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Boukouvala S, Kontomina E, Olbasalis I, Patriarcheas D, Tzimotoudis D, Arvaniti K, Manolias A, Tsatiri MA, Basdani D, Zekkas S. Insights into the genomic and functional divergence of NAT gene family to serve microbial secondary metabolism. Sci Rep 2024; 14:14905. [PMID: 38942826 PMCID: PMC11213898 DOI: 10.1038/s41598-024-65342-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2024] [Accepted: 06/19/2024] [Indexed: 06/30/2024] Open
Abstract
Microbial NAT enzymes, which employ acyl-CoA to acylate aromatic amines and hydrazines, have been well-studied for their role in xenobiotic metabolism. Some homologues have also been linked to secondary metabolism, but this function of NAT enzymes is not as well-known. For this comparative study, we surveyed sequenced microbial genomes to update the list of formally annotated NAT genes, adding over 4000 new sequences (mainly bacterial, but also archaeal, fungal and protist) and portraying a broad but not universal distribution of NATs in the microbiocosmos. Localization of NAT sequences within microbial gene clusters was not a rare finding, and this association was evident across all main types of biosynthetic gene clusters (BGCs) implicated in secondary metabolism. Interrogation of the MIBiG database for experimentally characterized clusters with NAT genes further supports that secondary metabolism must be a major function for microbial NAT enzymes and should not be overlooked by researchers in the field. We also show that NAT sequences can be associated with bacterial plasmids potentially involved in horizontal gene transfer. Combined, our computational predictions and MIBiG literature findings reveal the extraordinary functional diversification of microbial NAT genes, prompting further research into their role in predicted BGCs with as yet uncharacterized function.
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Affiliation(s)
- Sotiria Boukouvala
- Department of Molecular Biology and Genetics, Democritus University of Thrace, 68100, Alexandroupolis, Greece.
| | - Evanthia Kontomina
- Department of Molecular Biology and Genetics, Democritus University of Thrace, 68100, Alexandroupolis, Greece
| | - Ioannis Olbasalis
- Department of Molecular Biology and Genetics, Democritus University of Thrace, 68100, Alexandroupolis, Greece
| | - Dionysios Patriarcheas
- Department of Molecular Biology and Genetics, Democritus University of Thrace, 68100, Alexandroupolis, Greece
| | - Dimosthenis Tzimotoudis
- Department of Molecular Biology and Genetics, Democritus University of Thrace, 68100, Alexandroupolis, Greece
| | - Konstantina Arvaniti
- Department of Molecular Biology and Genetics, Democritus University of Thrace, 68100, Alexandroupolis, Greece
| | - Aggelos Manolias
- Department of Molecular Biology and Genetics, Democritus University of Thrace, 68100, Alexandroupolis, Greece
| | - Maria-Aggeliki Tsatiri
- Department of Molecular Biology and Genetics, Democritus University of Thrace, 68100, Alexandroupolis, Greece
| | - Dimitra Basdani
- Department of Molecular Biology and Genetics, Democritus University of Thrace, 68100, Alexandroupolis, Greece
| | - Sokratis Zekkas
- Department of Molecular Biology and Genetics, Democritus University of Thrace, 68100, Alexandroupolis, Greece
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Mahmoud Mohamed MM, Yang Z, Lum KY, Peschel G, Rosenbaum MA, Weber T, Coriani S, Gotfredsen CH, Ding L. Genome-Driven Discovery of Hygrocins in Streptomyces rapamycinicus. JOURNAL OF NATURAL PRODUCTS 2024; 87:1321-1329. [PMID: 38647518 DOI: 10.1021/acs.jnatprod.3c00767] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/25/2024]
Abstract
Ansamycins, represented by the antituberculosis drug rifamycin, are an important family of natural products. To obtain new ansamycins, Streptomyces rapamycinicus IMET 43975 harboring an ansamycin biosynthetic gene cluster was fermented in a 50 L scale, and subsequent purification work led to the isolation of five known and four new analogues, where hygrocin W (2) belongs to benzoquinonoid ansamycins, and the other three hygrocins, hygrocins X-Z (6-8), are new seco-hygrocins. The structures of ansamycins (1-8) were determined by the analysis of spectroscopic (1D/2D NMR and ECD) and MS spectrometric data. The Baeyer-Villiger enzyme which catalyzed the ester formation in the ansa-ring was confirmed through in vivo CRISPR base editing. The discovery of these compounds further enriches the structural diversity of ansamycins.
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Affiliation(s)
- Manar Magdy Mahmoud Mohamed
- Department of Biotechnology and Biomedicine, Technical University of Denmark, Søltofts Plads 221, 2800 Kgs. Lyngby, Denmark
| | - Zhijie Yang
- Department of Biotechnology and Biomedicine, Technical University of Denmark, Søltofts Plads 221, 2800 Kgs. Lyngby, Denmark
| | - Kah Yean Lum
- Department of Biotechnology and Biomedicine, Technical University of Denmark, Søltofts Plads 221, 2800 Kgs. Lyngby, Denmark
| | - Gundela Peschel
- Leibniz Institute for Natural Product Research and Infection Biology - Hans-Knöll-Institute (HKI), Beutenbergstraße 11a, 07745 Jena, Germany
| | - Miriam A Rosenbaum
- Leibniz Institute for Natural Product Research and Infection Biology - Hans-Knöll-Institute (HKI), Beutenbergstraße 11a, 07745 Jena, Germany
| | - Tilmann Weber
- The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kemitorvet, Building 220, 2800 Kgs. Lyngby, Denmark
| | - Sonia Coriani
- Department of Chemistry, Technical University of Denmark, Kemitorvet Building 207, 2800 Kgs. Lyngby, Denmark
| | - Charlotte H Gotfredsen
- Department of Chemistry, Technical University of Denmark, Kemitorvet Building 207, 2800 Kgs. Lyngby, Denmark
| | - Ling Ding
- Department of Biotechnology and Biomedicine, Technical University of Denmark, Søltofts Plads 221, 2800 Kgs. Lyngby, Denmark
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Yi KX, Xie QY, Ma QY, Yang L, Dai HF, Zhao YX, Hao YE. Diverse ansamycin derivatives from the marine-derived Streptomyces sp. ZYX-F-97 and their antibacterial activities. Fitoterapia 2024; 173:105814. [PMID: 38163447 DOI: 10.1016/j.fitote.2023.105814] [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: 11/28/2023] [Revised: 12/29/2023] [Accepted: 12/29/2023] [Indexed: 01/03/2024]
Abstract
Four new ansamycin derivatives, named 1,19-epithio-geldanamycin A (1), 17-demethoxylherbimycin H (2), herbimycin M (3), and seco-geldanamycin B (4), together with eight known ansamycin analogues (5-12) were isolated from the solid fermentation of marine-derived actinomycete Streptomyces sp. ZYX-F-97. The structures of new compounds were elucidated by extensive spectroscopic analysis as well as nuclear magnetic resonance (NMR) and electronic circular dichroism (ECD) calculations. All the compounds were assayed for their antibacterial activity. Among them, compounds 4, 8, and 12 exhibited remarkable inhibition against Listeria monocytogenes with minimum inhibitory concentrations (MIC) values ranging from 8 μg·mL-1 to 64 μg·mL-1, and displayed moderate inhibition against methicillin-resistant Staphylococcus aureus (MRSA) with MIC value of 64 μg·mL-1. Compounds 4, 8, 9, and 12 showed moderate inhibition activities against both Staphylococcus aureus and Bacillus subtilis with MIC values ranging from 32 μg·mL-1 to 128 μg·mL-1.
