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Nofiani R, Ardiningsih P, Rudiyansyah, Padupu D, Rizky, Amalia DA, Octaviana S, Sukito A, Setiyoningrum F, Weisberg AJ, Mahmud T. Biological activities and metabolomic profiles of extracts from the marine sediment bacterium Nocardiopsis alba DP1B cultivated in different media. Microb Pathog 2024; 192:106702. [PMID: 38825090 DOI: 10.1016/j.micpath.2024.106702] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2024] [Revised: 04/24/2024] [Accepted: 05/15/2024] [Indexed: 06/04/2024]
Abstract
The soil bacterium DP1B was isolated from a marine sediment collected off the coast of Randayan Island, Kalimantan Barat, Indonesia and identified based on 16S rDNA as Nocardiopsis alba. The bacterium was cultivated in seven different media (A1, ISP1, ISP2, ISP4, PDB, PC-1, and SCB) with three different solvents [distilled water, 5 % NaCl solution, artificial seawater (ASW)] combinations, shaken at 200 rpm, 30 °C, for 7 days. The culture broths were extracted with ethyl acetate and each extract was tested for its antimicrobial activity and brine shrimp lethality, and the chemical diversity was assessed using thin-layer chromatography (TLC), gas chromatography (GC), and liquid chromatography-mass spectrometry/mass spectrometry (LC-MS/MS). The result showed that almost all extracts showed antibacterial but not antifungal activity, whereas their brine shrimp toxicity levels vary from high to low. The best medium/solvent combinations for antibacterial activity and toxicity were PC-1 (in either distilled water, 5% NaCl solution, or ASW) and SCB in ASW. Different chemical diversity profiles were observed on TLC, GC-MS, and LC-MS/MS. Extracts from the PC-1 cultures seem to contain a significant number of cyclic dipeptides, whereas those from the SCB cultures contain sesquiterpenes, indicating that media and solvent compositions can affect the secondary metabolite profiles of DP1B. In addition, untargeted metabolomic analyses using LC-MS/MS showed many molecular ions that did not match with those in the Global Natural Products Social Molecular Networking (GNPS) database, suggesting that DP1B has great potential as a source of new natural products.
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Affiliation(s)
- Risa Nofiani
- Department of Chemistry, Universitas Tanjungpura, Pontianak, 78124, Indonesia.
| | - Puji Ardiningsih
- Department of Chemistry, Universitas Tanjungpura, Pontianak, 78124, Indonesia
| | - Rudiyansyah
- Department of Chemistry, Universitas Tanjungpura, Pontianak, 78124, Indonesia
| | - Desi Padupu
- Department of Chemistry, Universitas Tanjungpura, Pontianak, 78124, Indonesia
| | - Rizky
- Department of Chemistry, Universitas Tanjungpura, Pontianak, 78124, Indonesia
| | - Dinda Ayu Amalia
- Department of Chemistry, Universitas Tanjungpura, Pontianak, 78124, Indonesia
| | - Senlie Octaviana
- Research Center for Applied Microbiology, National Research and Innovation Agency, Bogor, 16911, Indonesia
| | - Agus Sukito
- Research Center for Applied Microbiology, National Research and Innovation Agency, Bogor, 16911, Indonesia
| | - Fitri Setiyoningrum
- Research Center for Applied Microbiology, National Research and Innovation Agency, Bogor, 16911, Indonesia
| | - Alexandra J Weisberg
- Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331, United States
| | - Taifo Mahmud
- Department of Pharmaceutical Sciences, Oregon State University, Corvallis, OR 97333, United States
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Al-Fadhli AA, Threadgill MD, Mohammed F, Sibley P, Al-Ariqi W, Parveen I. Macrolides from rare actinomycetes: Structures and bioactivities. Int J Antimicrob Agents 2022; 59:106523. [PMID: 35041941 DOI: 10.1016/j.ijantimicag.2022.106523] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2021] [Revised: 01/06/2022] [Accepted: 01/10/2022] [Indexed: 11/19/2022]
Abstract
Rare actinomycetes are the sources of numerous biologically active secondary metabolites with diverse structures. Among them are macrolides, which have been shown to display several antibiotic activities. In this review, twenty-six groups of macrolides from rare actinomycetes are presented, with their bioactivities and structures of representatives from each group. It has been divided according to the classes of macrolides. The most interesting groups with a wide range of biological activities are ammocidins, bafilomycins, neomaclafungins, rosaramicins, spinosyns, and tiacumicins. Most macrolides are obtained from the genus, Micromonospora, with smaller contributions from genera such as Saccharothrix, Amycolatopsis, Nocardiopsis and Catenulispora. These macrolides display unique cytotoxic, antibacterial, antifungal, antimicrobial, insecticidal, anti-trypanosomal, antimalarial, antiprotozoal, antimycobacterial and anti-herpetic activity. Based on their noticeable bioactivities and diverse structures, macrolides from rare actinomycetes deserve to be investigated further for future applications in medicine. This work highlights the bioactivities and structures of important classes of macrolides from rare actinomycetes, which could be used in medicine in the future or which are already in the market.
