated gram-negative prodiginiosin producers from actinobacteria undecylprodigiosin-related prodiginine producers in two main clades. 26 Therefore, the enzymology codified on the detected contig NODE_44 is in agreement with that expected for the biosynthesis of nonylprodigiosin and derivatives.…”

Section: Genome Miningsupporting

confidence: 76%

Bioprospecting Anticancer Compounds from the Marine-Derived Actinobacteria Actinomadura sp. Collected at the Saint Peter and Saint Paul Archipelago (Brazil)

Silva¹,

Guimarães²,

Ferreira³

et al. 2016

J. Braz. Chem. Soc.

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The actinomycete strain BRA 177 was recovered from sediment samples collected at the St. Peter and St. Paul Archipelago, Brazil. This work accessed the ability of this strain, identified as Actinomadura sp., to produce bioactive metabolites by exploring the genome and characterizing chemistry and cytotoxicity of isolated compounds. From the crude ethyl acetate extract, the pigments nonylprodigiosin, cyclononylprodigiosin and methylcyclooctilprodigiosin were isolated and displayed cytotoxicity against human tumor and non-tumor cell lines. Sequencing, assembling and prospection of BRA 177 draft genome led to identification of two contigs encoding enzymes with high homology to those from prodiginine biosynthetic gene clusters (BGC) in actinomycetes. Further, Actinomadura sp. BGC presented unique putatives RedJ thioesterase and RedL-like type I PKS, involved on selection of prodiginine biosynthetic fatty acyl precursor, and RedG-like Rieske oxygenase, key for cyclization of the prodiginines, suggesting that cyclononilprodigiosin and methylcyclooctylprodigiosin could actually be considered chemical signatures of Actinomadura spp.Keywords: cytotoxicity, genome mining, marine microorganisms, marine natural products, prodiginine derivatives IntroductionThe St. Peter and St. Paul Archipelago (SPSPA) is a remote group of islets located off the Brazilian coast. It is a rare case of geological formation, as this is the single portion of the Atlantic Ocean where the mantle has surfaced, permeating an area just about 17,000 m 2 above sea level.1 Peripheral habitats such as SPSPA and surroundings are a potential source of marine biodiversity with high degree of endemism. [1][2][3][4] Microbial diversity studies, however, are still very scarce, 5 while the biotechnological potential of microorganisms has only recently been described by our group in a preliminary assessment of the chemical diversity and prospection of anticancer compounds in extracts derived from culturable actinobacteria recovered from sediments collected therein. 6 Essentially, this work showed a high incidence of bioactive extracts among those obtained from the 268 isolates, and dereplication studies demonstrated the Bioprospecting Anticancer Compounds from the Marine-Derived Actinobacteria Actinomadura sp.J. Braz. Chem. Soc. 466 presence of notorious bioactive compounds, such as, but not restricted to, staurosporines, piericidins, saliniketals and rifamycins. Such preliminary results merely hinted on the biological and metabolic diversity that is predicted for the SPSPA. In this scenario, the strain, thereby coded as BRA 177, showed remarkable cytotoxicity against a human tumor cell line, 6 and was, thus, bidden for broader investigations. In fact, traditional bioprospective efforts have long merged chemical studies and biological assays in search for functional natural products. While these well-used equipment and methodologies have been ever evolving into more sensitive and high-throughput analytical tools, for the past decade or so, another perspectiv...

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Section: Genome Miningsupporting

confidence: 76%

Bioprospecting Anticancer Compounds from the Marine-Derived Actinobacteria Actinomadura sp. Collected at the Saint Peter and Saint Paul Archipelago (Brazil)

Silva¹,

Guimarães²,

Ferreira³

et al. 2016

J. Braz. Chem. Soc.

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“…Micrococcus luteus and Ralstonia solanacearum were used as the indicator microorganisms to investigate the antagonistic activities of YD25 T against bacterial pathogens. The biofilm and planktonic culture were used to assay antibacterial competition as described previously [48]. Samples containing only YD25 T or bacterial pathogens were set up as controls.…”

Section: Methodsmentioning

confidence: 99%

Analysis of the genomic sequences and metabolites of Serratia surfactantfaciens sp. nov. YD25T that simultaneously produces prodigiosin and serrawettin W2

