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Wang CY, Hu JQ, Wang DG, Li YZ, Wu C. Recent advances in discovery and biosynthesis of natural products from myxobacteria: an overview from 2017 to 2023. Nat Prod Rep 2024; 41:905-934. [PMID: 38390645 DOI: 10.1039/d3np00062a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/24/2024]
Abstract
Covering: 2017.01 to 2023.11Natural products biosynthesized by myxobacteria are appealing due to their sophisticated chemical skeletons, remarkable biological activities, and intriguing biosynthetic enzymology. This review aims to systematically summarize the advances in the discovery methods, new structures, and bioactivities of myxobacterial NPs reported in the period of 2017-2023. In addition, the peculiar biosynthetic pathways of several structural families are also highlighted.
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Affiliation(s)
- Chao-Yi Wang
- State Key Laboratory of Microbial Technology, Institute of Microbial Technology, Shandong University, 266237 Qingdao, P.R. China.
| | - Jia-Qi Hu
- State Key Laboratory of Microbial Technology, Institute of Microbial Technology, Shandong University, 266237 Qingdao, P.R. China.
| | - De-Gao Wang
- State Key Laboratory of Microbial Technology, Institute of Microbial Technology, Shandong University, 266237 Qingdao, P.R. China.
| | - Yue-Zhong Li
- State Key Laboratory of Microbial Technology, Institute of Microbial Technology, Shandong University, 266237 Qingdao, P.R. China.
| | - Changsheng Wu
- State Key Laboratory of Microbial Technology, Institute of Microbial Technology, Shandong University, 266237 Qingdao, P.R. China.
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Wu YT, Zhao XN, Zhang PX, Wang CF, Li J, Wei XY, Shi JQ, Dai W, Zhang Q, Liu JQ. Rapid Discovery of Substances with Anticancer Potential from Marine Fungi Based on a One Strain-Many Compounds Strategy and UPLC-QTOF-MS. Mar Drugs 2023; 21:646. [PMID: 38132967 PMCID: PMC10745104 DOI: 10.3390/md21120646] [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: 10/24/2023] [Revised: 12/12/2023] [Accepted: 12/13/2023] [Indexed: 12/23/2023] Open
Abstract
The secondary metabolites of marine fungi with rich chemical diversity and biological activity are an important and exciting target for natural product research. This study aimed to investigate the fungal community in Quanzhou Bay, Fujian, and identified 28 strains of marine fungi. A total of 28 strains of marine fungi were screened for small-scale fermentation by the OSMAC (One Strain-Many Compounds) strategy, and 77 EtOAc crude extracts were obtained and assayed for cancer cell inhibition rate. A total of six strains of marine fungi (P-WZ-2, P-WZ-3-2, P-WZ-4, P-WZ-5, P56, and P341) with significant changes in cancer cell inhibition induced by the OSMAC strategy were analysed by UPLC-QTOF-MS. The ACD/MS Structure ID Suite software was used to predict the possible structures with inhibitory effects on cancer cells. A total of 23 compounds were identified, of which 10 compounds have been reported to have potential anticancer activity or cytotoxicity. In this study, the OSMAC strategy was combined with an untargeted metabolomics approach based on UPLC-QTOF-MS to efficiently analyse the effect of changes in culture conditions on anticancer potentials and to rapidly find active substances that inhibit cancer cell growth.
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Affiliation(s)
- Yu-Ting Wu
- Engineering Research Centre of Molecular Medicine of Ministry of Education, Key Laboratory of Fujian Molecular Medicine, Key Laboratory of Precision Medicine and Molecular Diagnosis of Fujian Universities, Key Laboratory of Xiamen Marine and Gene Drugs, School of Medicine, Huaqiao University, Quanzhou 361020, China; (Y.-T.W.); (X.-N.Z.); (P.-X.Z.); (J.L.); (X.-Y.W.); (J.-Q.S.); (W.D.); (Q.Z.)
| | - Xiao-Na Zhao
- Engineering Research Centre of Molecular Medicine of Ministry of Education, Key Laboratory of Fujian Molecular Medicine, Key Laboratory of Precision Medicine and Molecular Diagnosis of Fujian Universities, Key Laboratory of Xiamen Marine and Gene Drugs, School of Medicine, Huaqiao University, Quanzhou 361020, China; (Y.-T.W.); (X.-N.Z.); (P.-X.Z.); (J.L.); (X.-Y.W.); (J.-Q.S.); (W.D.); (Q.Z.)
| | - Pei-Xi Zhang
- Engineering Research Centre of Molecular Medicine of Ministry of Education, Key Laboratory of Fujian Molecular Medicine, Key Laboratory of Precision Medicine and Molecular Diagnosis of Fujian Universities, Key Laboratory of Xiamen Marine and Gene Drugs, School of Medicine, Huaqiao University, Quanzhou 361020, China; (Y.-T.W.); (X.-N.Z.); (P.-X.Z.); (J.L.); (X.-Y.W.); (J.-Q.S.); (W.D.); (Q.Z.)
| | - Cui-Fang Wang
- College of Oceanology and Food Science, Quanzhou Normal University, Quanzhou 362000, China;
| | - Jing Li
- Engineering Research Centre of Molecular Medicine of Ministry of Education, Key Laboratory of Fujian Molecular Medicine, Key Laboratory of Precision Medicine and Molecular Diagnosis of Fujian Universities, Key Laboratory of Xiamen Marine and Gene Drugs, School of Medicine, Huaqiao University, Quanzhou 361020, China; (Y.-T.W.); (X.-N.Z.); (P.-X.Z.); (J.L.); (X.-Y.W.); (J.-Q.S.); (W.D.); (Q.Z.)