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Affiliation(s)
- Ke-Xin Yi
- Department of Public Health Laboratory Sciences, School of Public Health, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China
| | - Qing-Yi Xie
- Haikou Key Laboratory for Research and Utilization of Tropical Natural Products & National Key Laboratory for Tropical Crop Breeding, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China
| | - Qing-Yun Ma
- Haikou Key Laboratory for Research and Utilization of Tropical Natural Products & National Key Laboratory for Tropical Crop Breeding, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China
| | - Li Yang
- Haikou Key Laboratory for Research and Utilization of Tropical Natural Products & National Key Laboratory for Tropical Crop Breeding, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China
| | - Hao-Fu Dai
- Haikou Key Laboratory for Research and Utilization of Tropical Natural Products & National Key Laboratory for Tropical Crop Breeding, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China
| | - You-Xing Zhao
- Haikou Key Laboratory for Research and Utilization of Tropical Natural Products & National Key Laboratory for Tropical Crop Breeding, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China.
| | - Yu-E Hao
- Department of Public Health Laboratory Sciences, School of Public Health, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.
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Liu Z, Sun W, Hu Z, Wang W, Zhang H. Marine Streptomyces-Derived Novel Alkaloids Discovered in the Past Decade. Mar Drugs 2024; 22:51. [PMID: 38276653 PMCID: PMC10821133 DOI: 10.3390/md22010051] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2023] [Revised: 01/21/2024] [Accepted: 01/21/2024] [Indexed: 01/27/2024] Open
Abstract
Natural alkaloids originating from actinomycetes and synthetic derivatives have always been among the important suppliers of small-molecule drugs. Among their biological sources, Streptomyces is the highest and most extensively researched genus. Marine-derived Streptomyces strains harbor unconventional metabolic pathways and have been demonstrated to be efficient producers of biologically active alkaloids; more than 60% of these compounds exhibit valuable activity such as antibacterial, antitumor, anti-inflammatory activities. This review comprehensively summarizes novel alkaloids produced by marine Streptomyces discovered in the past decade, focusing on their structural features, biological activity, and pharmacological mechanisms. Future perspectives on the discovery and development of novel alkaloids from marine Streptomyces are also provided.
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Affiliation(s)
| | | | | | | | - Huawei Zhang
- School of Pharmaceutical Sciences, Zhejiang University of Technology, Hangzhou 310014, China; (Z.L.); (W.S.); (Z.H.); (W.W.)
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Jha RK, Batabyal M, Kumar S. Blue Light Irradiated Metal-, Oxidant-, and Base-Free Cross-Dehydrogenative Coupling of C( sp2)-H and N-H Bonds: Amination of Naphthoquinones with Amines. J Org Chem 2023. [PMID: 37171187 DOI: 10.1021/acs.joc.3c00666] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/13/2023]
Abstract
Herein, we report a blue-light-driven amination of C(sp2)-H bond of naphthoquinones and quinones with the N-H bond of primary and secondary amines for the synthesis of 2-amino-naphthoquinones and 2-amino-quinones. The coupling of naphthoquinones with a wide array of aliphatic, aromatic, chiral, primary, and secondary amines having electron donating (-CH3, -OCH3, -SCH3), withdrawing (-F, -Cl, -Br, -I), and CO2H, -OH, -NH2 groups with acidic protons selectively occurred to afford C-N coupled 2-amino-naphthoquinones in 60-99% yields and hydrogen gas as a byproduct in methanol solvent without using any additional reagents, additives, and oxidant under the blue light irradiation. Mechanistic insight by DFT computation, controlled experiments, kinetic isotopic effect, and substitution effect of the substrates suggest that the reaction proceeds by radical pathway in which naphthoquinone forms a highly oxidizing naphthoquinonyl biradical upon irradiation of blue light (457 nm). Consequently, electron transfer from electron-rich amine to an oxidizing naphthoquinonyl biradical leads to a naphthoquinonyl radical anion and aminyl radical cation, followed by proton transfer and delocalization leading to a carbon-centered naphthoquinonyl radical. The cross-coupling of naphthoquinonyl carbon-centered and aminyl nitrogen radicals forms a C-N bond, with subsequent elimination of hydrogen gas (which was also confirmed by GC-TCD), affording 2-amino-1,4-naphthoquinone under metal-, reagent-, base-, and oxidant-free conditions.
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Affiliation(s)
- Raushan Kumar Jha
- Department of Chemistry, Indian Institute of Science Education and Research (IISER) Bhopal, Bhopal By-pass Road, Bhauri, Bhopal, Madhya Pradesh 462066, India
| | - Monojit Batabyal
- Department of Chemistry, Indian Institute of Science Education and Research (IISER) Bhopal, Bhopal By-pass Road, Bhauri, Bhopal, Madhya Pradesh 462066, India
| | - Sangit Kumar
- Department of Chemistry, Indian Institute of Science Education and Research (IISER) Bhopal, Bhopal By-pass Road, Bhauri, Bhopal, Madhya Pradesh 462066, India
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Skrzypczak N, Przybylski P. Modifications, biological origin and antibacterial activity of naphthalenoid ansamycins. Nat Prod Rep 2022; 39:1653-1677. [PMID: 35244668 DOI: 10.1039/d2np00002d] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Covering: 2011 to 2021Structural division of natural naphthalenoid ansamycins, regarding the type of the core and length of the ansa chain, and their biosynthetic pathways in microorganisms are discussed. The great biosynthetic plasticity of natural naphthalenoid ansamycins is reflected in their structural variety due to the alterations within ansa bridge or naphthalenoid core portions. A comparison between the biological potency of natural and semisynthetic naphthalenoid ansamycins was performed and discussed in relation to the molecular targets in cells. The antibacterial potency of naphthalenoid ansamycins seems to be dependent on the ansa chain length and conformational flexibility - the higher flexibility of the ansa chain the better biological outcome is noted.
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Affiliation(s)
- Natalia Skrzypczak
- Faculty of Chemistry, Adam Mickiewicz University, Uniwersytetu Poznanskiego 8, 61-614 Poznan, Poland.
| | - Piotr Przybylski
- Faculty of Chemistry, Adam Mickiewicz University, Uniwersytetu Poznanskiego 8, 61-614 Poznan, Poland.
