scholarly journals Streptomyces sp. Strain MUSC 125 from Mangrove Soil in Malaysia with Anti-MRSA, Anti-Biofilm and Antioxidant Activities

Molecules ◽  
2020 ◽  
Vol 25 (15) ◽  
pp. 3545
Author(s):  
Hefa Mangzira Kemung ◽  
Loh Teng-Hern Tan ◽  
Kok-Gan Chan ◽  
Hooi-Leng Ser ◽  
Jodi Woan-Fei Law ◽  
...  
Keyword(s):  
Polyketide Synthase ◽  
Methanolic Extract ◽  
Antioxidant Activities ◽  
Pcr Amplification ◽  
Gene Clusters ◽  
Bacterial Strains ◽  
Phenotypic Analysis ◽  
Streptomyces Sp ◽  
Mangrove Soil ◽  
Promising Source

There is an urgent need to search for new antibiotics to counter the growing number of antibiotic-resistant bacterial strains, one of which is methicillin-resistant Staphylococcus aureus (MRSA). Herein, we report a Streptomyces sp. strain MUSC 125 from mangrove soil in Malaysia which was identified using 16S rRNA phylogenetic and phenotypic analysis. The methanolic extract of strain MUSC 125 showed anti-MRSA, anti-biofilm and antioxidant activities. Strain MUSC 125 was further screened for the presence of secondary metabolite biosynthetic genes. Our results indicated that both polyketide synthase (pks) gene clusters, pksI and pksII, were detected in strain MUSC 125 by PCR amplification. In addition, gas chromatography-mass spectroscopy (GC-MS) detected the presence of different chemicals in the methanolic extract. Based on the GC-MS analysis, eight known compounds were detected suggesting their contribution towards the anti-MRSA and anti-biofilm activities observed. Overall, the study bolsters the potential of strain MUSC 125 as a promising source of anti-MRSA and antibiofilm compounds and warrants further investigation.

scholarly journals Identification of polyketide synthase gene clusters in a phage P1-derived artificial chromosome library of a Philippine strain of Streptomyces sp. PCS3-D2

2019 ◽  
pp. 56-63
Author(s):  
Aileen Bayot Custodio ◽  
Edwin Plata Alcantara
Keyword(s):  
Gene Cluster ◽  
Polyketide Synthase ◽  
Genetic Manipulation ◽  
Gene Clusters ◽  
Artificial Chromosome ◽  
Restriction Enzyme Digestion ◽  
Type I ◽  
Putative Gene ◽  
Streptomyces Sp ◽  
Type Iii

A phage P1-derived artificial chromosome (PAC) library was constructed from genomic DNA of Streptomyces sp. PCS3-D2. Polymerase chain reaction (PCR) screening of the PAC library revealed two clones, PAC16D and P222O, which were positively identified to harbor polyketide synthase (PKS) Type I and PKS Type III gene clusters, respectively. Restriction enzyme digestion showed that PAC16D and PAC222O contained a 130 kb and a 140 kb insert, respectively. Results of sequencing and bioinformatics analyses revealed that PAC16D comprised of a full-length PKS type I bafilomycin gene cluster while PAC222O harbored truncated siderophore and putative gene clusters as well as a complete PKS III biosynthetic gene cluster. The PKS III gene cluster had three genes similar to alkyl resorcinol biosynthetic genes, however majority of the novel gene cluster had little similarity to known PKS Type III gene clusters. The successful cloning and identification of these gene clusters from Streptomyces sp. PCS3-D2 serve as the jump off point to further genetic manipulation in order to produce the insecticidal natural product in a heterologous host.

scholarly journals Potential secondary metabolite biosynthetic gene clusters and antibacterial activity of novel taxa Gandjariella

2020 ◽  
Vol 21 (12) ◽  
Author(s):  
Fitria Ningsih ◽  
Dhian Chitra Ayu Fitria Sari ◽  
Shuhei Yabe ◽  
Akira Yokota ◽  
Wellyzar Sjamsuridzal
Keyword(s):  
Antibacterial Activity ◽  
Secondary Metabolites ◽  
Secondary Metabolite ◽  
Polyketide Synthase ◽  
Gene Clusters ◽  
Gellan Gum ◽  
Biosynthetic Gene ◽  
Bacterial Strains ◽  
Biosynthetic Gene Clusters ◽  
Novel Taxa