| | - Xiao-Yue Wei
- Engineering Research Centre of Molecular Medicine of Ministry of Education, Key Laboratory of Fujian Molecular Medicine, Key Laboratory of Precision Medicine and Molecular Diagnosis of Fujian Universities, Key Laboratory of Xiamen Marine and Gene Drugs, School of Medicine, Huaqiao University, Quanzhou 361020, China; (Y.-T.W.); (X.-N.Z.); (P.-X.Z.); (J.L.); (X.-Y.W.); (J.-Q.S.); (W.D.); (Q.Z.)
| | - Jia-Qi Shi
- Engineering Research Centre of Molecular Medicine of Ministry of Education, Key Laboratory of Fujian Molecular Medicine, Key Laboratory of Precision Medicine and Molecular Diagnosis of Fujian Universities, Key Laboratory of Xiamen Marine and Gene Drugs, School of Medicine, Huaqiao University, Quanzhou 361020, China; (Y.-T.W.); (X.-N.Z.); (P.-X.Z.); (J.L.); (X.-Y.W.); (J.-Q.S.); (W.D.); (Q.Z.)
| | - Wang Dai
- Engineering Research Centre of Molecular Medicine of Ministry of Education, Key Laboratory of Fujian Molecular Medicine, Key Laboratory of Precision Medicine and Molecular Diagnosis of Fujian Universities, Key Laboratory of Xiamen Marine and Gene Drugs, School of Medicine, Huaqiao University, Quanzhou 361020, China; (Y.-T.W.); (X.-N.Z.); (P.-X.Z.); (J.L.); (X.-Y.W.); (J.-Q.S.); (W.D.); (Q.Z.)
| | - Qi Zhang
- Engineering Research Centre of Molecular Medicine of Ministry of Education, Key Laboratory of Fujian Molecular Medicine, Key Laboratory of Precision Medicine and Molecular Diagnosis of Fujian Universities, Key Laboratory of Xiamen Marine and Gene Drugs, School of Medicine, Huaqiao University, Quanzhou 361020, China; (Y.-T.W.); (X.-N.Z.); (P.-X.Z.); (J.L.); (X.-Y.W.); (J.-Q.S.); (W.D.); (Q.Z.)
| | - Jie-Qing Liu
- Engineering Research Centre of Molecular Medicine of Ministry of Education, Key Laboratory of Fujian Molecular Medicine, Key Laboratory of Precision Medicine and Molecular Diagnosis of Fujian Universities, Key Laboratory of Xiamen Marine and Gene Drugs, School of Medicine, Huaqiao University, Quanzhou 361020, China; (Y.-T.W.); (X.-N.Z.); (P.-X.Z.); (J.L.); (X.-Y.W.); (J.-Q.S.); (W.D.); (Q.Z.)
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Wang W, Liu H, Yan J, Jiang Y, Cheng H, Wang D. Research progress on the synthesis, structural modification and biological activity of stigmatellin A. Tetrahedron 2022. [DOI: 10.1016/j.tet.2022.132880] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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Santos-Aberturas J, Vior NM. Beyond Soil-Dwelling Actinobacteria: Fantastic Antibiotics and Where to Find Them. Antibiotics (Basel) 2022; 11:195. [PMID: 35203798 PMCID: PMC8868522 DOI: 10.3390/antibiotics11020195] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2021] [Revised: 01/27/2022] [Accepted: 01/29/2022] [Indexed: 12/10/2022] Open
Abstract
Bacterial secondary metabolites represent an invaluable source of bioactive molecules for the pharmaceutical and agrochemical industries. Although screening campaigns for the discovery of new compounds have traditionally been strongly biased towards the study of soil-dwelling Actinobacteria, the current antibiotic resistance and discovery crisis has brought a considerable amount of attention to the study of previously neglected bacterial sources of secondary metabolites. The development and application of new screening, sequencing, genetic manipulation, cultivation and bioinformatic techniques have revealed several other groups of bacteria as producers of striking chemical novelty. Biosynthetic machineries evolved from independent taxonomic origins and under completely different ecological requirements and selective pressures are responsible for these structural innovations. In this review, we summarize the most important discoveries related to secondary metabolites from alternative bacterial sources, trying to provide the reader with a broad perspective on how technical novelties have facilitated the access to the bacterial metabolic dark matter.
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Affiliation(s)
| | - Natalia M. Vior
- Department of Molecular Microbiology, John Innes Centre, Norwich NR7 4UH, UK
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Li Y, Zhuo L, Li X, Zhu Y, Wu S, Shen T, Hu W, Li YZ, Wu C. Myxadazoles, Myxobacterium-Derived Isoxazole-Benzimidazole Hybrids with Cardiovascular Activities. Angew Chem Int Ed Engl 2021; 60:21679-21684. [PMID: 34314077 DOI: 10.1002/anie.202106275] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2021] [Revised: 07/05/2021] [Indexed: 12/14/2022]
Abstract
There is a continuous need for novel microbial natural products to fill the drying-up drug development pipeline. Herein, we report myxadazoles from Myxococcus sp. SDU36, a family of novel chimeric small molecules that consist of N-ribityl 5,6-dimethylbenzimidazole and a linear fatty acid chain endowed with an isoxazole ring. The experiments of genome sequencing, gene insertion mutation, isotope labelling, and precursor feeding demonstrated that the fatty acid chain was encoded by a non-canonical PKS/NRPS gene cluster, whereas the origin of N-ribityl 5,6-dimethylbenzimidazole was related to the vitamin B12 metabolism. The convergence of these two distinct biosynthetic pathways through a C-N coupling led to the unique chemical framework of myxadazoles, which is an unprecedented hybridization mode in the paradigm of natural products. Myxadazoles exhibited potent vasculogenesis promotion effect and moderate antithrombotic activity, underscoring their potential usage for the treatment of cardiovascular diseases.