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Affiliation(s)
- Ammar A Al-Fadhli
- Department of Chemistry, Faculty of Science, Sana'a University, Sana'a, Republic of Yemen; Institute of Biological, Environmental & Rural Sciences (IBERS), Aberystwyth University, Aberystwyth SY23 3DA, United Kingdom.
| | - Michael D Threadgill
- Institute of Biological, Environmental & Rural Sciences (IBERS), Aberystwyth University, Aberystwyth SY23 3DA, United Kingdom; Department of Pharmacy & Pharmacology, University of Bath, Claverton Down, Bath BA2 7AY, United Kingdom
| | - Faez Mohammed
- School of Environmental Sciences, University of Guelph, 50 Stone Road E, Guelph, ON, N1G 2W1, Canada; Faculty of Applied Science-Arhab, Sana'a University, Sana'a, Yemen.
| | - Paul Sibley
- School of Environmental Sciences, University of Guelph, 50 Stone Road E, Guelph, ON, N1G 2W1, Canada
| | - Wadie Al-Ariqi
- Department of Chemistry, Faculty of Science, Sana'a University, Sana'a, Republic of Yemen
| | - Ifat Parveen
- Institute of Biological, Environmental & Rural Sciences (IBERS), Aberystwyth University, Aberystwyth SY23 3DA, United Kingdom
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Handayani I, Saad H, Ratnakomala S, Lisdiyanti P, Kusharyoto W, Krause J, Kulik A, Wohlleben W, Aziz S, Gross H, Gavriilidou A, Ziemert N, Mast Y. Mining Indonesian Microbial Biodiversity for Novel Natural Compounds by a Combined Genome Mining and Molecular Networking Approach. Mar Drugs 2021; 19:316. [PMID: 34071728 PMCID: PMC8227522 DOI: 10.3390/md19060316] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2021] [Revised: 05/22/2021] [Accepted: 05/25/2021] [Indexed: 11/17/2022] Open
Abstract
Indonesia is one of the most biodiverse countries in the world and a promising resource for novel natural compound producers. Actinomycetes produce about two thirds of all clinically used antibiotics. Thus, exploiting Indonesia's microbial diversity for actinomycetes may lead to the discovery of novel antibiotics. A total of 422 actinomycete strains were isolated from three different unique areas in Indonesia and tested for their antimicrobial activity. Nine potent bioactive strains were prioritized for further drug screening approaches. The nine strains were cultivated in different solid and liquid media, and a combination of genome mining analysis and mass spectrometry (MS)-based molecular networking was employed to identify potential novel compounds. By correlating secondary metabolite gene cluster data with MS-based molecular networking results, we identified several gene cluster-encoded biosynthetic products from the nine strains, including naphthyridinomycin, amicetin, echinomycin, tirandamycin, antimycin, and desferrioxamine B. Moreover, 16 putative ion clusters and numerous gene clusters were detected that could not be associated with any known compound, indicating that the strains can produce novel secondary metabolites. Our results demonstrate that sampling of actinomycetes from unique and biodiversity-rich habitats, such as Indonesia, along with a combination of gene cluster networking and molecular networking approaches, accelerates natural product identification.
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Affiliation(s)
- Ira Handayani
- Department of Microbiology/Biotechnology, Interfaculty Institute of Microbiology and Infection Medicine, Tübingen (IMIT), Cluster of Excellence ‘Controlling Microbes to Fight Infections’, University of Tübingen, Auf der Morgenstelle 28, 72076 Tübingen, Germany; (I.H.); (J.K.); (A.K.); (W.W.)
- Research Center for Biotechnology, Indonesian Institute of Sciences (LIPI), Jl. Raya Jakarta-Bogor KM.46, Cibinong, West Java 16911, Indonesia; (P.L.); (W.K.)
| | - Hamada Saad
- Department of Pharmaceutical Biology, Institute of Pharmaceutical Sciences, University of Tübingen, Auf der Morgenstelle 8, 72076 Tübingen, Germany; (H.S.); (S.A.); (H.G.)