Abstract. Ningsih F, Sari DCAF, Yabe S, Yokota A, Sjamsuridzal W. 2020. Potential secondary metabolite biosynthetic gene clusters and antibacterial activity of novel taxa Gandjariella. Biodiversitas 21: 5674-5684. Microbial resistance to available antibiotics has gained increasing attention in recent years and led to the urgent search for active secondary metabolites from novel microbial taxa. This study aimed to assess putative secondary metabolite biosynthetic gene clusters (BGCs) in the genome of a novel thermophilic Actinobacteria type strain Gandjariella thermophila SL3-2-4T and screen for its antibacterial activity. Four other related novel candidate Actinobacteria strains, isolated from forest soil in the Cisolok geothermal area (West Java, Indonesia), were also screened for antibacterial activity in various media solidified with gellan gum. The genome of the SL3-2-4T strain contained 21 antiSMASH-identified secondary metabolite regions harboring BGCs. These BGCs were for polyketide synthase, non-ribosomal peptide synthase, and ribosomally synthesized and post-translationally modified peptide family clusters. Three BGC regions displayed 50-100% similarity with known secondary metabolites. Thirteen and five regions displayed low (4-35%) and no similarity with known BGCs for secondary metabolites, respectively. Strains SL3-2-4T and SL3-2-7 on MM 2 medium solidified with gellan gum at 45 °C for 14 days demonstrated inhibitory activity against all Gram-positive, but not Gram-negative bacteria. Strain SL3-2-10 on ISP 3 gellan gum medium incubated for seven days only active against K. rhizophila NBRC 12078. Strains SL3-2-6 and SL3-2-9 did not exhibit any antibacterial activity against the tested bacterial strains on the three tested media. The results indicated that novel taxa have the potential for the discovery of active secondary metabolites.

scholarly journals Cloning of Separate Meilingmycin Biosynthesis Gene Clusters by Use of Acyltransferase-Ketoreductase Didomain PCR Amplification

2010 ◽  
Vol 76 (10) ◽  
pp. 3283-3292 ◽  
Author(s):  
Yunlong He ◽  
Yuhui Sun ◽  
Tiangang Liu ◽  
Xiufen Zhou ◽  
Linquan Bai ◽  
...  
Keyword(s):  
Polyketide Synthase ◽  
Regulatory Protein ◽  
Pcr Amplification ◽  
Gene Clusters ◽  
Pathway Engineering ◽  
Hydroxyl Group ◽  
Type I ◽  
Gene Encoding ◽  
Nmr Characterization ◽  
Methyltransferase Gene

ABSTRACT Five meilingmycins, A to E, with A as the major component, were isolated from Streptomyces nanchangensis NS3226. Through nuclear magnetic resonance (NMR) characterization, meilingmycins A to E proved to be identical to reported milbemycins α11, α13, α14, β1, and β9, respectively. Sequencing of a previously cloned 103-kb region identified three modular type I polyketide synthase genes putatively encoding the last 11 elongation steps, three modification proteins, and one transcriptional regulatory protein for meilingmycin biosynthesis. However, the expected loading module and the first two elongation modules were missing. In meilingmycin, the presence of a methyl group at C-24 and a hydroxyl group at C-25 suggests that the elongation module 1 contains a methylmalonyl-coenzyme A (CoA)-specific acyltransferase (ATp) domain and a ketoreductase (KR) domain. Based on the conserved motifs of the ATp and KR domains, a pair of primers was designed for PCR amplification, and a 1.40-kb expected fragment was amplified, whose sequence shows significant homology with the elongation module 1 of the aveA1-encoded enzyme AVES1. A polyketide synthase (PKS) gene encoding one loading and two elongation modules, with a downstream C-5-O-methyltransferase gene, meiD, was subsequently localized 55 kb apart from the previously sequenced region, and its deletion abolishes meilingmycin production. A series of deletions within the 55-kb intercluster region rules out its involvement in meilingmycin biosynthesis. Furthermore, gene deletion of meiD eliminates meilingmycins D and E, with methyls at C-5. Our work provides a more specific strategy for the cloning of modular type I PKS gene clusters. The cloning of the meilingmycin gene clusters paves the way for its pathway engineering.

Investigating the antioxidant potential of Streptomyces sp. MUSC 11 from mangrove soil in Malaysia

2019 ◽  
Vol 2 (1) ◽  
Author(s):  
Hefa Mangzira Kemung ◽  
Loh Teng-Hern Tan ◽  
Kok-Gan Chan ◽  
Hooi-Leng Ser ◽  
Jodi Woan-Fei Law ◽  
...  
Keyword(s):  
Antioxidant Activities ◽  
Biological Activities ◽  
Biologically Active ◽  
Mangrove Forests ◽  
Genus Streptomyces ◽  
Streptomyces Sp ◽  
Gram Positive Bacteria ◽  
Mangrove Soil ◽  
Life Saving ◽  
Distinguished Group