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Affiliation(s)
- Yuelan Li
- State Key Laboratory of Microbial Technology, Institute of Microbial Technology, Shandong University, No. 72 Binhai Avenue, Qingdao, 266237, P. R. China
| | - Li Zhuo
- State Key Laboratory of Microbial Technology, Institute of Microbial Technology, Shandong University, No. 72 Binhai Avenue, Qingdao, 266237, P. R. China
| | - Xiaobin Li
- Biology Institute, Qilu University of Technology (Shandong Academy of Sciences), No. 28789 Jingshi Dong Road, Jinan, 250103, P. R. China
| | - Yongqiang Zhu
- Biology Institute, Qilu University of Technology (Shandong Academy of Sciences), No. 28789 Jingshi Dong Road, Jinan, 250103, P. R. China
| | - Shuge Wu
- State Key Laboratory of Microbial Technology, Institute of Microbial Technology, Shandong University, No. 72 Binhai Avenue, Qingdao, 266237, P. R. China
| | - Tao Shen
- Key Lab of Chemical Biology (MOE), School of Pharmaceutical Sciences, Shandong University, No. 44 West Wenhua Road, Jinan, 250012, P. R. China
| | - Wei Hu
- State Key Laboratory of Microbial Technology, Institute of Microbial Technology, Shandong University, No. 72 Binhai Avenue, Qingdao, 266237, P. R. China
| | - Yue-Zhong Li
- State Key Laboratory of Microbial Technology, Institute of Microbial Technology, Shandong University, No. 72 Binhai Avenue, Qingdao, 266237, P. R. China
| | - Changsheng Wu
- State Key Laboratory of Microbial Technology, Institute of Microbial Technology, Shandong University, No. 72 Binhai Avenue, Qingdao, 266237, P. R. China
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Li Y, Zhuo L, Li X, Zhu Y, Wu S, Shen T, Hu W, Li Y, Wu C. Myxadazoles, Myxobacterium‐Derived Isoxazole–Benzimidazole Hybrids with Cardiovascular Activities. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202106275] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Yuelan Li
- State Key Laboratory of Microbial Technology Institute of Microbial Technology Shandong University No. 72 Binhai Avenue Qingdao 266237 P. R. China
| | - Li Zhuo
- State Key Laboratory of Microbial Technology Institute of Microbial Technology Shandong University No. 72 Binhai Avenue Qingdao 266237 P. R. China
| | - Xiaobin Li
- Biology Institute Qilu University of Technology (Shandong Academy of Sciences) No. 28789 Jingshi Dong Road Jinan 250103 P. R. China
| | - Yongqiang Zhu
- Biology Institute Qilu University of Technology (Shandong Academy of Sciences) No. 28789 Jingshi Dong Road Jinan 250103 P. R. China
| | - Shuge Wu
- State Key Laboratory of Microbial Technology Institute of Microbial Technology Shandong University No. 72 Binhai Avenue Qingdao 266237 P. R. China
| | - Tao Shen
- Key Lab of Chemical Biology (MOE) School of Pharmaceutical Sciences Shandong University No. 44 West Wenhua Road Jinan 250012 P. R. China
| | - Wei Hu
- State Key Laboratory of Microbial Technology Institute of Microbial Technology Shandong University No. 72 Binhai Avenue Qingdao 266237 P. R. China
| | - Yue‐Zhong Li
- State Key Laboratory of Microbial Technology Institute of Microbial Technology Shandong University No. 72 Binhai Avenue Qingdao 266237 P. R. China
| | - Changsheng Wu
- State Key Laboratory of Microbial Technology Institute of Microbial Technology Shandong University No. 72 Binhai Avenue Qingdao 266237 P. R. China
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Ghosh S, Sarangi AN, Mukherjee M, Singh D, Madhavi M, Tripathy S. Reconstructing Draft Genomes Using Genome Resolved Metagenomics Reveal Arsenic Metabolizing Genes and Secondary Metabolites in Fresh Water Lake in Eastern India. Bioinform Biol Insights 2021; 15:11779322211025332. [PMID: 34220198 PMCID: PMC8221699 DOI: 10.1177/11779322211025332] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2021] [Accepted: 05/24/2021] [Indexed: 12/03/2022] Open
Abstract
Rabindra Sarovar lake is an artificial freshwater lake in the arsenic infested eastern region of India. In this study, using the genome resolved metagenomics approach; we have deciphered the taxonomic diversity as well as the functional insights of the gene pools specific to this region. Initially, a total of 113 Metagenome Assembled Genomes (MAGs) were recovered from the two predominant seasons, that is, rainy (n = 50) and winter (n = 63). After bin refinement and de-replication, 27 MAGs (18 from Winter season and 9 from Rainy season) were reconstructed. These MAGs were either of high-quality (n = 10) or of medium quality (n = 17) that was determined based on genome completeness and contamination. These 27 MAGs spanning across 6 bacterial phyla and the most predominant ones were Proteobacteria, Bacteroidetes, and Cyanobacteria regardless of the season. Functional annotation across the MAGs suggested the existence of all known types of arsenic resistance and metabolism genes. Besides, important secondary metabolites such as zoocin_A, prochlorosin, and microcin were also abundantly present in these genomes. The metagenomic study of this lake provides the first insights into the microbiome composition and functional classification of the gene pools in two predominant seasons. The presence of arsenic metabolism and resistance genes in the recovered genomes is a sign of adaptation of the microbes to the arsenic contamination in this region. The presence of secondary metabolite genes in the lake microbiome has several implications including the potential use of these for the pharmaceutical industry.