- Department of Phytochemistry and Plant Systematics, Division of Pharmaceutical Industries, National Research Centre, Dokki, Cairo 12622, Egypt
| | - Shanti Ratnakomala
- Research Center for Biology, Indonesian Institute of Sciences (LIPI), Jl. Raya Jakarta-Bogor KM.46, Cibinong, West Java 16911, Indonesia;
| | - Puspita Lisdiyanti
- Research Center for Biotechnology, Indonesian Institute of Sciences (LIPI), Jl. Raya Jakarta-Bogor KM.46, Cibinong, West Java 16911, Indonesia; (P.L.); (W.K.)
| | - Wien Kusharyoto
- Research Center for Biotechnology, Indonesian Institute of Sciences (LIPI), Jl. Raya Jakarta-Bogor KM.46, Cibinong, West Java 16911, Indonesia; (P.L.); (W.K.)
| | - Janina Krause
- Department of Microbiology/Biotechnology, Interfaculty Institute of Microbiology and Infection Medicine, Tübingen (IMIT), Cluster of Excellence ‘Controlling Microbes to Fight Infections’, University of Tübingen, Auf der Morgenstelle 28, 72076 Tübingen, Germany; (I.H.); (J.K.); (A.K.); (W.W.)
| | - Andreas Kulik
- Department of Microbiology/Biotechnology, Interfaculty Institute of Microbiology and Infection Medicine, Tübingen (IMIT), Cluster of Excellence ‘Controlling Microbes to Fight Infections’, University of Tübingen, Auf der Morgenstelle 28, 72076 Tübingen, Germany; (I.H.); (J.K.); (A.K.); (W.W.)
| | - Wolfgang Wohlleben
- Department of Microbiology/Biotechnology, Interfaculty Institute of Microbiology and Infection Medicine, Tübingen (IMIT), Cluster of Excellence ‘Controlling Microbes to Fight Infections’, University of Tübingen, Auf der Morgenstelle 28, 72076 Tübingen, Germany; (I.H.); (J.K.); (A.K.); (W.W.)
| | - Saefuddin Aziz
- Department of Pharmaceutical Biology, Institute of Pharmaceutical Sciences, University of Tübingen, Auf der Morgenstelle 8, 72076 Tübingen, Germany; (H.S.); (S.A.); (H.G.)
| | - Harald Gross
- Department of Pharmaceutical Biology, Institute of Pharmaceutical Sciences, University of Tübingen, Auf der Morgenstelle 8, 72076 Tübingen, Germany; (H.S.); (S.A.); (H.G.)
| | - Athina Gavriilidou
- Applied Natural Products Genome Mining, Interfaculty Institute of Microbiology and Infection Medicine Tübingen (IMIT), Cluster of Excellence ‘Controlling Microbes to Fight Infections’, University of Tübingen, Auf der Morgenstelle 28, 72076 Tübingen, Germany; (A.G.); (N.Z.)
| | - Nadine Ziemert
- Applied Natural Products Genome Mining, Interfaculty Institute of Microbiology and Infection Medicine Tübingen (IMIT), Cluster of Excellence ‘Controlling Microbes to Fight Infections’, University of Tübingen, Auf der Morgenstelle 28, 72076 Tübingen, Germany; (A.G.); (N.Z.)
- German Center for Infection Research (DZIF), Partner Site Tübingen, 72076 Tübingen, Germany
| | - Yvonne Mast
- Department of Microbiology/Biotechnology, Interfaculty Institute of Microbiology and Infection Medicine, Tübingen (IMIT), Cluster of Excellence ‘Controlling Microbes to Fight Infections’, University of Tübingen, Auf der Morgenstelle 28, 72076 Tübingen, Germany; (I.H.); (J.K.); (A.K.); (W.W.)