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Comparative Genomics Reveals a Remarkable Biosynthetic Potential of the Streptomyces Phylogenetic Lineage Associated with Rugose-Ornamented Spores. mSystems 2021; 6:e0048921. [PMID: 34427515 PMCID: PMC8407293 DOI: 10.1128/msystems.00489-21] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
The genus Streptomyces is one of the richest sources of secondary metabolite biosynthetic gene clusters (BGCs). Sequencing of a large number of genomes has provided evidence that this well-known bacterial genus still harbors a large number of cryptic BGCs, and their metabolites are yet to be discovered. When taking a gene-first approach for new natural product discovery, BGC prioritization would be the most crucial step for the discovery of novel chemotypes. We hypothesized that strains with a greater number of BGCs would also contain a greater number of silent unique BGCs due to the presence of complex regulatory systems. Based on this hypothesis, we employed a comparative genomics approach to identify a specific Streptomyces phylogenetic lineage with the highest and yet-uncharacterized biosynthetic potential. A comparison of BGC abundance and genome size across 158 phylogenetically diverse Streptomyces type strains identified that members of the phylogenetic group characterized by the formation of rugose-ornamented spores possess the greatest number of BGCs (average, 50 BGCs) and also the largest genomes (average, 11.5 Mb). The study of genetic and biosynthetic diversities using comparative genomics of 11 sequenced genomes and a genetic similarity network analysis of BGCs suggested that members of this group carry a large number of unique BGCs, the majority of which are cryptic and not associated with any known natural product. We believe that members of this Streptomyces phylogenetic group possess a remarkable biosynthetic potential and thus would be a good target for a metabolite characterization study that could lead to the discovery of novel chemotypes. IMPORTANCE It is now well recognized that members of the genus Streptomyces still harbor a large number of cryptic BGCs in their genomes, which are mostly silent under laboratory culture conditions. Activation of transcriptionally silent BGCs is technically challenging and thus forms a bottleneck when taking a gene-first approach for the discovery of new natural products. Thus, it is important to focus activation efforts on strains with BGCs that have the potential to produce novel metabolites. The clade-level analysis of biosynthetic diversity could provide insights into the relationship between phylogenetic lineage and biosynthetic diversity. By exploring BGC abundance in relation to Streptomyces phylogeny, we identified a specific monophyletic lineage associated with the highest BGC abundance. Then, using a combined analysis of comparative genomics and a genetic network, we demonstrated that members of this lineage are genetically and biosynthetically diverse, contain a large number of cryptic BGCs with novel genotypes, and thus would be a good target for metabolite characterization studies.
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8
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Liu SH, Wei YY, Xing YN, Chen Y, Wang W, Wang KB, Liang Y, Jiao RH, Zhang B, Ge HM. A BBE-like Oxidase, AsmF, Dictates the Formation of Naphthalenic Hydroxyl Groups in Ansaseomycin Biosynthesis. Org Lett 2021; 23:3724-3728. [PMID: 33877854 DOI: 10.1021/acs.orglett.1c01101] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Ansaseomycins are ansamycin-type natural products produced through expression of the asm gene cluster in a heterologous host. A rare berberine bridge enzyme (BBE) like oxidase, AsmF, is encoded in the asm gene cluster. Deletion of asmF led to the accumulation of a series of structurally diverse compounds, all of which lacked the 23-hydroxyl group in naphthalenic motif. Our work demonstrated that AsmF dictated the formation of the naphthalenic hydroxyl group in ansaseomycin biosynthesis.
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Affiliation(s)
- Shuang He Liu
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, Chemistry and Biomedicine Innovation Center, School of Life Sciences, Nanjing University, Nanjing 210023, China
| | - Yuan Yuan Wei
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, Chemistry and Biomedicine Innovation Center, School of Life Sciences, Nanjing University, Nanjing 210023, China
| | - Yin Nan Xing
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, Chemistry and Biomedicine Innovation Center, School of Life Sciences, Nanjing University, Nanjing 210023, China
| | - Yu Chen
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, Chemistry and Biomedicine Innovation Center, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China
| | - Wen Wang
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, Chemistry and Biomedicine Innovation Center, School of Life Sciences, Nanjing University, Nanjing 210023, China
| | - Kai Biao Wang
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, Chemistry and Biomedicine Innovation Center, School of Life Sciences, Nanjing University, Nanjing 210023, China
| | - Yong Liang
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, Chemistry and Biomedicine Innovation Center, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China
| | - Rui Hua Jiao
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, Chemistry and Biomedicine Innovation Center, School of Life Sciences, Nanjing University, Nanjing 210023, China
| | - Bo Zhang
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, Chemistry and Biomedicine Innovation Center, School of Life Sciences, Nanjing University, Nanjing 210023, China
| | - Hui Ming Ge
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, Chemistry and Biomedicine Innovation Center, School of Life Sciences, Nanjing University, Nanjing 210023, China
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9
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DAI LP, WANG ZS, WANG HX, LU CH, SHEN YM. Shunt products of aminoansamycins from aas1 overexpressed mutant strain of Streptomyces sp. S35. Chin J Nat Med 2020; 18:952-956. [DOI: 10.1016/s1875-5364(20)60039-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2020] [Indexed: 11/30/2022]
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10
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Zhang C, Zhang H, Ju J. On-PKS Baeyer-Villiger-Type O-Atom Insertion Catalyzed by Luciferase-Like Monooxygenase OvmO during Olimycin Biosynthesis. Org Lett 2020; 22:1780-1784. [PMID: 32073277 DOI: 10.1021/acs.orglett.0c00076] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
A silent ansamycin biosynthetic gene cluster (ovm) was activated in Streptomyces olivaceus SCSIO T05 following mutagenesis and media optimization. A new shunt product, olimycin C (1a) was produced by the ovmO-inactivated mutant strain, along with a minor product, olimycin D (1b). The production of these linear olimycin counterparts suggest that luciferase-like monooxygenase (LLM) OvmO catalyzes an on-PKS Baeyer-Villiger-type oxidation during assembly of the olimycin A (2) linear polyketide backbone.
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Affiliation(s)
- Chunyan Zhang
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100050, China.,CAS Key Laboratory of Tropical Marine Bio-Resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 164 West Xingang Road, Guangzhou 510301, China
| | - Huaran Zhang
- CAS Key Laboratory of Tropical Marine Bio-Resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 164 West Xingang Road, Guangzhou 510301, China.,College of Oceanology, University of Chinese Academy of Sciences, 19 Yuquan Road, Beijing 100049, China
| | - Jianhua Ju
- CAS Key Laboratory of Tropical Marine Bio-Resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 164 West Xingang Road, Guangzhou 510301, China.,College of Oceanology, University of Chinese Academy of Sciences, 19 Yuquan Road, Beijing 100049, China
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11
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Ji X, Tu J, Song Y, Zhang C, Wang L, Li Q, Ju J. A Luciferase-Like Monooxygenase and Flavin Reductase Pair AbmE2/AbmZ Catalyzes Baeyer–Villiger Oxidation in Neoabyssomicin Biosynthesis. ACS Catal 2020. [DOI: 10.1021/acscatal.9b05488] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Xiaoqi Ji
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 164 West Xingang Road, Guangzhou 510301, China
- College of Oceanology, University of Chinese Academy of Sciences, 19 Yuquan Road, Beijing 100049, China
| | - Jiajia Tu
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 164 West Xingang Road, Guangzhou 510301, China
| | - Yongxiang Song
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 164 West Xingang Road, Guangzhou 510301, China
| | - Chunyan Zhang
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 164 West Xingang Road, Guangzhou 510301, China
| | - Liyan Wang
- College of Life Sciences and Oceanography, Shenzhen University, 3688 Nanhai Ave., Shenzhen 518060, China
| | - Qinglian Li
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 164 West Xingang Road, Guangzhou 510301, China
| | - Jianhua Ju
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 164 West Xingang Road, Guangzhou 510301, China
- College of Oceanology, University of Chinese Academy of Sciences, 19 Yuquan Road, Beijing 100049, China
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12
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Construction and application of a "superplasmid" for enhanced production of antibiotics. Appl Microbiol Biotechnol 2019; 104:1647-1660. [PMID: 31853567 DOI: 10.1007/s00253-019-10283-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2019] [Revised: 11/20/2019] [Accepted: 11/26/2019] [Indexed: 10/25/2022]
Abstract
More than two-third of known antibiotics are produced by actinomycetes of the genus Streptomyces. Unfortunately, the production rate from Streptomyces natural antibiotic is extremely slow and thus cannot satisfy industrial demand. In this study, the production of antibiotics by Streptomyces is enhanced by a "superplasmid" which including global regulatory factors afsR, cyclic adenosine receptor protein (CRP), RNA polymerase beta subunits (rpoB) with point mutation and acetyl coenzyme A carboxylase gene (accA2BE), these elements are controlled by the PermE* promoter and then transfer into Streptomyces coelicolor M145, Streptomyces mutabilis TRM45540, Streptomyces hygroscopicus XM201, and Streptomyces hygroscopicus ATCC29253 by conjugation to generate exconjugants. NMR, HPLC, and LC-MS analyses revealed that the superplasmid led to the overproduction of actinorhodin (101.90%), undecylprodigiosin (181.60%) in S. coelicolor M145:: pLQ003, of rapamycin (110%), hygrocin A (163.4%) in S. hygroscopicus ATCC29253:: pLQ003, and of actinomycin D (11.78%) in S. mutabilis TRM45540:: pLQ003, and also to the downregulation of geldanamycin in S. hygroscopicus XM201, but we found that mutant strains in mutant strains of S. hygroscopicus XM201 with regulatory factors inserted showed several peaks that were not found in wild-type strains. The results of the present work indicated that the regulator net working in Streptomyces was not uniform, the superplasmid we constructed possibly caused this overproduction and downregulation in different Streptomyces.