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Affiliation(s)
- Samrat Ghosh
- Computational Genomics Lab, Structural Biology and Bioinformatics Division, CSIR Indian Institute of Chemical Biology, Kolkata, India.,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
| | - Aditya Narayan Sarangi
- Computational Genomics Lab, Structural Biology and Bioinformatics Division, CSIR Indian Institute of Chemical Biology, Kolkata, India
| | - Mayuri Mukherjee
- Computational Genomics Lab, Structural Biology and Bioinformatics Division, CSIR Indian Institute of Chemical Biology, Kolkata, India.,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
| | - Deeksha Singh
- Computational Genomics Lab, Structural Biology and Bioinformatics Division, CSIR Indian Institute of Chemical Biology, Kolkata, India.,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
| | - Madduluri Madhavi
- Computational Genomics Lab, Structural Biology and Bioinformatics Division, CSIR Indian Institute of Chemical Biology, Kolkata, India
| | - Sucheta Tripathy
- Computational Genomics Lab, Structural Biology and Bioinformatics Division, CSIR Indian Institute of Chemical Biology, Kolkata, India.,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
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Messiha HL, Payne KAP, Scrutton NS, Leys D. A Biological Route to Conjugated Alkenes: Microbial Production of Hepta-1,3,5-triene. ACS Synth Biol 2021; 10:228-235. [PMID: 33535752 DOI: 10.1021/acssynbio.0c00464] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Conjugated alkenes such as dienes and polyenes have a range of applications as pharmaceutical agents and valuable building blocks in the polymer industry. Development of a renewable route to these compounds provides an alternative to fossil fuel derived production. The enzyme family of the UbiD decarboxylases offers substantial scope for alkene production, readily converting poly unsaturated acids. However, biochemical pathways producing the required substrates are poorly characterized, and UbiD-application has hitherto been limited to biological styrene production. Herein, we present a proof-of-principle study for microbial production of polyenes using a bioinspired strategy employing a polyketide synthase (PKS) in combination with a UbiD-enzyme. Deconstructing a bacterial iterative type II PKS enabled repurposing the broad-spectrum antibiotic andrimid biosynthesis pathway to access the metabolic intermediate 2,4,6-octatrienoic acid, a valuable chemical for material and pharmaceutical industry. Combination with the fungal ferulic acid decarboxylase (Fdc1) led to a biocatalytic cascade-type reaction for the production of hepta-1,3,5-triene in vivo. Our approach provides a novel route to generate unsaturated hydrocarbons and related chemicals and provides a blue-print for future development and application.
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Affiliation(s)
- Hanan L. Messiha
- Manchester Institute of Biotechnology, Department of Chemistry, School of Natural Sciences, Faculty of Science and Engineering, The University of Manchester, 131 Princess Street, Manchester M1 7DN, United Kingdom
| | - Karl A. P. Payne
- Manchester Institute of Biotechnology, Department of Chemistry, School of Natural Sciences, Faculty of Science and Engineering, The University of Manchester, 131 Princess Street, Manchester M1 7DN, United Kingdom
- Future Biomanufacturing Research Hub (Future BRH), Manchester Institute of Biotechnology, The University of Manchester, 131 Princess Street, Manchester M1 7DN, United Kingdom
| | - Nigel S. Scrutton
- Manchester Institute of Biotechnology, Department of Chemistry, School of Natural Sciences, Faculty of Science and Engineering, The University of Manchester, 131 Princess Street, Manchester M1 7DN, United Kingdom
- Future Biomanufacturing Research Hub (Future BRH), Manchester Institute of Biotechnology, The University of Manchester, 131 Princess Street, Manchester M1 7DN, United Kingdom
| | - David Leys
- Manchester Institute of Biotechnology, Department of Chemistry, School of Natural Sciences, Faculty of Science and Engineering, The University of Manchester, 131 Princess Street, Manchester M1 7DN, United Kingdom
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Beedessee G, Kubota T, Arimoto A, Nishitsuji K, Waller RF, Hisata K, Yamasaki S, Satoh N, Kobayashi J, Shoguchi E. Integrated omics unveil the secondary metabolic landscape of a basal dinoflagellate. BMC Biol 2020; 18:139. [PMID: 33050904 PMCID: PMC7557087 DOI: 10.1186/s12915-020-00873-6] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2020] [Accepted: 09/18/2020] [Indexed: 01/04/2023] Open
Abstract
BACKGROUND Some dinoflagellates cause harmful algal blooms, releasing toxic secondary metabolites, to the detriment of marine ecosystems and human health. Our understanding of dinoflagellate toxin biosynthesis has been hampered by their unusually large genomes. To overcome this challenge, for the first time, we sequenced the genome, microRNAs, and mRNA isoforms of a basal dinoflagellate, Amphidinium gibbosum, and employed an integrated omics approach to understand its secondary metabolite biosynthesis. RESULTS We assembled the ~ 6.4-Gb A. gibbosum genome, and by probing decoded dinoflagellate genomes and transcriptomes, we identified the non-ribosomal peptide synthetase adenylation domain as essential for generation of specialized metabolites. Upon starving the cells of phosphate and nitrogen, we observed pronounced shifts in metabolite biosynthesis, suggestive of post-transcriptional regulation by microRNAs. Using Iso-Seq and RNA-seq data, we found that alternative splicing and polycistronic expression generate different transcripts for secondary metabolism. CONCLUSIONS Our genomic findings suggest intricate integration of various metabolic enzymes that function iteratively to synthesize metabolites, providing mechanistic insights into how dinoflagellates synthesize secondary metabolites, depending upon nutrient availability. This study provides insights into toxin production associated with dinoflagellate blooms. The genome of this basal dinoflagellate provides important clues about dinoflagellate evolution and overcomes the large genome size, which has been a challenge previously.
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Affiliation(s)
- Girish Beedessee
- Marine Genomics Unit, Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan.