- German Center for Infection Research (DZIF), Partner Site Tübingen, 72076 Tübingen, Germany
- Department of Bioresources for Bioeconomy and Health Research, Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, 38124 Braunschweig, Germany
- Department of Microbiology, Technical University of Braunschweig, 38124 Braunschweig, Germany
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Secondary Metabolites of the Genus Amycolatopsis: Structures, Bioactivities and Biosynthesis. Molecules 2021; 26:molecules26071884. [PMID: 33810439 PMCID: PMC8037709 DOI: 10.3390/molecules26071884] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2021] [Revised: 03/18/2021] [Accepted: 03/23/2021] [Indexed: 12/13/2022] Open
Abstract
Actinomycetes are regarded as important sources for the generation of various bioactive secondary metabolites with rich chemical and bioactive diversities. Amycolatopsis falls under the rare actinomycete genus with the potential to produce antibiotics. In this review, all literatures were searched in the Web of Science, Google Scholar and PubMed up to March 2021. The keywords used in the search strategy were “Amycolatopsis”, “secondary metabolite”, “new or novel compound”, “bioactivity”, “biosynthetic pathway” and “derivatives”. The objective in this review is to summarize the chemical structures and biological activities of secondary metabolites from the genus Amycolatopsis. A total of 159 compounds derived from 8 known and 18 unidentified species are summarized in this paper. These secondary metabolites are mainly categorized into polyphenols, linear polyketides, macrolides, macrolactams, thiazolyl peptides, cyclic peptides, glycopeptides, amide and amino derivatives, glycoside derivatives, enediyne derivatives and sesquiterpenes. Meanwhile, they mainly showed unique antimicrobial, anti-cancer, antioxidant, anti-hyperglycemic, and enzyme inhibition activities. In addition, the biosynthetic pathways of several potent bioactive compounds and derivatives are included and the prospect of the chemical substances obtained from Amycolatopsis is also discussed to provide ideas for their implementation in the field of therapeutics and drug discovery.
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Primahana G, Risdian C, Mozef T, Wink J, Surup F, Stadler M. Amycolatomycins A and B, Cyclic Hexapeptides Isolated from an Amycolatopsis sp. 195334CR. Antibiotics (Basel) 2021; 10:261. [PMID: 33807584 PMCID: PMC8002008 DOI: 10.3390/antibiotics10030261] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2021] [Revised: 02/24/2021] [Accepted: 03/01/2021] [Indexed: 11/16/2022] Open
Abstract
The rare actinobacterium Amycolatopsis sp. strain 195334CR was found to produce previously undescribed cyclic hexapeptides, which we named amycolatomycin A and B (1 and 2). Their planar structures were determined by high-resolution mass spectrometry as well as extensive 1D and 2D NMR spectroscopy, while the absolute stereochemistry of its amino acids were determined by Marfey's method. Moreover, 1 and 2 differ by the incorporation of l-Ile and l-allo-Ile, respectively, whose FDVA (Nα-(2,4-Dinitro-5-fluorphenyl)-L-valinamide) derivatives were separated on a C4 column. Their hallmark in common is a unique 2,6-dichloro-tryptophan amino acid unit. Amycolatomycin A (1) exhibited weak activity against Bacillus subtilis DSM 10 (minimum inhibitory concentration (MIC) = 33.4 µg/mL).
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Affiliation(s)
- Gian Primahana
- Department Microbial Drugs, Helmholtz Centre for Infection Research GmbH (HZI), Inhoffenstrasse 7, 38124 Braunschweig, Germany; (G.P.); (F.S.)
- Research Center for Chemistry, Indonesian Institute of Sciences (LIPI), Kawasan Puspiptek, Serpong, Tangerang Selatan 15314, Indonesia;
| | - Chandra Risdian
- Working Group Microbial Strain Collection, Helmholtz Centre for Infection Research GmbH (HZI), Inhoffenstrasse 7, 38124 Braunschweig, Germany; (C.R.); (J.W.)
- Research Unit for Clean Technology, Indonesian Institute of Sciences (LIPI), Bandung 40135, Indonesia
| | - Tjandrawati Mozef
- Research Center for Chemistry, Indonesian Institute of Sciences (LIPI), Kawasan Puspiptek, Serpong, Tangerang Selatan 15314, Indonesia;
| | - Joachim Wink
- Working Group Microbial Strain Collection, Helmholtz Centre for Infection Research GmbH (HZI), Inhoffenstrasse 7, 38124 Braunschweig, Germany; (C.R.); (J.W.)
| | - Frank Surup
- Department Microbial Drugs, Helmholtz Centre for Infection Research GmbH (HZI), Inhoffenstrasse 7, 38124 Braunschweig, Germany; (G.P.); (F.S.)
| | - Marc Stadler
- Department Microbial Drugs, Helmholtz Centre for Infection Research GmbH (HZI), Inhoffenstrasse 7, 38124 Braunschweig, Germany; (G.P.); (F.S.)