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13
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da Silva AB, Silveira ER, Wilke DV, Ferreira EG, Costa-Lotufo LV, Torres MCM, Ayala AP, Costa WS, Canuto KM, de Araújo-Nobre AR, Araújo AJ, Filho JDBM, Pessoa ODL. Antibacterial Salinaphthoquinones from a Strain of the Bacterium Salinispora arenicola Recovered from the Marine Sediments of St. Peter and St. Paul Archipelago, Brazil. JOURNAL OF NATURAL PRODUCTS 2019; 82:1831-1838. [PMID: 31313922 DOI: 10.1021/acs.jnatprod.9b00062] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/14/2023]
Abstract
Salinaphthoquinones A-E (1-5) were isolated from a marine Salininispora arenicola strain, recovered from sediments of the St. Peter and St. Paul Archipelago, Brazil. The structures of the compounds were elucidated using a combination of spectroscopic (NMR, IR, HRESIMS) data, including single-crystal X-ray diffraction analysis. A plausible biosynthetic pathway for 1-5 is proposed. Compounds 1 to 4 displayed moderate activity against Staphylococcus aureus and Enterococcus faecalis with MIC values of 125 to 16 μg/mL.
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Affiliation(s)
- Alison B da Silva
- Departamento de Química Orgânica e Inorgânica , Universidade Federal do Ceará , 60.021-970 , Fortaleza - CE , Brazil
| | - Edilberto R Silveira
- Departamento de Química Orgânica e Inorgânica , Universidade Federal do Ceará , 60.021-970 , Fortaleza - CE , Brazil
| | - Diego V Wilke
- Núcleo de Pesquisa e Desenvolvimento de Medicamentos , Universidade Federal do Ceará , 60.430-275 , Fortaleza - CE , Brazil
| | - Elhton G Ferreira
- Núcleo de Pesquisa e Desenvolvimento de Medicamentos , Universidade Federal do Ceará , 60.430-275 , Fortaleza - CE , Brazil
| | - Leticia V Costa-Lotufo
- Departamento de Farmacologia , Universidade de São Paulo , 05508-900 , São Paulo - SP , Brazil
| | - Maria Conceição M Torres
- Departamento de Química Orgânica e Inorgânica , Universidade Federal do Ceará , 60.021-970 , Fortaleza - CE , Brazil
| | - Alejandro Pedro Ayala
- Departamento de Física , Universidade Federal do Ceará , 60.440-970 , Fortaleza - CE , Brazil
| | - Wendell S Costa
- Departamento de Farmácia , Universidade Federal do Ceará , 60.430-170 , Fortaleza - CE , Brazil
| | - Kirley M Canuto
- Embrapa Agroindústria Tropical , 60.511-110 , Fortaleza - CE , Brazil
| | - Alyne R de Araújo-Nobre
- Núcleo de Pesquisa em Biodiversidade e Biotecnologia , Universidade Federal do Piauí , 64.202-020 , Parnaíba - PI , Brazil
| | - Ana Jérsia Araújo
- Núcleo de Pesquisa em Biodiversidade e Biotecnologia , Universidade Federal do Piauí , 64.202-020 , Parnaíba - PI , Brazil
| | - José Delano B Marinho Filho
- Núcleo de Pesquisa em Biodiversidade e Biotecnologia , Universidade Federal do Piauí , 64.202-020 , Parnaíba - PI , Brazil
| | - Otilia Deusdenia L Pessoa
- Departamento de Química Orgânica e Inorgânica , Universidade Federal do Ceará , 60.021-970 , Fortaleza - CE , Brazil
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14
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Liu M, Shi P, Lu C, Zhong L. Isolation and Identification of Secondary Metabolites FromStreptomycessp. SP301. Nat Prod Commun 2019. [DOI: 10.1177/1934578x19861791] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
Seven compounds, namely aminobenzoates A to D (1-4), naphthalenecarboxylates A and B (5-6), and glycosylatelactone A (7), were isolated from the fermentation medium of Streptomyces sp. SP301. Of these, aminobenzoates C and D (3-4), naphthalenecarboxylate B (6), and glycosylatelactone A (7) are new compounds. Aminobenzoates A to D (1-4) shared a common aromatic starter unit, para-aminobenzoic acid , and biosynthesis involving a different pathway. The structures were elucidated on the basis of 1D- and 2D-Nuclear Magnetic Resonance (NMR) spectroscopy and HR-ESIMS analysis.
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Affiliation(s)
- Mengyujie Liu
- Department of Pharmacy, Qilu Hospital of Shandong University, Jinan, P.R. China
| | - Peng Shi
- Key Laboratory of Microbial Technology, Shandong University, Qingdao, P.R. China
| | - Chunhua Lu
- Key Laboratory of Chemical Biology (Ministry of Education), School of Pharmaceutical Science, Shandong University, Jinan, P.R. China
| | - Lihong Zhong
- Department of Pharmacy, Qilu Hospital of Shandong University, Jinan, P.R. China
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15
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Liu SH, Wang W, Wang KB, Zhang B, Li W, Shi J, Jiao RH, Tan RX, Ge HM. Heterologous Expression of a Cryptic Giant Type I PKS Gene Cluster Leads to the Production of Ansaseomycin. Org Lett 2019; 21:3785-3788. [DOI: 10.1021/acs.orglett.9b01237] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Affiliation(s)
- Shuang He Liu
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, School of Life Sciences, Nanjing University, Nanjing 210023, China
| | - Wen Wang
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, School of Life Sciences, Nanjing University, Nanjing 210023, China
| | - Kai Biao Wang
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, School of Life Sciences, Nanjing University, Nanjing 210023, China
| | - Bo Zhang
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, School of Life Sciences, Nanjing University, Nanjing 210023, China
| | - Wei Li
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, School of Life Sciences, Nanjing University, Nanjing 210023, China
| | - Jing Shi
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, School of Life Sciences, Nanjing University, Nanjing 210023, China
| | - Rui Hua Jiao
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, School of Life Sciences, Nanjing University, Nanjing 210023, China
| | - Ren Xiang Tan
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, School of Life Sciences, Nanjing University, Nanjing 210023, China
- State Key Laboratory Cultivation Base for TCM Quality and Efficacy, Nanjing University of Chinese Medicine, Nanjing 210023, China
| | - Hui Ming Ge
- State Key Laboratory of Pharmaceutical Biotechnology, Institute of Functional Biomolecules, School of Life Sciences, Nanjing University, Nanjing 210023, China
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16
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Abstract
Enzymes that catalyze a Michael-type addition in polyketide biosynthesis are summarized and discussed.