- Present address: Department of Biochemistry, University of Cambridge, Cambridge, CB2 1QW, UK.
| | - Takaaki Kubota
- Showa Pharmaceutical University, 3-3165 Higashi-Tamagawagakuen, Machida, Tokyo, 194-8543, Japan
| | - Asuka Arimoto
- Marine Genomics Unit, Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan
- Marine Biological Laboratory, Graduate School of Integrated Sciences for Life, Hiroshima University, Onomichi, Hiroshima, 722-0073, Japan
| | - Koki Nishitsuji
- Marine Genomics Unit, Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan
| | - Ross F Waller
- Department of Biochemistry, University of Cambridge, Cambridge, CB2 1QW, UK
| | - Kanako Hisata
- Marine Genomics Unit, Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan
| | - Shinichi Yamasaki
- DNA Sequencing Section, Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan
| | - Noriyuki Satoh
- Marine Genomics Unit, Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan
| | - Jun'ichi Kobayashi
- Graduate School of Pharmaceutical Sciences, Hokkaido University, Sapporo, 060-0812, Japan
| | - Eiichi Shoguchi
- Marine Genomics Unit, Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan
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Shen C, Wang A, Xu J, An Z, Loh KY, Zhang P, Liu X. Recent Advances in the Catalytic Synthesis of 4-Quinolones. Chem 2019. [DOI: 10.1016/j.chempr.2019.01.006] [Citation(s) in RCA: 34] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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Müller JI, Kusserow K, Hertrampf G, Pavic A, Nikodinovic-Runic J, Gulder TAM. Synthesis and initial biological evaluation of myxocoumarin B. Org Biomol Chem 2019; 17:1966-1969. [PMID: 30357251 DOI: 10.1039/c8ob02273a] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Abstract
The myxocoumarins A and B from Stigmatella aurantiaca MYX-030 are natural products featuring unusual nitro- and long-chain alkyl substitution. While myxocoumarin A was shown to exhibit strong antifungal properties, the antifungal potential of myxocoumarin B was not yet assessed due to low production titers during initial isolation. We therefore developed a total synthesis of myxocoumarin B that involves a late-stage Pd-catalyzed nitration of the coumarin core. The availability of synthetic material facilitated the initial evaluation of the bioactivity of myxocoumarin B, which revealed a lack of activity against medically relevant Candida sp. and low cytotoxicity in vitro against human fibroblasts (MRC-5) and in vivo (zebrafish).
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Affiliation(s)
- Jonas I Müller
- Biosystems Chemistry, Department of Chemistry and Center for Integrated Protein Science Munich (CIPSM), Technical University of Munich, Germany.
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Grammbitter GLC, Schmalhofer M, Karimi K, Shi YM, Schöner TA, Tobias NJ, Morgner N, Groll M, Bode HB. An Uncommon Type II PKS Catalyzes Biosynthesis of Aryl Polyene Pigments. J Am Chem Soc 2019; 141:16615-16623. [DOI: 10.1021/jacs.8b10776] [Citation(s) in RCA: 38] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Affiliation(s)
- Gina L. C. Grammbitter
- Molekulare Biotechnologie, Fachbereich Biowissenschaften, Goethe-Universität Frankfurt am Main and Buchmann Institute for Molecular Life Sciences (BMLS), Goethe-Universität Frankfurt, Max-von-Laue-Straße 9 and 15, 60438 Frankfurt am Main, Germany
| | - Maximilian Schmalhofer
- Center for Integrated Protein Science at the Department Chemie, Lehrstuhl für Biochemie, Technische Universität München, Lichtenbergstraße 4, 85748 Garching, Germany
| | - Kudratullah Karimi
- Institut für Physikalische und Theoretische Chemie, Goethe-Universität Frankfurt, Max-von-Laue-Straße 7, 60438 Frankfurt am Main, Germany
| | - Yi-Ming Shi
- Molekulare Biotechnologie, Fachbereich Biowissenschaften, Goethe-Universität Frankfurt am Main and Buchmann Institute for Molecular Life Sciences (BMLS), Goethe-Universität Frankfurt, Max-von-Laue-Straße 9 and 15, 60438 Frankfurt am Main, Germany
| | - Tim A. Schöner
- Molekulare Biotechnologie, Fachbereich Biowissenschaften, Goethe-Universität Frankfurt am Main and Buchmann Institute for Molecular Life Sciences (BMLS), Goethe-Universität Frankfurt, Max-von-Laue-Straße 9 and 15, 60438 Frankfurt am Main, Germany
| | - Nicholas J. Tobias
- Molekulare Biotechnologie, Fachbereich Biowissenschaften, Goethe-Universität Frankfurt am Main and Buchmann Institute for Molecular Life Sciences (BMLS), Goethe-Universität Frankfurt, Max-von-Laue-Straße 9 and 15, 60438 Frankfurt am Main, Germany
| | - Nina Morgner
- Institut für Physikalische und Theoretische Chemie, Goethe-Universität Frankfurt, Max-von-Laue-Straße 7, 60438 Frankfurt am Main, Germany
| | - Michael Groll
- Center for Integrated Protein Science at the Department Chemie, Lehrstuhl für Biochemie, Technische Universität München, Lichtenbergstraße 4, 85748 Garching, Germany
| | - Helge B. Bode
- Molekulare Biotechnologie, Fachbereich Biowissenschaften, Goethe-Universität Frankfurt am Main and Buchmann Institute for Molecular Life Sciences (BMLS), Goethe-Universität Frankfurt, Max-von-Laue-Straße 9 and 15, 60438 Frankfurt am Main, Germany
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Genome mining reveals uncommon alkylpyrones as type III PKS products from myxobacteria. J Ind Microbiol Biotechnol 2018; 46:319-334. [PMID: 30506464 DOI: 10.1007/s10295-018-2105-6] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2018] [Accepted: 10/31/2018] [Indexed: 12/13/2022]
Abstract
Type III polyketide synthases (PKSs) are comparatively small homodimeric enzymes affording natural products with diverse structures and functions. While type III PKS biosynthetic pathways have been studied thoroughly in plants, their counterparts from bacteria and fungi are to date scarcely characterized. This gap is exemplified by myxobacteria from which no type III PKS-derived small molecule has previously been isolated. In this study, we conducted a genomic survey of myxobacterial type III PKSs and report the identification of uncommon alkylpyrones as the products of type III PKS biosynthesis from the myxobacterial model strain Myxococcus xanthus DK1622 through a self-resistance-guided screening approach focusing on genes encoding pentapetide repeat proteins, proficient to confer resistance to topoisomerase inhibitors. Using promoter-induced gene expression in the native host as well as heterologous expression of biosynthetic type III PKS genes, sufficient amounts of material could be obtained for structural elucidation and bioactivity testing, revealing potent topoisomerase activity in vitro.
