Genomic characterization of a new endophytic<i>Streptomyces kebangsaanensis</i>identifies biosynthetic pathway gene clusters for novel phenazine antibiotic production

Remali, Juwairiah; Sarmin, Nurul ‘Izzah Mohd; Ng, Chyan Leong; Tiong, John Jeh Lung; Aizat, Wan Mohd; Keong, Loke Kok; Zin, Noraziah Mohamad

doi:10.7717/peerj.3738

Cited by 27 publications

(24 citation statements)

References 68 publications

(76 reference statements)

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“…At the same time, the genome mining of S-2 revealed 55 BGCs. A higher-than-average number of BGCs (20-30) that has been reported for mesophilic Streptomyces [13,63]. It is also more BGCs than identified in Streptomyces isolated from extreme environments, like Artic soil, caves or coal mine soil [1,13,24].…”

Section: Discussionmentioning

confidence: 87%

Genome Mining Revealed a High Biosynthetic Potential for Antifungal Streptomyces sp. S-2 Isolated from Black Soot

Siupka

Piński

Babicka

et al. 2020

IJMS

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The increasing resistance of fungal pathogens has heightened the necessity of searching for new organisms and compounds to combat their spread. Streptomyces are bacteria that are well-known for the production of many antibiotics. To find novel antibiotic agents, researchers have turned to previously neglected and extreme environments. Here, we isolated a new strain, Streptomyces sp. S-2, for the first time, from black soot after hard coal combustion (collected from an in-use household chimney). We examined its antifungal properties against plant pathogens and against fungi that potentially pose threat to human health (Fusarium avenaceum, Aspergillus niger and the environmental isolates Trichoderma citrinoviridae Cin-9, Nigrospora oryzae sp. roseF7, and Curvularia coatesieae sp. junF9). Furthermore, we obtained the genome sequence of S-2 and examined its potential for secondary metabolites production using anti-SMASH software. The S-2 strain shows activity against all of the tested fungi. Genome mining elucidated a vast number of biosynthetic gene clusters (55), which distinguish this strain from closely related strains. The majority of the predicted clusters were assigned to non-ribosomal peptide synthetases or type 1 polyketide synthetases, groups known to produce compounds with antimicrobial activity. A high number of the gene clusters showed no, or low similarity to those in the database, raising the possibility that S-2 could be a producer of novel antibiotics. Future studies on Streptomyces sp. S-2 will elucidate its full biotechnological potential.

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Section: Discussionmentioning

confidence: 87%

Genome Mining Revealed a High Biosynthetic Potential for Antifungal Streptomyces sp. S-2 Isolated from Black Soot

Siupka

Piński

Babicka

et al. 2020

IJMS

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“…strain UICC B-92 growth phase. Most of the low molecular weight secondary metabolites produced by microorganisms generally occurs at the late growth phase (13), whereas phenazine production in liquid batch cultures typically occurs after the period of exponential phase (rapid growth), and phenazines are accumulated in the culture at the stationary phase.…”

Section: Discussionmentioning

confidence: 99%

“…In addition, the differences between the gene clusters responsible for the phenazines biosynthesis among different Streptomyces species (13) that may lead to the diverse phenazine structural derivatives produced by the bacteria at different levels (39). Although phenazines are generally isolated from Pseudomonas, Streptomyces and several other microbial genera from soil and marine habitats, however, many endophytic Streptomyces species associated with various plants are also capable in producing this secondary metabolite compounds (12,13). This suggests that the endophytic microbial group is one source of potential natural sources in the discovery of new antimicrobial compounds.…”

Section: Discussionmentioning

confidence: 99%

“…The naturally occurring phenazines and many of its derivatives are found in nature produced by Gram-positive bacteria, particularly members of Streptomyces spp. (13). These include S. griseoluteus (14), S. kebangsaanensis (13), S. lomondensis (15), S. anulatus (16), S. niveus (17) and several other species (14,18,19).…”

Section: Introductionmentioning

confidence: 99%

“…(13). These include S. griseoluteus (14), S. kebangsaanensis (13), S. lomondensis (15), S. anulatus (16), S. niveus (17) and several other species (14,18,19). Luo et al (14) also noted that members of Streptomyces have commonly been used as a source of various phenazines complex such as griseolutein, phenacetin, lomofungin, and 5,10-dihydrophenazine.…”