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Affiliation(s)
- Akimasa Miyanaga
- Department of Chemistry
- Tokyo Institute of Technology
- Tokyo 152-8551
- Japan
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17
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Li Z, Zhu D, Shen Y. Discovery of novel bioactive natural products driven by genome mining. Drug Discov Ther 2018; 12:318-328. [DOI: 10.5582/ddt.2018.01066] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Zhongyue Li
- Key Laboratory of Chemical Biology, School of Pharmaceutical Sciences, Shandong University
| | - Deyu Zhu
- School of Basic Medical Sciences, Shandong University
| | - Yuemao Shen
- Key Laboratory of Chemical Biology, School of Pharmaceutical Sciences, Shandong University
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18
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Zhang C, Sun C, Huang H, Gui C, Wang L, Li Q, Ju J. Biosynthetic Baeyer-Villiger Chemistry Enables Access to Two Anthracene Scaffolds from a Single Gene Cluster in Deep-Sea-Derived Streptomyces olivaceus SCSIO T05. JOURNAL OF NATURAL PRODUCTS 2018; 81:1570-1577. [PMID: 30015485 DOI: 10.1021/acs.jnatprod.8b00077] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Four known compounds, rishirilide B (1), rishirilide C (2), lupinacidin A (3), and galvaquinone B (4), representing two anthracene scaffolds typical of aromatic polyketides, were isolated from a culture of the deep-sea-derived Streptomyces olivaceus SCSIO T05. From the S. olivaceus producer was cloned and sequenced the rsd biosynthetic gene cluster (BGC) that drives rishirilide biosynthesis. The structural gene rsdK2 inactivation and heterologous expression of the rsd BGC confirmed the single rsd BGC encodes construction of 1-4 and, thus, accounts for two anthracene scaffolds. Precursor incubation experiments with 13C-labeled acetate revealed that a Baeyer-Villiger-type rearrangement plays a central role in construction of 1-4. Two luciferase monooxygenase components, along with a reductase component, are presumably involved in the Baeyer-Villiger-type rearrangement reaction enabling access to the two anthracene scaffold variants. Engineering of the rsd BGC unveiled three SARP family transcriptional regulators, enhancing anthracene production. Inactivation of rsdR4, a MarR family transcriptional regulator, failed to impact production of 1-4, although production of 3 was slightly improved; most importantly rsdR4 inactivation led to the new adduct 6 in high titer. Notably, inactivation of rsdH, a putative amidohydrolase, substantially improved the overall titers of 1-4 by more than 4-fold.
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Affiliation(s)
- Chunyan Zhang
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology , South China Sea Institute of Oceanology, Chinese Academy of Sciences , 164 West Xingang Road , Guangzhou , 510301 , People's Republic of China
- University of Chinese Academy of Sciences , 19 Yuquan Road , Beijing , 100049 , People's Republic of China
| | - Changli Sun
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology , South China Sea Institute of Oceanology, Chinese Academy of Sciences , 164 West Xingang Road , Guangzhou , 510301 , People's Republic of China
| | - Hongbo Huang
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology , South China Sea Institute of Oceanology, Chinese Academy of Sciences , 164 West Xingang Road , Guangzhou , 510301 , People's Republic of China
| | - Chun Gui
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology , South China Sea Institute of Oceanology, Chinese Academy of Sciences , 164 West Xingang Road , Guangzhou , 510301 , People's Republic of China
- University of Chinese Academy of Sciences , 19 Yuquan Road , Beijing , 100049 , People's Republic of China
| | - Liyan Wang
- College of Life Sciences and Oceanology, Shenzhen Key Laboratory of Marine Bioresource and Eco-environmental Science , Shenzhen University , 3688 Nanhai Avenue , Shenzhen , 518060 , People's Republic of China
| | - Qinglian Li
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology , South China Sea Institute of Oceanology, Chinese Academy of Sciences , 164 West Xingang Road , Guangzhou , 510301 , People's Republic of China
| | - Jianhua Ju
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology , South China Sea Institute of Oceanology, Chinese Academy of Sciences , 164 West Xingang Road , Guangzhou , 510301 , People's Republic of China
- University of Chinese Academy of Sciences , 19 Yuquan Road , Beijing , 100049 , People's Republic of China
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19
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You H, Vegi SR, Lagishetti C, Chen S, Reddy RS, Yang X, Guo J, Wang C, He Y. Synthesis of Bioactive 3,4-Dihydro-2H-naphtho[2,3-b][1,4]oxazine-5,10-dione and 2,3,4,5-Tetrahydro-1H-naphtho[2,3-b]azepine-6,11-dione Derivatives via the Copper-Catalyzed Intramolecular Coupling Reaction. J Org Chem 2018; 83:4119-4130. [DOI: 10.1021/acs.joc.8b00020] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Hengyao You
- School of Pharmaceutical Sciences and Chongqing Key Laboratory of Natural Drug Research, Chongqing University, 55 Daxuecheng South Road, Shapingba, Chongqing City, 401331, P.R. China
| | - Srinivas Rao Vegi
- School of Pharmaceutical Sciences and Chongqing Key Laboratory of Natural Drug Research, Chongqing University, 55 Daxuecheng South Road, Shapingba, Chongqing City, 401331, P.R. China
| | - Chandraiah Lagishetti
- School of Pharmaceutical Sciences and Chongqing Key Laboratory of Natural Drug Research, Chongqing University, 55 Daxuecheng South Road, Shapingba, Chongqing City, 401331, P.R. China
| | - Shuo Chen
- School of Pharmaceutical Sciences and Chongqing Key Laboratory of Natural Drug Research, Chongqing University, 55 Daxuecheng South Road, Shapingba, Chongqing City, 401331, P.R. China
| | - R. Santhosh Reddy
- School of Pharmaceutical Sciences and Chongqing Key Laboratory of Natural Drug Research, Chongqing University, 55 Daxuecheng South Road, Shapingba, Chongqing City, 401331, P.R. China
| | - Xiaohong Yang
- School of Pharmaceutical Sciences and Chongqing Key Laboratory of Natural Drug Research, Chongqing University, 55 Daxuecheng South Road, Shapingba, Chongqing City, 401331, P.R. China
| | - Jian Guo
- School of Pharmaceutical Sciences and Chongqing Key Laboratory of Natural Drug Research, Chongqing University, 55 Daxuecheng South Road, Shapingba, Chongqing City, 401331, P.R. China
| | - Chenhui Wang
- School of Pharmaceutical Sciences and Chongqing Key Laboratory of Natural Drug Research, Chongqing University, 55 Daxuecheng South Road, Shapingba, Chongqing City, 401331, P.R. China
| | - Yun He
- School of Pharmaceutical Sciences and Chongqing Key Laboratory of Natural Drug Research, Chongqing University, 55 Daxuecheng South Road, Shapingba, Chongqing City, 401331, P.R. China
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20
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Affiliation(s)
- Daniel W. Terwilliger
- Department
of Chemistry, Ludwig-Maximilians University Munich, Butenandtstraße
5-13, 81377 Munich, Germany
| | - Dirk Trauner
- Department
of Chemistry, Ludwig-Maximilians University Munich, Butenandtstraße
5-13, 81377 Munich, Germany
- Department
of Chemistry, New York University, 100 Washington Square East, Room
712, New York, 10003, United States
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21
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Sun C, Zhang C, Qin X, Wei X, Liu Q, Li Q, Ju J. Genome mining of Streptomyces olivaceus SCSIO T05: Discovery of olimycins A and B and assignment of absolute configurations. Tetrahedron 2018. [DOI: 10.1016/j.tet.2017.11.069] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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22
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Li XM, Li XM, Lu CH. Abscisic acid-type sesquiterpenes and ansamycins from Amycolatopsis alba DSM 44262. JOURNAL OF ASIAN NATURAL PRODUCTS RESEARCH 2017; 19:946-953. [PMID: 28276761 DOI: 10.1080/10286020.2017.1285909] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/11/2016] [Accepted: 01/17/2017] [Indexed: 06/06/2023]
Abstract
Two new abscisic acid-type sesquiterpenes (1, 2), and one new ansamycin (3), together with four known ansamycins, namely ansacarbamitocins 4-7, were isolated from the fermentation extract of Amycolatopsis alba DSM 44262. The structures of the new compounds were elucidated to be (E)-3-methyl-5-(2,6,6-trimethyl-3-oxocyclohex-1-enyl)pent-2-enoic acid (1) and (E)-3-methyl-5-(2,6,6-trimethyl-4-oxocyclohex-2-enyl)pent-2-enoic acid (2), and 9-O-methylansacarbamitocin A1 (3), on the basis of comprehensive analysis of spectroscopic data, respectively. The antimicrobial activities were also evaluated for all seven compounds.