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Jin Y, Aobulikasimu N, Zhang Z, Liu C, Cao B, Lin B, Guan P, Mu Y, Jiang Y, Han L, Huang X. Amycolasporins and Dibenzoyls from Lichen-Associated Amycolatopsis hippodromi and Their Antibacterial and Anti-inflammatory Activities. JOURNAL OF NATURAL PRODUCTS 2020; 83:3545-3553. [PMID: 33216556 DOI: 10.1021/acs.jnatprod.0c00547] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Eleven metabolites, six echinosporins (1-6), four dibenzoyls (7-10), and an aromatic compound (11), were isolated from the fermentation broth of lichen-associated Amycolatopsis hippodromi. The structures of the new compounds (1-5, 8-11) were elucidated by comprehensive spectroscopic analysis including data from experimental and calculated ECD spectra. Amycolasporins A-C (1-3) demonstrated antibacterial activities against Bacillus subtilis, Staphylococcus aureus, and Escherichia coli with MIC values of 25 or 100 μg/mL. Amycolasporin C (3) and the known dibenzoyl (7) attenuated the production of NO due to the suppression of the expression of nitric oxide synthase (iNOS) in LPS-induced RAW 264.7 cells in a dose-dependent manner.
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Affiliation(s)
- Ying Jin
- Institute of Microbial Pharmaceuticals, College of Life and Health Sciences, Northeastern University, Shenyang 110819, People's Republic of China
| | - Nuerbiye Aobulikasimu
- Institute of Microbial Pharmaceuticals, College of Life and Health Sciences, Northeastern University, Shenyang 110819, People's Republic of China
| | - Zengguang Zhang
- Institute of Microbial Pharmaceuticals, College of Life and Health Sciences, Northeastern University, Shenyang 110819, People's Republic of China
| | - Chengbin Liu
- Yunnan Institute of Microbiology, Yunnan University, Kunming 650091, People's Republic of China
| | - Bixuan Cao
- Institute of Microbial Pharmaceuticals, College of Life and Health Sciences, Northeastern University, Shenyang 110819, People's Republic of China
| | - Bin Lin
- School of Pharmaceutical Engineering, Shenyang Pharmaceutical University, Shenyang 110016, People's Republic of China
| | - Peipei Guan
- Institute of Microbial Pharmaceuticals, College of Life and Health Sciences, Northeastern University, Shenyang 110819, People's Republic of China
| | - Yu Mu
- Institute of Microbial Pharmaceuticals, College of Life and Health Sciences, Northeastern University, Shenyang 110819, People's Republic of China
| | - Yi Jiang
- Yunnan Institute of Microbiology, Yunnan University, Kunming 650091, People's Republic of China
| | - Li Han
- Institute of Microbial Pharmaceuticals, College of Life and Health Sciences, Northeastern University, Shenyang 110819, People's Republic of China
| | - Xueshi Huang
- Institute of Microbial Pharmaceuticals, College of Life and Health Sciences, Northeastern University, Shenyang 110819, People's Republic of China
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7
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Natural products and other inhibitors of F 1F O ATP synthase. Eur J Med Chem 2020; 207:112779. [PMID: 32942072 DOI: 10.1016/j.ejmech.2020.112779] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2020] [Revised: 08/20/2020] [Accepted: 08/21/2020] [Indexed: 12/19/2022]
Abstract
F1FO ATP synthase is responsible for the production of >95% of all ATP synthesis within the cell. Dysregulation of its expression, activity or localization is linked to various human diseases including cancer, diabetes, and Alzheimer's and Parkinson's disease. In addition, ATP synthase is a novel and viable drug target for the development of antimicrobials as evidenced by bedaquiline, which was approved in 2012 for the treatment of tuberculosis. Historically, natural products have been a rich source of ATP synthase inhibitors that help unravel the role of F1FO ATP synthase in cellular bioenergetics. During the last decade, new modulators of ATP synthase have been discovered through the isolation of novel natural products as well as through a ligand-based drug design process. In addition, new data has been obtained with regards to the structure and function of ATP synthase under physiological and pathological conditions. Crystal structure studies have provided a significant insight into the rotary function of the enzyme and may provide additional opportunities to design a new generation of inhibitors. This review provides an update on recently discovered ATP synthase modulators as well as an update on existing scaffolds.