Section: Introductionmentioning

confidence: 99%

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Isolation and structure elucidation of phenazine derivative from Streptomyces sp. strain UICC B-92 isolated from Neesia altissima (Malvaceae)

Pratiwi¹,

Hidayat²,

Hanafi³

et al. 2020

IJM

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Background and Objectives: Endophytic actinomycetes have been known as a promising source for new antibiotics discov- ery against susceptible and resistant forms of pathogenic microorganisms. This study was aimed at determining antibacterial compound from Streptomyces sp. strain B-92 isolated from a medicinal plant Neesia altissima. Materials and Methods: Streptomyces sp. strain UICC B-92 was endophytic actinomycetes of N. altissima that obtained from Universitas Indonesia Culture Collection (UICC). Isolation and determination of bioactive compound were carried out using thin layer chromatography (TLC), nuclear magnetic resonance spectroscopy (NMR), and liquid chromatography mass spectrometry (LC-MS) analyses. An in vitro antibacterial assay of pure bioactive compound from the endophytic actinomycetes strain was performed against Bacillus cereus strain ATCC 10876, Escherichia coli strain ATCC 25922, Salmonella typhimurium strain ATCC 25241, Shigella flexneri strain ATCC 12022 and Staphylococcus aureus strain ATCC 25923. Results: The bioactive compound was identified as 4-((3S,4R,5S)-3,4,5-trihydroxy-6-(hydroxymethyl) tetrahydro-2H- pyran-2-yloxy) phenazine-1-carboxylic acid. In vitro antimicrobial assay showed that bioactive compound of Streptomyces sp. strain UICC B-92 exhibited antagonistic activities against two Gram-positive bacteria, viz, B. cereus strain ATCC 10876 and S. aureus strain ATCC 25923. Conclusion: The findings of this research showed that, bioactive compound of Streptomyces sp. strain UICC B-92 is sug- gested a new compound based on glycoside structure and its position.

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Actinobacteria and Their Role as Plant Probiotics

Menéndez

Carro

2019

Soil Biology

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Actinobacteria is one of the largest phyla within the domain Bacteria. This phylum comprises more than 400 genera heterogeneously distributed in up to 50 families, 20 orders and 6 classes, being composed with very diverse groups of microorganisms. Members included within this phylum were recovered from a wide range of aquatic and terrestrial environments and also from a huge number of higher organisms, including plants. Actinobacteria inhabiting soils and plants are well known as producers of bioactive molecules and as biocontrol agents, possessing antimicrobial activities mostly against pathogenic fungi and/or bacteria. Moreover, some of them have the capacity to exert beneficial effects on plant growth and development via different plant growth-promoting mechanisms, i.e., phytohormones biosynthesis, siderophore production, and phosphate solubilization, among others. The available genomic data revealed that members belonging to this phylum have a huge potential as Plant Probiotic Actinobacteria. A plethora of studies reported the isolation and identification of plant endophytic actinobacteria possessing those features and also their performance under controlled conditions. However, few studies show the effects of the inoculation of these actinobacteria on real field conditions. In this chapter, we will provide an overview of the available data on the Actinobacteria displaying plant growth-promoting features, particularly in the ones that already had applications in agriculture. Together with a correct taxonomic classification, we will present evidence that the Plant Probiotic Actinobacteria should be considered as a source of bacterial candidates that will be important for a future sustainable agriculture.

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Genomic characterization of a new endophyticStreptomyces kebangsaanensisidentifies biosynthetic pathway gene clusters for novel phenazine antibiotic production

Cited by 27 publications

References 68 publications

Genome Mining Revealed a High Biosynthetic Potential for Antifungal Streptomyces sp. S-2 Isolated from Black Soot

Genome Mining Revealed a High Biosynthetic Potential for Antifungal Streptomyces sp. S-2 Isolated from Black Soot

Isolation and structure elucidation of phenazine derivative from Streptomyces sp. strain UICC B-92 isolated from Neesia altissima (Malvaceae)

Actinobacteria and Their Role as Plant Probiotics

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