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Affiliation(s)
- Xiao-Mei Li
- a Key Laboratory of Chemical Biology (Ministry of Education) , School of Pharmaceutical Sciences, Shandong University , Jinan , China
| | - Xiao-Man Li
- a Key Laboratory of Chemical Biology (Ministry of Education) , School of Pharmaceutical Sciences, Shandong University , Jinan , China
| | - Chun-Hua Lu
- a Key Laboratory of Chemical Biology (Ministry of Education) , School of Pharmaceutical Sciences, Shandong University , Jinan , China
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23
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The complete genome sequence of Streptomyces autolyticus CGMCC 0516, the producer of geldanamycin, autolytimycin, reblastatin and elaiophylin. J Biotechnol 2017; 252:27-31. [DOI: 10.1016/j.jbiotec.2017.04.037] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2017] [Revised: 04/29/2017] [Accepted: 04/29/2017] [Indexed: 12/23/2022]
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24
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Zhang J, Li S, Wu X, Guo Z, Lu C, Shen Y. Nam7 Hydroxylase Is Responsible for the Formation of the Naphthalenic Ring in the Biosynthesis of Neoansamycins. Org Lett 2017; 19:2442-2445. [PMID: 28441026 DOI: 10.1021/acs.orglett.7b01083] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Affiliation(s)
- Juanli Zhang
- Key
Laboratory of Chemical Biology (Ministry of Education), School of
Pharmaceutical Sciences, Shandong University, Jinan, Shandong 250012, P. R. China
- Department
of Pharmacy, Xijing Hospital, The Fourth Military Medical University, Changle West Street 15, Xi’an, Shaanxi 710032, P. R. China
| | - Shanren Li
- Key
Laboratory of Chemical Biology (Ministry of Education), School of
Pharmaceutical Sciences, Shandong University, Jinan, Shandong 250012, P. R. China
| | - Xingkang Wu
- Key
Laboratory of Chemical Biology (Ministry of Education), School of
Pharmaceutical Sciences, Shandong University, Jinan, Shandong 250012, P. R. China
| | - Zhixing Guo
- Key
Laboratory of Chemical Biology (Ministry of Education), School of
Pharmaceutical Sciences, Shandong University, Jinan, Shandong 250012, P. R. China
| | - Chunhua Lu
- Key
Laboratory of Chemical Biology (Ministry of Education), School of
Pharmaceutical Sciences, Shandong University, Jinan, Shandong 250012, P. R. China
| | - Yuemao Shen
- Key
Laboratory of Chemical Biology (Ministry of Education), School of
Pharmaceutical Sciences, Shandong University, Jinan, Shandong 250012, P. R. China
- State
Key Laboratory of Microbial Technology, Shandong University, Jinan, Shandong 250100, P. R. China
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25
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Abstract
The enzymology of 135 assembly lines containing primarily cis-acyltransferase modules is comprehensively analyzed, with greater attention paid to less common phenomena. Diverse online transformations, in which the substrate and/or product of the reaction is an acyl chain bound to an acyl carrier protein, are classified so that unusual reactions can be compared and underlying assembly-line logic can emerge. As a complement to the chemistry surrounding the loading, extension, and offloading of assembly lines that construct primarily polyketide products, structural aspects of the assembly-line machinery itself are considered. This review of assembly-line phenomena, covering the literature up to 2017, should thus be informative to the modular polyketide synthase novice and expert alike.
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Affiliation(s)
- Adrian T Keatinge-Clay
- Department of Molecular Biosciences, The University of Texas at Austin , Austin, Texas 78712, United States
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26
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Lin CI, McCarty RM, Liu HW. The Enzymology of Organic Transformations: A Survey of Name Reactions in Biological Systems. Angew Chem Int Ed Engl 2017; 56:3446-3489. [PMID: 27505692 PMCID: PMC5477795 DOI: 10.1002/anie.201603291] [Citation(s) in RCA: 46] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2016] [Indexed: 01/05/2023]
Abstract
Chemical reactions that are named in honor of their true, or at least perceived, discoverers are known as "name reactions". This Review is a collection of biological representatives of named chemical reactions. Emphasis is placed on reaction types and catalytic mechanisms that showcase both the chemical diversity in natural product biosynthesis as well as the parallels with synthetic organic chemistry. An attempt has been made, whenever possible, to describe the enzymatic mechanisms of catalysis within the context of their synthetic counterparts and to discuss the mechanistic hypotheses for those reactions that are currently active areas of investigation. This Review has been categorized by reaction type, for example condensation, nucleophilic addition, reduction and oxidation, substitution, carboxylation, radical-mediated, and rearrangements, which are subdivided by name reactions.
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Affiliation(s)
- Chia-I Lin
- Division of Chemical Biology and Medicinal Chemistry, College of Pharmacy, and Department of Chemistry, University of Texas at Austin, Austin, TX, 78731, USA
| | - Reid M McCarty
- Division of Chemical Biology and Medicinal Chemistry, College of Pharmacy, and Department of Chemistry, University of Texas at Austin, Austin, TX, 78731, USA
| | - Hung-Wen Liu
- Division of Chemical Biology and Medicinal Chemistry, College of Pharmacy, and Department of Chemistry, University of Texas at Austin, Austin, TX, 78731, USA
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27
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Lin C, McCarty RM, Liu H. Die Enzymologie organischer Umwandlungen: Namensreaktionen in biologischen Systemen. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201603291] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Affiliation(s)
- Chia‐I. Lin
- Division of Chemical Biology and Medicinal Chemistry College of Pharmacy, and Department of Chemistry University of Texas at Austin Austin TX 78731 USA
| | - Reid M. McCarty
- Division of Chemical Biology and Medicinal Chemistry College of Pharmacy, and Department of Chemistry University of Texas at Austin Austin TX 78731 USA
| | - Hung‐wen Liu
- Division of Chemical Biology and Medicinal Chemistry College of Pharmacy, and Department of Chemistry University of Texas at Austin Austin TX 78731 USA
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28
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Abstract
Neoansamycins D–I with unusual extender units and diverse post-PKS modifications were isolated from the Streptomyces sp. SR201nam1OE strain.