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15
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Miyanaga A, Kudo F, Eguchi T. Protein–protein interactions in polyketide synthase–nonribosomal peptide synthetase hybrid assembly lines. Nat Prod Rep 2018; 35:1185-1209. [DOI: 10.1039/c8np00022k] [Citation(s) in RCA: 63] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
The protein–protein interactions in polyketide synthase–nonribosomal peptide synthetase hybrids are summarized and discussed.
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Affiliation(s)
- Akimasa Miyanaga
- Department of Chemistry
- Tokyo Institute of Technology
- Tokyo 152-8551
- Japan
| | - Fumitaka Kudo
- Department of Chemistry
- Tokyo Institute of Technology
- Tokyo 152-8551
- Japan
| | - Tadashi Eguchi
- Department of Chemistry
- Tokyo Institute of Technology
- Tokyo 152-8551
- Japan
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16
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Bock T, Volz C, Hering V, Scrima A, Müller R, Blankenfeldt W. The AibR-isovaleryl coenzyme A regulator and its DNA binding site - a model for the regulation of alternative de novo isovaleryl coenzyme A biosynthesis in Myxococcus xanthus. Nucleic Acids Res 2017; 45:2166-2178. [PMID: 27940564 PMCID: PMC5389471 DOI: 10.1093/nar/gkw1238] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2016] [Accepted: 11/29/2016] [Indexed: 02/06/2023] Open
Abstract
Isovaleryl coenzyme A (IV-CoA) is an important building block of iso-fatty acids. In myxobacteria, IV-CoA is essential for the formation of signaling molecules involved in fruiting body formation. Leucine degradation is the common source of IV-CoA, but a second, de novo biosynthetic route to IV-CoA termed AIB (alternative IV-CoA biosynthesis) was recently discovered in M. xanthus. The AIB-operon contains the TetR-like transcriptional regulator AibR, which we characterize in this study. We demonstrate that IV-CoA binds AibR with micromolar affinity and show by gelshift experiments that AibR interacts with the promoter region of the AIB-operon once IV-CoA is present. We identify an 18-bp near-perfect palindromic repeat as containing the AibR operator and provide evidence that AibR also controls an additional genomic locus coding for a putative acetyl-CoA acetyltransferase. To elucidate atomic details, we determined crystal structures of AibR in the apo, the IV-CoA- and the IV-CoA-DNA-bound state to 1.7 Å, 2.35 Å and 2.92 Å, respectively. IV-CoA induces partial unfolding of an α-helix, which allows sequence-specific interactions between AibR and its operator. This study provides insights into AibR-mediated regulation and shows that AibR functions in an unusual TetR-like manner by blocking transcription not in the ligand-free but in the effector-bound state.
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Affiliation(s)
- Tobias Bock
- Structure and Function of Proteins, Helmholtz Centre for Infection Research, Inhoffenstr. 7, 38124 Braunschweig, Germany
| | - Carsten Volz
- Structural Biology of Autophagy, Helmholtz Centre for Infection Research, Inhoffenstr. 7, 38124 Braunschweig, Germany
| | - Vanessa Hering
- Structure and Function of Proteins, Helmholtz Centre for Infection Research, Inhoffenstr. 7, 38124 Braunschweig, Germany
| | - Andrea Scrima
- Department of Microbial Natural Products, Helmholtz Institute for Pharmaceutical Research Saarland, Helmholtz Centre for Infection Research, Saarland University, 66123 Saarbrücken, Germany
| | - Rolf Müller
- Structural Biology of Autophagy, Helmholtz Centre for Infection Research, Inhoffenstr. 7, 38124 Braunschweig, Germany
| | - Wulf Blankenfeldt
- Structure and Function of Proteins, Helmholtz Centre for Infection Research, Inhoffenstr. 7, 38124 Braunschweig, Germany.,Institute for Biochemistry, Biotechnology and Bioinformatics, Technische Universität Braunschweig, Spielmannstr. 7, 38106 Braunschweig, Germany
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17
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Britton J, Dyer RP, Majumdar S, Raston CL, Weiss GA. Ten-Minute Protein Purification and Surface Tethering for Continuous-Flow Biocatalysis. Angew Chem Int Ed Engl 2017; 56:2296-2301. [PMID: 28133915 PMCID: PMC5480406 DOI: 10.1002/anie.201610821] [Citation(s) in RCA: 40] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2016] [Revised: 12/20/2016] [Indexed: 11/07/2022]
Abstract
Nature applies enzymatic assembly lines to synthesize bioactive compounds. Inspired by such capabilities, we have developed a facile method for spatially segregating attached enzymes in a continuous-flow, vortex fluidic device (VFD). Fused Hisn -tags at the protein termini allow rapid bioconjugation and consequent purification through complexation with immobilized metal affinity chromatography (IMAC) resin. Six proteins were purified from complex cell lysates to average homogeneities of 76 %. The most challenging to purify, tobacco epi-aristolochene synthase, was purified in only ten minutes from cell lysate to near homogeneity (>90 %). Furthermore, this "reaction-ready" system demonstrated excellent stability during five days of continuous-flow processing. Towards multi-step transformations in continuous flow, proteins were arrayed as ordered zones on the reactor surface allowing segregation of catalysts. Ordering enzymes into zones opens up new opportunities for continuous-flow biosynthesis.