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Antibacterial Potential of Secondary Metabolites from Indonesian Marine Bacterial Symbionts. Int J Microbiol 2020; 2020:8898631. [PMID: 32676116 PMCID: PMC7341410 DOI: 10.1155/2020/8898631] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2020] [Accepted: 05/22/2020] [Indexed: 01/01/2023] Open
Abstract
Indonesian marine environments are known to house diverse organisms. However, the potential for bacteria from these environments as a source of antibacterial agents has not been widely studied. This study aims to explore the antibacterial potential of secondary metabolites produced by bacterial symbionts from sponges and corals collected in the Indonesian waters. Extracts of 12 bacterial isolates from sponges or corals were prepared by cultivating the bacteria under a number of different media conditions and using agar well diffusion assays to test for antibacterial activity. In addition, the morphology, physiology, and biochemical characteristics and 16S rRNA sequence of each isolate were used to determine their taxonomic classification. All tested bacterial isolates were able to produce secondary metabolites with various levels of antibacterial activity depending on medium composition and culture conditions. Two of the bacteria (RS3 and RC4) showed strong antibacterial activities against both Gram-negative and Gram-positive bacteria. A number of isolates (RS1, RS3, and RC2) were co-cultured with mycolic acid-containing bacteria, Mycobacterium smegmatis or Rhodococcus sp. However, no improvements in their antibacterial activity were observed. All of the 12 bacteria tested were identified as Streptomyces spp. LC-MS analysis of EtOAc extracts from the most active strains RS3 and RC4 revealed the presence of a number of dactinomycin analogues and potentially new secondary metabolites. Symbiotic Streptomyces spp. from sponges and corals of the Indonesian marine environments have great potential as a source of broad-spectrum antibacterial agents.
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Ding T, Yang LJ, Zhang WD, Shen YH. The secondary metabolites of rare actinomycetes: chemistry and bioactivity. RSC Adv 2019; 9:21964-21988. [PMID: 35518871 PMCID: PMC9067109 DOI: 10.1039/c9ra03579f] [Citation(s) in RCA: 40] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2019] [Accepted: 07/01/2019] [Indexed: 01/06/2023] Open
Abstract
Actinomycetes are outstanding and fascinating sources of potent bioactive compounds, particularly antibiotics. In recent years, rare actinomycetes have had an increasingly important position in the discovery of antibacterial compounds, especially Micromonospora, Actinomadura and Amycolatopsis. Focusing on the period from 2008 to 2018, we herein summarize the structures and bioactivities of secondary metabolites from rare actinomycetes, involving 21 genera.
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Affiliation(s)
- Ting Ding
- State Key Laboratory of New Drug and Pharmaceutical Process, Shanghai Institute of Pharmaceutical Industry, China State Institute of Pharmaceutical Industry Shanghai 201203 China
| | - Luo-Jie Yang
- Institute of Interdisciplinary Integrative Medicine Research, Shanghai University of Traditional Chinese Medicine Shanghai 201203 China
| | - Wei-Dong Zhang
- State Key Laboratory of New Drug and Pharmaceutical Process, Shanghai Institute of Pharmaceutical Industry, China State Institute of Pharmaceutical Industry Shanghai 201203 China
- School of Pharmacy, The Second Military Medical University Shanghai 200433 China
| | - Yun-Heng Shen
- School of Pharmacy, The Second Military Medical University Shanghai 200433 China
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Draft Genome Sequence of the Pristinamycin-Producing Strain Streptomyces sp. SW4, Isolated from Soil in Nusa Kambangan, Indonesia. Microbiol Resour Announc 2018; 7:MRA00912-18. [PMID: 30533905 PMCID: PMC6256442 DOI: 10.1128/mra.00912-18] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2018] [Accepted: 07/24/2018] [Indexed: 02/07/2023] Open
Abstract
Streptomyces sp. strain SW4 exhibited broad-spectrum antibacterial activity toward Gram-positive and Gram-negative pathogens. The 7.5-Mb draft genome sequence gives insight into the complete secondary metabolite production capacity and reveals genes putatively responsible for its antibacterial activity.