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Affiliation(s)
- Mengyujie Liu
- Key Laboratory of Chemical Biology (Ministry of Education)
- School of Pharmaceutical Sciences
- Shandong University
- Jinan
- P. R. China
| | - Chunhua Lu
- Key Laboratory of Chemical Biology (Ministry of Education)
- School of Pharmaceutical Sciences
- Shandong University
- Jinan
- P. R. China
| | - Ruocong Tang
- State Key Laboratory of Microbial Technology
- Shandong University
- Jinan
- P. R. China
| | - Shanren Li
- Key Laboratory of Chemical Biology (Ministry of Education)
- School of Pharmaceutical Sciences
- Shandong University
- Jinan
- P. R. China
| | - Haoxin Wang
- State Key Laboratory of Microbial Technology
- Shandong University
- Jinan
- P. R. China
| | - Yuemao Shen
- Key Laboratory of Chemical Biology (Ministry of Education)
- School of Pharmaceutical Sciences
- Shandong University
- Jinan
- P. R. China
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29
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Draft Genome Sequence of Streptomyces sp. SPMA113, a Prajinamide Producer. GENOME ANNOUNCEMENTS 2016; 4:4/5/e01126-16. [PMID: 27738040 PMCID: PMC5064113 DOI: 10.1128/genomea.01126-16] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
We report here the draft genome sequence of Streptomyces sp. SPMA113 isolated from soil in Thailand. This strain produces a new modified peptide, prajinamide, which has adipocyte differentiation activity. The genome harbors at least 30 gene clusters for synthases of polyketide and nonribosomal peptide, suggesting its potential to produce diverse secondary metabolites.
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30
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Li S, Li Y, Lu C, Zhang J, Zhu J, Wang H, Shen Y. Activating a Cryptic Ansamycin Biosynthetic Gene Cluster To Produce Three New Naphthalenic Octaketide Ansamycins with n-Pentyl and n-Butyl Side Chains. Org Lett 2015; 17:3706-9. [PMID: 26167742 DOI: 10.1021/acs.orglett.5b01686] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
Genome mining is a rational approach to discovering new natural products. The genome sequence analysis of Streptomyces sp. LZ35 revealed the presence of a putative ansamycin gene cluster (nam). Constitutive overexpression of the pathway-specific transcriptional regulatory gene nam1 successfully activated the nam gene cluster, and three novel naphthalenic octaketide ansamycins were discovered with unprecedented n-pentylmalonyl-CoA or n-butylmalonyl-CoA extender units. This study represents the first example of discovering novel ansamycin scaffolds via activation of a cryptic gene cluster.
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Affiliation(s)
- Shanren Li
- †Key Laboratory of Chemical Biology (Ministry of Education), School of Pharmaceutical Sciences, Shandong University, Jinan, Shandong 250012, P. R. China
| | - Yaoyao Li
- †Key Laboratory of Chemical Biology (Ministry of Education), School of Pharmaceutical Sciences, Shandong University, Jinan, Shandong 250012, P. R. China
| | - Chunhua Lu
- †Key Laboratory of Chemical Biology (Ministry of Education), School of Pharmaceutical Sciences, Shandong University, Jinan, Shandong 250012, P. R. China
| | - Juanli Zhang
- †Key Laboratory of Chemical Biology (Ministry of Education), School of Pharmaceutical Sciences, Shandong University, Jinan, Shandong 250012, P. R. China
| | - Jing Zhu
- ‡State Key Laboratory of Microbial Technology, School of Life Sciences, Shandong University, Jinan, Shandong 250100, P. R. China
| | - Haoxin Wang
- ‡State Key Laboratory of Microbial Technology, School of Life Sciences, Shandong University, Jinan, Shandong 250100, P. R. China
| | - Yuemao Shen
- †Key Laboratory of Chemical Biology (Ministry of Education), School of Pharmaceutical Sciences, Shandong University, Jinan, Shandong 250012, P. R. China.,‡State Key Laboratory of Microbial Technology, School of Life Sciences, Shandong University, Jinan, Shandong 250100, P. R. China
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31
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Deng JJ, Lu CH. Two new isoflavone 7-O-α-4″-anhydro-4″,5″-didehydroglucuronides from Streptomyces sp. LZ35ΔgdmAI. Nat Prod Res 2015; 30:180-4. [PMID: 26135058 DOI: 10.1080/14786419.2015.1046869] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2015] [Accepted: 04/23/2015] [Indexed: 10/23/2022]
Abstract
Two isoflavone 7-O-α-4″-anhydro-4″,5″-didehydroglucuronides, namely daidzein 7-O-α-4″-anhydro-4″,5″-didehydroglucuronide (1) and genistein 7-O-α-4″-anhydro-4″,5″-didehydroglucuronide (2), were isolated and identified from the mutant strain of Streptomyces sp. LZ35ΔgdmAI. Their structures were elucidated by the analysis of their high resolution mass spectrometry (HR-MS) and 1D, 2D Nuclear magnetic Resonance (NMR) spectroscopic data. They are new natural products and maybe the transformed products of the soybean meal by Streptomyces sp. LZ35ΔgdmAI.
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Affiliation(s)
- Jing-Jing Deng
- a Key Laboratory of Chemical Biology (Ministry of Education), School of Pharmaceutical Sciences, Shandong University , No. 44 West Wenhua Road, Jinan , Shandong 250012 , P.R. China
| | - Chun-Hua Lu
- a Key Laboratory of Chemical Biology (Ministry of Education), School of Pharmaceutical Sciences, Shandong University , No. 44 West Wenhua Road, Jinan , Shandong 250012 , P.R. China
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Ding L, Franke J, Hertweck C. Divergolide congeners illuminate alternative reaction channels for ansamycin diversification. Org Biomol Chem 2015; 13:1618-23. [DOI: 10.1039/c4ob02244k] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
Isolation and structure elucidation of six new divergolides reveal unusual ansamycin diversification reactions including formation of the unusual isobutenyl side chain from a branched polyketide synthase extender unit, azepinone ring closure, macrolide ring contraction and formation of a seco variant by a neighboring group-assisted decarboxylation.
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Affiliation(s)
- Ling Ding
- Leibniz Institute for Natural Product Research and Infection Biology
- HKI
- Department of Biomolecular Chemistry
- 07745 Jena
- Germany
| | - Jakob Franke
- Leibniz Institute for Natural Product Research and Infection Biology
- HKI
- Department of Biomolecular Chemistry
- 07745 Jena
- Germany
| | - Christian Hertweck
- Leibniz Institute for Natural Product Research and Infection Biology
- HKI
- Department of Biomolecular Chemistry
- 07745 Jena
- Germany
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33
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Li S, Lu C, Ou J, Deng J, Shen Y. Overexpression of hgc1 increases the production and diversity of hygrocins in Streptomyces sp. LZ35. RSC Adv 2015. [DOI: 10.1039/c5ra12623a] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Overexpression of the regulator gene hgc1 increases both the productivity and diversity of hygrocins, revealing the unprecedented flexibility in ansamycin biosynthesis.