Streptomyces are a distinguished group of gram-positive bacteria mostly acknowledged for their immense contribution to life-saving drugs and lines of compounds with diverse bioactivities. To date, there remains limited studies on Streptomyces with biological activities residing in underexplored ecosystems such as the mangrove forests. For this purpose, the present work aimed at investigating the biological activity of Streptomyces sp. MUSC 11 collected from soil sample in mangrove forests, situated in the State of Pahang, Peninsular of Malaysia. The cultured strain resembled phenotypic and genotypic traits of genus Streptomyces. Investigations of the methanolic extract from Streptomyces sp. MUSC 11 revealed antioxidant activities in form of scavenging free radicals ABTS, DPPH, chelating iron and reducing ferric iron. Besides the antioxidant tests, antioxidant results corresponded well to the presence of phenolic content. In summary, Streptomyces derived from extreme and understudied ecosystem such as the mangrove forests are potential sources of biologically active and therapeutically useful compounds.

scholarly journals Biosynthesis of Akaeolide and Lorneic Acids and Annotation of Type I Polyketide Synthase Gene Clusters in the Genome of Streptomyces sp. NPS554

Marine Drugs ◽  
2015 ◽  
Vol 13 (1) ◽  
pp. 581-596 ◽  
Author(s):  
Tao Zhou ◽  
Hisayuki Komaki ◽  
Natsuko Ichikawa ◽  
Akira Hosoyama ◽  
Seizo Sato ◽  
...  
Keyword(s):  
Polyketide Synthase ◽  
Gene Clusters ◽  
Type I ◽  
Streptomyces Sp ◽  
Polyketide Synthase Gene

scholarly journals Metagenomic Analysis Reveals Diverse Polyketide Synthase Gene Clusters in Microorganisms Associated with the Marine Sponge Discodermia dissoluta

2005 ◽  
Vol 71 (8) ◽  
pp. 4840-4849 ◽  
Author(s):  
Andreas Schirmer ◽  
Rishali Gadkari ◽  
Christopher D. Reeves ◽  
Fadia Ibrahim ◽  
Edward F. DeLong ◽  
...  
Keyword(s):  
Marine Sponge ◽  
Polyketide Synthase ◽  
Pcr Amplification ◽  
Gene Clusters ◽  
Type I ◽  
Metagenomic Libraries ◽  
Dna Libraries ◽  
Peptide Synthetase ◽  
Sponge Associated Bacteria ◽  
Polyketide Synthase Gene

ABSTRACT Sponge-associated bacteria are thought to produce many novel bioactive compounds, including polyketides. PCR amplification of ketosynthase domains of type I modular polyketide synthases (PKS) from the microbial community of the marine sponge Discodermia dissoluta revealed great diversity and a novel group of sponge-specific PKS ketosynthase domains. Metagenomic libraries totaling more than four gigabases of bacterial genomes associated with this sponge were screened for type I modular PKS gene clusters. More than 90% of the clones in total sponge DNA libraries represented bacterial DNA inserts, and 0.7% harbored PKS genes. The majority of the PKS hybridizing clones carried small PKS clusters of one to three modules, although some clones encoded large multimodular PKSs (more than five modules). The most abundant large modular PKS appeared to be encoded by a bacterial symbiont that made up <1% of the sponge community. Sequencing of this PKS revealed 14 modules that, if expressed and active, is predicted to produce a multimethyl-branched fatty acid reminiscent of mycobacterial lipid components. Metagenomic libraries made from fractions enriched for unicellular or filamentous bacteria differed significantly, with the latter containing numerous nonribosomal peptide synthetase (NRPS) and mixed NRPS-PKS gene clusters. The filamentous bacterial community of D. dissoluta consists mainly of Entotheonella spp., an unculturable sponge-specific taxon previously implicated in the biosynthesis of bioactive peptides.

scholarly journals Antimicrobial and Antioxidant Activities of Methanolic Extract and Fractions of <i>Epilobium roseum</i> (Schreb.) against Bacterial Strains

2021 ◽  
Vol 12 (03) ◽  
pp. 275-284
Author(s):  
Muhammad Ikram ◽  
Niaz Ali ◽  
Gul Jan ◽  
Farzana Gul Jan ◽  
Muhammad Romman ◽  
...  
Keyword(s):  
Methanolic Extract ◽  
Antioxidant Activities ◽  
Bacterial Strains

scholarly journals Antiplasmodial activity and genome mining study of marine-derived Streptomyces sp. GMY01