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Affiliation(s)
- Joshua Britton
- Departments of Chemistry, Molecular Biology and Biochemistry, University of California, Irvine, CA, 92697-2025, USA
- Centre for NanoScale Science and Technology, Flinders University, Bedford Park, Adelaide, 5001, Australia
| | - Rebekah P Dyer
- Departments of Chemistry, Molecular Biology and Biochemistry, University of California, Irvine, CA, 92697-2025, USA
| | - Sudipta Majumdar
- Departments of Chemistry, Molecular Biology and Biochemistry, University of California, Irvine, CA, 92697-2025, USA
| | - Colin L Raston
- Centre for NanoScale Science and Technology, Flinders University, Bedford Park, Adelaide, 5001, Australia
| | - Gregory A Weiss
- Departments of Chemistry, Molecular Biology and Biochemistry, University of California, Irvine, CA, 92697-2025, USA
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18
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Britton J, Dyer RP, Majumdar S, Raston CL, Weiss GA. Ten-Minute Protein Purification and Surface Tethering for Continuous-Flow Biocatalysis. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201610821] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Joshua Britton
- Departments of Chemistry, Molecular Biology and Biochemistry; University of California; Irvine CA 92697-2025 USA
- Centre for NanoScale Science and Technology; Flinders University; Bedford Park Adelaide 5001 Australia
| | - Rebekah P. Dyer
- Departments of Chemistry, Molecular Biology and Biochemistry; University of California; Irvine CA 92697-2025 USA
| | - Sudipta Majumdar
- Departments of Chemistry, Molecular Biology and Biochemistry; University of California; Irvine CA 92697-2025 USA
| | - Colin L. Raston
- Centre for NanoScale Science and Technology; Flinders University; Bedford Park Adelaide 5001 Australia
| | - Gregory A. Weiss
- Departments of Chemistry, Molecular Biology and Biochemistry; University of California; Irvine CA 92697-2025 USA
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19
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Kuzikov AV, Masamrekh RA, Khatri Y, Zavialova MG, Bernhardt R, Archakov AI, Shumyantseva VV. Scrutiny of electrochemically-driven electrocatalysis of C-19 steroid 1α-hydroxylase (CYP260A1) from Sorangium cellulosum So ce56. Anal Biochem 2016; 513:28-35. [PMID: 27567992 DOI: 10.1016/j.ab.2016.08.016] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2016] [Revised: 08/17/2016] [Accepted: 08/19/2016] [Indexed: 01/08/2023]
Abstract
Direct electrochemistry and bioelectrocatalysis of a newly discovered C-19 steroid 1α-hydroxylase (CYP260A1) from the myxobacterium Sorangium cellulosum So ce56 were investigated. CYP260A1 was immobilized on screen-printed graphite electrodes (SPE) modified with gold nanoparticles, stabilized by didodecyldimethylammonium bromide (SPE/DDAB/Au). Cyclic voltammograms in argon-saturated substrate free 0.1 M potassium phosphate buffer, pH 7.4, and in enzyme-substrate complex with androstenedione demonstrated a redox processes with a single redox couple of E(0') of -299 ± 16 mV and -297.5 ± 21 mV (vs. Ag/AgCl), respectively. CYP260A1 exhibited an electrocatalytic activity detected by an increase of the reduction current in the presence of dissolved oxygen and upon addition of the substrate (androstenedione) in the air-saturated buffer. The catalytic current of the enzyme correlated with substrate concentration in the electrochemical system and this dependence can be described by electrochemical Michaelis-Menten model. The products of CYP260A1-depended electrolysis at controlled working electrode potential of androstenedione were analyzed by mass-spectrometry. MS analysis revealed a mono-hydroxylated product of CYP260A1-dependent electrocatalytic reaction towards androstenedione.
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Affiliation(s)
- Alexey V Kuzikov
- Institute of Biomedical Chemistry, Pogodinskaya Street, 10, Moscow 119121, Russia; Pirogov Russian National Research Medical University, Ostrovitianov Street, 1, Moscow 117997, Russia
| | - Rami A Masamrekh
- Institute of Biomedical Chemistry, Pogodinskaya Street, 10, Moscow 119121, Russia; Pirogov Russian National Research Medical University, Ostrovitianov Street, 1, Moscow 117997, Russia
| | - Yogan Khatri
- Institute of Biochemistry, Saarland University, Saarbruecken 66123, Germany
| | - Maria G Zavialova
- Institute of Biomedical Chemistry, Pogodinskaya Street, 10, Moscow 119121, Russia
| | - Rita Bernhardt
- Institute of Biochemistry, Saarland University, Saarbruecken 66123, Germany
| | - Alexander I Archakov
- Institute of Biomedical Chemistry, Pogodinskaya Street, 10, Moscow 119121, Russia; Pirogov Russian National Research Medical University, Ostrovitianov Street, 1, Moscow 117997, Russia
| | - Victoria V Shumyantseva
- Institute of Biomedical Chemistry, Pogodinskaya Street, 10, Moscow 119121, Russia; Pirogov Russian National Research Medical University, Ostrovitianov Street, 1, Moscow 117997, Russia.
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20
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Bock T, Reichelt J, Müller R, Blankenfeldt W. The Structure of LiuC, a 3-Hydroxy-3-Methylglutaconyl CoA Dehydratase Involved in Isovaleryl-CoA Biosynthesis in Myxococcus xanthus, Reveals Insights into Specificity and Catalysis. Chembiochem 2016; 17:1658-64. [PMID: 27271456 DOI: 10.1002/cbic.201600225] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2016] [Indexed: 11/11/2022]
Abstract
Myxobacteria are able to produce the important metabolite isovaleryl coenzyme A by a route other than leucine degradation. The first step into this pathway is mediated by LiuC, a member of the 3-methylglutaconyl CoA hydratases (MGCH). Here we present crystal structures refined to 2.05 and 1.1 Å of LiuC in the apo form and bound to coenzyme A, respectively. By using simulated annealing we modeled the enzyme substrate complex and identified residues potentially involved in substrate binding, specificity, and catalysis. The dehydration of 3-hydroxy-3-methylglutaconyl CoA to 3-methylglutaconyl CoA catalyzed by LiuC involves Glu112 and Glu132 and likely employs the typical crotonase acid-base mechanism. In this, Tyr231 and Arg69 are key players in positioning the substrate to enable catalysis. Surprisingly, LiuC shows higher sequence and structural similarity to human MGCH than to bacterial forms, although they convert the same substrate. This study provides structural insights into the alternative isovaleryl coenzyme A biosynthesis pathway and might open a path for biofuel research, as isovaleryl-CoA is a source for isobutene, a precursor for renewable fuels and chemicals.