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Affiliation(s)
- Shanren Li
- Key Laboratory of Chemical Biology (Ministry of Education)
- School of Pharmaceutical Sciences
- Shandong University
- Jinan 250012
- P. R. China
| | - Chunhua Lu
- Key Laboratory of Chemical Biology (Ministry of Education)
- School of Pharmaceutical Sciences
- Shandong University
- Jinan 250012
- P. R. China
| | - Jinhuan Ou
- Key Laboratory of Chemical Biology (Ministry of Education)
- School of Pharmaceutical Sciences
- Shandong University
- Jinan 250012
- P. R. China
| | - Jingjing Deng
- Key Laboratory of Chemical Biology (Ministry of Education)
- School of Pharmaceutical Sciences
- Shandong University
- Jinan 250012
- P. R. China
| | - Yuemao Shen
- Key Laboratory of Chemical Biology (Ministry of Education)
- School of Pharmaceutical Sciences
- Shandong University
- Jinan 250012
- P. R. China
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34
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Tsakos M, Schaffert ES, Clement LL, Villadsen NL, Poulsen TB. Ester coupling reactions – an enduring challenge in the chemical synthesis of bioactive natural products. Nat Prod Rep 2015; 32:605-32. [DOI: 10.1039/c4np00106k] [Citation(s) in RCA: 111] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
In this review we investigate the use of complex ester fragment couplings within natural product total syntheses. Using examples from the literature up to 2014 we illustrate the state-of-the-art as well as the challenges within this area of organic synthesis.
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Affiliation(s)
- Michail Tsakos
- Chemical Biology Laboratory
- Department of Chemistry
- Aarhus University
- Aarhus C
- Denmark
| | - Eva S. Schaffert
- Chemical Biology Laboratory
- Department of Chemistry
- Aarhus University
- Aarhus C
- Denmark
| | - Lise L. Clement
- Chemical Biology Laboratory
- Department of Chemistry
- Aarhus University
- Aarhus C
- Denmark
| | - Nikolaj L. Villadsen
- Chemical Biology Laboratory
- Department of Chemistry
- Aarhus University
- Aarhus C
- Denmark
| | - Thomas B. Poulsen
- Chemical Biology Laboratory
- Department of Chemistry
- Aarhus University
- Aarhus C
- Denmark
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35
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Zhu J, Chen W, Li YY, Deng JJ, Zhu DY, Duan J, Liu Y, Shi GY, Xie C, Wang HX, Shen YM. Identification and catalytic characterization of a nonribosomal peptide synthetase-like (NRPS-like) enzyme involved in the biosynthesis of echosides from Streptomyces sp. LZ35. Gene 2014; 546:352-8. [DOI: 10.1016/j.gene.2014.05.053] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2014] [Revised: 05/20/2014] [Accepted: 05/22/2014] [Indexed: 10/25/2022]
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36
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Li SR, Zhao GS, Sun MW, He HG, Wang HX, Li YY, Lu CH, Shen YM. Identification and characterization of the biosynthetic gene cluster of divergolides from Streptomyces sp. W112. Gene 2014; 544:93-9. [DOI: 10.1016/j.gene.2014.04.052] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2014] [Revised: 04/19/2014] [Accepted: 04/23/2014] [Indexed: 01/01/2023]
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37
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Xu Z, Baunach M, Ding L, Peng H, Franke J, Hertweck C. Biosynthetic code for divergolide assembly in a bacterial mangrove endophyte. Chembiochem 2014; 15:1274-9. [PMID: 24867126 DOI: 10.1002/cbic.201402071] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2014] [Indexed: 02/04/2023]
Abstract
Divergolides are structurally diverse ansamycins produced by a bacterial endophyte (Streptomyces sp.) of the mangrove tree Bruguiera gymnorrhiza. By genomic analyses a gene locus coding for the divergolide pathway was detected. The div gene cluster encodes genes for the biosynthesis of 3-amino-5-hydroxybenzoate and the rare extender units ethylmalonyl-CoA and isobutylmalonyl-CoA, polyketide assembly by a modular type I polyketide synthase (PKS), and enzymes involved in tailoring reactions, such as a Baeyer-Villiger oxygenase. A detailed PKS domain analysis confirmed the stereochemical integrity of the divergolides and provided valuable new insights into the formation of the diverse aromatic chromophores. The bioinformatic analyses and the isolation and full structural elucidation of four new divergolide congeners led to a revised biosynthetic model that illustrates the formation of four different types of ansamycin chromophores from a single polyketide precursor.
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Affiliation(s)
- Zhongli Xu
- Department of Biomolecular Chemistry, Leibniz Institute for Natural Product Research and Infection Biology (HKI), Beutenbergstrasse 11a, 07745 Jena (Germany)
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38
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Zhang J, Qian Z, Wu X, Ding Y, Li J, Lu C, Shen Y. Juanlimycins A and B, Ansamycin Macrodilactams from Streptomyces sp. Org Lett 2014; 16:2752-5. [PMID: 24797062 DOI: 10.1021/ol501072t] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Juanli Zhang
- Key
Laboratory of Chemical Biology (Ministry of Education), School of
Pharmaceutical Sciences, Shandong University, No. 44 West Wenhua Road, Jinan, Shandong 250012, PR China
| | - Zhengyi Qian
- State
Key Laboratory of Microbial Technology, School of Life Sciences, Shandong University, No. 27 South Shanda Road, Jinan, Shandong 250100, PR China
| | - Xingkang Wu
- Key
Laboratory of Chemical Biology (Ministry of Education), School of
Pharmaceutical Sciences, Shandong University, No. 44 West Wenhua Road, Jinan, Shandong 250012, PR China
| | - Yanjiao Ding
- Key
Laboratory of Chemical Biology (Ministry of Education), School of
Pharmaceutical Sciences, Shandong University, No. 44 West Wenhua Road, Jinan, Shandong 250012, PR China
| | - Jianfang Li
- Key
Laboratory of Chemical Biology (Ministry of Education), School of
Pharmaceutical Sciences, Shandong University, No. 44 West Wenhua Road, Jinan, Shandong 250012, PR China
- School
of Pharmacy, Shandong University of Traditional Chinese Medicine, Jinan, Shandong 250355, PR China
| | - Chunhua Lu
- Key
Laboratory of Chemical Biology (Ministry of Education), School of
Pharmaceutical Sciences, Shandong University, No. 44 West Wenhua Road, Jinan, Shandong 250012, PR China
| | - Yuemao Shen
- Key
Laboratory of Chemical Biology (Ministry of Education), School of
Pharmaceutical Sciences, Shandong University, No. 44 West Wenhua Road, Jinan, Shandong 250012, PR China
- State
Key Laboratory of Microbial Technology, School of Life Sciences, Shandong University, No. 27 South Shanda Road, Jinan, Shandong 250100, PR China
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39
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Nawrat CC, Kitson RRA, Moody CJ. Toward the Total Synthesis of Hygrocin B and Divergolide C: Construction of the Naphthoquinone–Azepinone Core. Org Lett 2014; 16:1896-9. [DOI: 10.1021/ol5003847] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Christopher C. Nawrat
- School of Chemistry, University of Nottingham, University Park, Nottingham NG7 2RD, U.K
| | - Russell R. A. Kitson
- School of Chemistry, University of Nottingham, University Park, Nottingham NG7 2RD, U.K
| | - Christopher J. Moody
- School of Chemistry, University of Nottingham, University Park, Nottingham NG7 2RD, U.K
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