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Xu X, Han L, Zhao L, Chen X, Miao C, Hu L, Huang X, Chen Y, Li Y. Echinosporin antibiotics isolated from Amycolatopsis strain and their antifungal activity against root-rot pathogens of the Panax notoginseng. Folia Microbiol (Praha) 2018; 64:171-175. [PMID: 30117099 DOI: 10.1007/s12223-018-0642-z] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2018] [Accepted: 08/09/2018] [Indexed: 01/10/2023]
Abstract
Actinomycete strain YIM PH20520, isolated from the rhizosphere soil sample of Panax notoginseng collected in Wenshang, Yunnan Province, China, exhibited antifungal activity against root-rot pathogens of the Panax notoginseng. The structures of bioactive molecules, isolated from the ethyl acetate extract of the fermentation broth of the strain, were identified as echinosporin (1) and 7-deoxyechinosporin (2) based on extensive spectroscopic analyses. 1 exhibited antifungal activity against four tested root-rot pathogens of Panax notoginseng include Fusarium oxysporum, Fusarium solani, Alternaria panax, and Phoma herbarum with the MIC value at 64, 64, 32, and 64 μg/mL, respectively. 2 exhibited antifungal activities against F. oxysporum, F. solani, A. panax, and P. herbarum with the MIC value at 128, 128, 64, and 128 μg/mL, respectively. Based on the phylogenetic analyses, the closest phylogenetic relative of strain YIM PH20520 is Amycolatopsis speibonae JS72T (97.69%), so strain YIM PH20520 was identified as Amycolatopsis strain. To the best of our knowledge, this is the first report of echinosporin antibiotics isolated from Amycolatopsis strain besides Streptomyces strain and their antifungal activity against four tested root-rot pathogens of the Panax notoginseng. The results provide a reliable evidence for the following related biosynthetic investigations on Amycolatopsis strain YIM PH20520 due to echinosporins antibiotics' unique tricyclic acetal-lactone structures.
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Affiliation(s)
- Xindong Xu
- Key Laboratory of Microbial Diversity in Southwest China, Ministry of Education, College of Life Sciences, Yunnan University, Kunming, 650091, China
| | - Li Han
- Institute of Microbial Pharmaceuticals, College of Life and Health Sciences, Northeastern University, Shenyang, 110819, China.
| | - Lixing Zhao
- Key Laboratory of Microbial Diversity in Southwest China, Ministry of Education, College of Life Sciences, Yunnan University, Kunming, 650091, China
| | - Xiao Chen
- Key Laboratory of Microbial Diversity in Southwest China, Ministry of Education, College of Life Sciences, Yunnan University, Kunming, 650091, China
| | - Cuiping Miao
- Key Laboratory of Microbial Diversity in Southwest China, Ministry of Education, College of Life Sciences, Yunnan University, Kunming, 650091, China
| | - Linfang Hu
- Key Laboratory of Microbial Diversity in Southwest China, Ministry of Education, College of Life Sciences, Yunnan University, Kunming, 650091, China
| | - Xueshi Huang
- Institute of Microbial Pharmaceuticals, College of Life and Health Sciences, Northeastern University, Shenyang, 110819, China
| | - Youwei Chen
- Key Laboratory of Microbial Diversity in Southwest China, Ministry of Education, College of Life Sciences, Yunnan University, Kunming, 650091, China
| | - Yiqing Li
- Key Laboratory of Microbial Diversity in Southwest China, Ministry of Education, College of Life Sciences, Yunnan University, Kunming, 650091, China.
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Li D, Na X, Wang H, Xie Y, Cong S, Song Y, Xu X, Zhu BW, Tan M. Fluorescent Carbon Dots Derived from Maillard Reaction Products: Their Properties, Biodistribution, Cytotoxicity, and Antioxidant Activity. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2018; 66:1569-1575. [PMID: 29360356 DOI: 10.1021/acs.jafc.7b05643] [Citation(s) in RCA: 62] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Food-borne nanoparticles have received great attention because of their unique physicochemical properties and potential health risk. In this study, carbon dots (CDs) formed during one of the most important chemical reactions in the food processing field, the Maillard reaction from the model system including glucose and lysine, were investigated. The CDs purified from Maillard reaction products emitted a strong blue fluorescence under ultraviolet light with a fluorescent quantum yield of 16.30%. In addition, they were roughly spherical, with sizes of around 4.3 nm, and mainly composed of carbon, oxygen, hydrogen, and nitrogen. Their surface groups such as hydroxyl, amino, and carboxyl groups were found to possibly enable CDs to scavenge DPPH and hydroxyl radicals. Furthermore, the cytotoxicity assessment of CDs showed that they could readily enter HepG2 cells while causing negligible cell death at low concentration. However, high CDs concentrations were highly cytotoxic and led to cell death via interference of the glycolytic pathway.