2021 ◽  
Vol 2 (2) ◽  
Author(s):  
Ema Damayanti ◽  
Jaka Widada ◽  
Achmad Dinoto ◽  
Mustofa
Keyword(s):  
Polyketide Synthase ◽  
Genome Mining ◽  
Gene Clusters ◽  
Antiplasmodial Activity ◽  
Active Compounds ◽  
Streptomyces Sp ◽  
Ic50 Value ◽  
Peptide Synthetase ◽  
Genes Encoding

High resistance to chloroquine in most malaria-endemic area in the world leads to the need for new antimalaria drugs. Marine bacterium Streptomyces  is the source for potential new antimalarial molecules. This research aimed to investigate antiplasmodial activity of marine-derived of Streptomyces sp. GMY01 and to identify potential active compounds using genome mining study. In vitro antiplasmodial activity assays using flow cytometry method showed that the ethyl acetate extract of this bacterium had high antiplasmodial activity (IC50 value of 1.183 µg/mL) on Plasmodium falciparum FCR3. Genome mining analysis of whole-genome sequences using antiSMASH 6.0 beta version revealed that Streptomyces sp. GMY01 had 28 biosynthetic gene clusters (BGCs), including the genes encoding polyketide synthase, non-ribosomal peptide synthetase, terpene, lanthipeptide, bacteriocin, butyrolactone, ectoin, siderophore, and others. The known BGCs were predicted to be involved in the production of known compounds from gene clusters ranged from 5 to 100% similarity. Ongoing purification and elucidation of the structures will allow identification of the active compounds produced by marine-derived Streptomyces sp. GMY01.

scholarly journals Mining for Nonribosomal Peptide Synthetase and Polyketide Synthase Genes Revealed a High Level of Diversity in the Sphagnum Bog Metagenome

2015 ◽  
Vol 81 (15) ◽  
pp. 5064-5072 ◽  
Author(s):  
Christina A. Müller ◽  
Lisa Oberauner-Wappis ◽  
Armin Peyman ◽  
Gregory C. A. Amos ◽  
Elizabeth M. H. Wellington ◽  
...  
Keyword(s):  
In Silico ◽  
Polyketide Synthase ◽  
Pcr Amplification ◽  
Secondary Compounds ◽  
Bioactive Metabolites ◽  
Natural Ecosystems ◽  
Bioactive Substances ◽  
Nonribosomal Peptide ◽  
Content Type ◽  
Promising Source

ABSTRACTSphagnumbog ecosystems are among the oldest vegetation forms harboring a specific microbial community and are known to produce an exceptionally wide variety of bioactive substances. Although theSphagnummetagenome shows a rich secondary metabolism, the genes have not yet been explored. To analyze nonribosomal peptide synthetases (NRPSs) and polyketide synthases (PKSs), the diversity of NRPS and PKS genes inSphagnum-associated metagenomes was investigated byin silicodata mining and sequence-based screening (PCR amplification of 9,500 fosmid clones). Thein silicoIllumina-based metagenomic approach resulted in the identification of 279 NRPSs and 346 PKSs, as well as 40 PKS-NRPS hybrid gene sequences. The occurrence of NRPS sequences was strongly dominated by the members of theProtebacteriaphylum, especially by species of theBurkholderiagenus, while PKS sequences were mainly affiliated withActinobacteria. Thirteen novel NRPS-related sequences were identified by PCR amplification screening, displaying amino acid identities of 48% to 91% to annotated sequences of members of the phylaProteobacteria,Actinobacteria, andCyanobacteria. Some of the identified metagenomic clones showed the closest similarity to peptide synthases fromBurkholderiaorLysobacter, which are emerging bacterial sources of as-yet-undescribed bioactive metabolites. This report highlights the role of the extreme natural ecosystems as a promising source for detection of secondary compounds and enzymes, serving as a source for biotechnological applications.

scholarly journals Draft Genome Sequence of an Anthracimycin Producer, Streptomyces sp. TP-A0875

2015 ◽  
Vol 3 (5) ◽  
Author(s):  
Hisayuki Komaki ◽  
Natsuko Ichikawa ◽  
Akira Hosoyama ◽  
Nobuyuki Fujita ◽  
Enjuro Harunari ◽  
...  
Keyword(s):  
Gene Cluster ◽  
Genome Sequence ◽  
Polyketide Synthase ◽  
Draft Genome ◽  
Gene Clusters ◽  
Draft Genome Sequence ◽  
Type I ◽  
Type Ii ◽  
Streptomyces Sp ◽  
Peptide Synthetase

Here, we report the draft genome sequence of an anthracimycin producer, Streptomyces sp. TP-A0875. The genome contains at least two type I polyketide synthase (PKS) gene clusters, two type II PKS gene clusters, and three nonribosomal peptide synthetase gene clusters. The gene cluster for anthracimycin biosynthesis was identified based on the PKS domain organization.

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