Xiang

Liu

et al. 2016

BMC Genomics

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BackgroundGram-negative bacteria of the genus Serratia are potential producers of many useful secondary metabolites, such as prodigiosin and serrawettins, which have potential applications in environmental bioremediation or in the pharmaceutical industry. Several Serratia strains produce prodigiosin and serrawettin W1 as the main bioactive compounds, and the biosynthetic pathways are co-regulated by quorum sensing (QS). In contrast, the Serratia strain, which can simultaneously produce prodigiosin and serrawettin W2, has not been reported. This study focused on analyzing the genomic sequence of Serratia sp. strain YD25T isolated from rhizosphere soil under continuously planted burley tobacco collected from Yongding, Fujian province, China, which is unique in producing both prodigiosin and serrawettin W2.ResultsA hybrid polyketide synthases (PKS)-non-ribosomal peptide synthetases (NRPS) gene cluster putatively involved in biosynthesis of antimicrobial serrawettin W2 was identified in the genome of YD25T, and its biosynthesis pathway was proposed. We found potent antimicrobial activity of serrawettin W2 purified from YD25T against various pathogenic bacteria and fungi as well as antitumor activity against Hela cells. Subsequently, comparative genomic analyses were performed among a total of 133 Serratia species. The prodigiosin biosynthesis gene cluster in YD25T belongs to the type I pig cluster, which is the main form of pig-encoding genes existing in most of the pigmented Serratia species. In addition, a complete autoinducer-2 (AI-2) system (including luxS, lsrBACDEF, lsrGK, and lsrR) as a conserved bacterial operator is found in the genome of Serratia sp. strain YD25T. Phylogenetic analysis based on concatenated Lsr and LuxS proteins revealed that YD25T formed an independent branch and was clearly distant from the strains that solely produce either prodigiosin or serrawettin W2. The Fe (III) ion reduction assay confirmed that strain YD25T could produce an AI-2 signal molecule. Phylogenetic analysis using the genomic sequence of YD25T combined with phylogenetic and phenotypic analyses support this strain as a member of a novel and previously uncharacterized Serratia species.ConclusionGenomic sequence and metabolite analysis of Serratia surfactantfaciens YD25T indicate that this strain can be further explored for the production of useful metabolites. Unveiling the genomic sequence of S. surfactantfaciens YD25T benefits the usage of this unique strain as a model system for studying the biosynthesis regulation of both prodigiosin and serrawettin W2 by the QS system.Electronic supplementary materialThe online version of this article (doi:10.1186/s12864-016-3171-7) contains supplementary material, which is available to authorized users.

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“…We have studied the involvement of other secretion machineries in the fungal invasion by S. marcescens D1. Comparative genome analysis of Serratia marcescens revealed that the type VI secretion system is abundant among various strains [32], which is used to target other bacterial competitors [33]. The T6SS effectors to antagonize fungal pathogens has also been reported in S. marcescens [51].…”

Section: Discussionmentioning

confidence: 99%

Mechanism of interaction of an endofungal bacterium Serratia marcescens D1 with its host and non-host fungi

Hazarika

Gautom

Parveen

et al. 2019

Preprint

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AbstractAssociation of bacteria with fungi is a major area of research in infection biology, however, very few strains of bacteria have been reported that can invade and reside within fungal hyphae. Here, we report the characterization of an endofungal bacterium Serratia marcescens D1 from Mucor irregularis SS7 hyphae. Upon re-inoculation, colonization of the endobacterium S. marcescens D1 in the hyphae of Mucor irregularis SS7 was demonstrated using stereo microscopy. However, S. marcescens D1 failed to invade into the hyphae of the tested Ascomycetes (except Fusarium oxysporum) and Basidiomycetes. Remarkably, Serratia marcescens D1 could invade and spread over the culture of F. oxysporum that resulted in mycelial death. Prodigiosin, the red pigment produced by the Serratia marcescens D1, helps the bacterium to invade fungal hyphae as revealed by the increasing permeability in fungal cell membrane. On the other hand, genes encoding the type VI secretion system (T6SS) assembly protein TssJ and an outer membrane associated murein lipoprotein also showed significant up-regulation during the interaction process, suggesting the involvement of T6SS in the invasion process.

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Comparative Genome Analyses of Serratia marcescens FS14 Reveals Its High Antagonistic Potential

Cited by 51 publications

References 73 publications

Bioprospecting Anticancer Compounds from the Marine-Derived Actinobacteria Actinomadura sp. Collected at the Saint Peter and Saint Paul Archipelago (Brazil)

Bioprospecting Anticancer Compounds from the Marine-Derived Actinobacteria Actinomadura sp. Collected at the Saint Peter and Saint Paul Archipelago (Brazil)

Analysis of the genomic sequences and metabolites of Serratia surfactantfaciens sp. nov. YD25T that simultaneously produces prodigiosin and serrawettin W2

Mechanism of interaction of an endofungal bacterium Serratia marcescens D1 with its host and non-host fungi

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