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Affiliation(s)
- Dongmei Li
- School of Food Science and Technology, National Engineering Research Center of Seafood, Dalian Polytechnic University , Qinggongyuan 1, Ganjingzi District, Dalian 116034, Liaoning, People's Republic of China
- Engineering Research Center of Seafood of Ministry of Education of China , Dalian 116034, Liaoning, People's Republic of China
| | - Xiaokang Na
- School of Food Science and Technology, National Engineering Research Center of Seafood, Dalian Polytechnic University , Qinggongyuan 1, Ganjingzi District, Dalian 116034, Liaoning, People's Republic of China
- Engineering Research Center of Seafood of Ministry of Education of China , Dalian 116034, Liaoning, People's Republic of China
| | - Haitao Wang
- School of Food Science and Technology, National Engineering Research Center of Seafood, Dalian Polytechnic University , Qinggongyuan 1, Ganjingzi District, Dalian 116034, Liaoning, People's Republic of China
- Engineering Research Center of Seafood of Ministry of Education of China , Dalian 116034, Liaoning, People's Republic of China
| | - Yisha Xie
- School of Food Science and Technology, National Engineering Research Center of Seafood, Dalian Polytechnic University , Qinggongyuan 1, Ganjingzi District, Dalian 116034, Liaoning, People's Republic of China
- Engineering Research Center of Seafood of Ministry of Education of China , Dalian 116034, Liaoning, People's Republic of China
| | - Shuang Cong
- School of Food Science and Technology, National Engineering Research Center of Seafood, Dalian Polytechnic University , Qinggongyuan 1, Ganjingzi District, Dalian 116034, Liaoning, People's Republic of China
- Engineering Research Center of Seafood of Ministry of Education of China , Dalian 116034, Liaoning, People's Republic of China
| | - Yukun Song
- School of Food Science and Technology, National Engineering Research Center of Seafood, Dalian Polytechnic University , Qinggongyuan 1, Ganjingzi District, Dalian 116034, Liaoning, People's Republic of China
- Engineering Research Center of Seafood of Ministry of Education of China , Dalian 116034, Liaoning, People's Republic of China
| | - Xianbing Xu
- School of Food Science and Technology, National Engineering Research Center of Seafood, Dalian Polytechnic University , Qinggongyuan 1, Ganjingzi District, Dalian 116034, Liaoning, People's Republic of China
- Engineering Research Center of Seafood of Ministry of Education of China , Dalian 116034, Liaoning, People's Republic of China
| | - Bei-Wei Zhu
- School of Food Science and Technology, National Engineering Research Center of Seafood, Dalian Polytechnic University , Qinggongyuan 1, Ganjingzi District, Dalian 116034, Liaoning, People's Republic of China
- Engineering Research Center of Seafood of Ministry of Education of China , Dalian 116034, Liaoning, People's Republic of China
| | - Mingqian Tan
- School of Food Science and Technology, National Engineering Research Center of Seafood, Dalian Polytechnic University , Qinggongyuan 1, Ganjingzi District, Dalian 116034, Liaoning, People's Republic of China
- Engineering Research Center of Seafood of Ministry of Education of China , Dalian 116034, Liaoning, People's Republic of China
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Amycolatopsins A-C: antimycobacterial glycosylated polyketide macrolides from the Australian soil Amycolatopsis sp. MST-108494. J Antibiot (Tokyo) 2017; 70:1097-1103. [PMID: 29066791 DOI: 10.1038/ja.2017.119] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2017] [Revised: 08/25/2017] [Accepted: 09/04/2017] [Indexed: 11/09/2022]
Abstract
A southern Australian soil isolate, Amycolatopsis sp. MST-108494, was subjected to a panel of fermentation and media optimization trials, supported by analytical chemical profiling, to detect and enhance production of a rare class of secondary metabolites. Chemical fractionation of two complementary fermentations yielded three new polyketides, identified by detailed spectroscopic analysis as the glycosylated macrolactones, amycolatopsins A (1), B (2) and C (3), closely related to the ammocidins and apoptolidins. Amycolatopsins 1 and 3 selectively inhibited growth of Mycobacterium bovis (BCG) and Mycobacterium tuberculosis (H37Rv) when compared with other Gram-positive or Gram-negative bacteria, with 3 exhibiting low levels of cytotoxicity toward mammalian cells. Thus, our data reveal promising structure activity relationship correlations where the antimycobacterial properties of amycolatopsins are enhanced by hydroxylation of the 6-Me (that is, 1 and 3), whereas mammalian cytotoxicity is decreased by hydrolysis of the disaccharide moiety (that is, 3).
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