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Affiliation(s)
- Tobias Bock
- Structure and Function of Proteins, Helmholtz Centre for Infection Research, Inhoffenstrasse 7, 38124, Braunschweig, Germany
| | - Joachim Reichelt
- Structure and Function of Proteins, Helmholtz Centre for Infection Research, Inhoffenstrasse 7, 38124, Braunschweig, Germany
| | - Rolf Müller
- Department of Microbial Natural Products, Helmholtz Institute for Pharmaceutical Research Saarland, Centre for Infection Research and Pharmaceutical Biotechnology, Saarland University, Universitätscampus, Gebäude E8 1, 66123, Saarbrücken, Germany
| | - Wulf Blankenfeldt
- Structure and Function of Proteins, Helmholtz Centre for Infection Research, Inhoffenstrasse 7, 38124, Braunschweig, Germany. .,Institut für Biochemie, Biotechnologie und Bioinformatik, Technische Universität Braunschweig, Spielmannstrasse 7, 38106, Braunschweig, Germany.
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21
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Shumyantseva V, Kuzikov A, Masamrekh R, Khatri Y, Zavialova M, Bernhardt R, Archakov A. Direct electrochemistry of CYP109C1, CYP109C2 and CYP109D1 from Sorangium cellulosum So ce56. Electrochim Acta 2016. [DOI: 10.1016/j.electacta.2016.01.162] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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22
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Wang H, Sivonen K, Fewer DP. Genomic insights into the distribution, genetic diversity and evolution of polyketide synthases and nonribosomal peptide synthetases. Curr Opin Genet Dev 2015; 35:79-85. [PMID: 26605685 DOI: 10.1016/j.gde.2015.10.004] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2015] [Revised: 10/20/2015] [Accepted: 10/21/2015] [Indexed: 11/18/2022]
Abstract
Polyketides and nonribosomal peptides are important secondary metabolites that exhibit enormous structural diversity, have many pharmaceutical applications, and include a number of clinically important drugs. These complex metabolites are most commonly synthesized on enzymatic assembly lines of polyketide synthases and nonribosomal peptide synthetases. Genome-mining studies making use of the recent explosion in the number of genome sequences have demonstrated unexpected enzymatic diversity and greatly expanded the known distribution of these enzyme systems across the three domains of life. The wealth of data now available suggests that genome-mining efforts will uncover new natural products, novel biosynthetic mechanisms, and shed light on the origin and evolution of these important enzymes.
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Affiliation(s)
- Hao Wang
- Division of Microbiology and Biotechnology, Department of Food and Environmental Sciences, University of Helsinki, FIN-00014 Helsinki, Finland.
| | - Kaarina Sivonen
- Division of Microbiology and Biotechnology, Department of Food and Environmental Sciences, University of Helsinki, FIN-00014 Helsinki, Finland
| | - David P Fewer
- Division of Microbiology and Biotechnology, Department of Food and Environmental Sciences, University of Helsinki, FIN-00014 Helsinki, Finland
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23
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Sucipto H, Sahner JH, Prusov E, Wenzel SC, Hartmann RW, Koehnke J, Müller R. In vitro reconstitution of α-pyrone ring formation in myxopyronin biosynthesis. Chem Sci 2015; 6:5076-5085. [PMID: 29308173 PMCID: PMC5724707 DOI: 10.1039/c5sc01013f] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2015] [Accepted: 05/14/2015] [Indexed: 12/22/2022] Open
Abstract
Myxopyronins are α-pyrone antibiotics produced by the terrestrial bacterium Myxococcus fulvus Mx f50 and possess antibacterial activity against Gram-positive and Gram-negative pathogens. They target the bacterial RNA polymerase (RNAP) "switch region" as non-competitive inhibitors and display no cross-resistance to the established RNAP inhibitor rifampicin. Recent analysis of the myxopyronin biosynthetic pathway led to the hypothesis that this secondary metabolite is produced from two separate polyketide parts, which are condensed by the stand-alone ketosynthase MxnB. Using in vitro assays we show that MxnB catalyzes a unique condensation reaction forming the α-pyrone ring of myxopyronins from two activated acyl chains in form of their β-keto intermediates. MxnB is able to accept thioester substrates coupled to either N-acetylcysteamine (NAC) or a specific carrier protein (CP). The turnover rate of MxnB for substrates bound to CP was 12-fold higher than for NAC substrates, demonstrating the importance of protein-protein interactions in polyketide synthase (PKS) systems. The crystal structure of MxnB reveals the enzyme to be an unusual member of the ketosynthase group capable of binding and condensing two long alkyl chains bound to carrier proteins. The geometry of the two binding tunnels supports the biochemical data and allows us to propose an order of reaction, which is supported by the identification of novel myxopyronin congeners in the extract of the producer strain. Insights into the mechanism of this unique condensation reaction do not only expand our knowledge regarding the thiolase enzyme family but also opens up opportunities for PKS bioengineering to achieve directed structural modifications.
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Affiliation(s)
- H Sucipto
- Department of Microbial Natural Products , Helmholtz Institute for Pharmaceutical Research Saarland , Building C2 3 , 66123 Saarbrücken , Germany .
| | - J H Sahner
- Department of Drug Design and Optimization , Helmholtz Institute for Pharmaceutical Research Saarland , Pharmaceutical and Medicinal Chemistry , Saarland University , Building C2 3 , 66123 Saarbrücken , Germany
| | - E Prusov
- Helmholtz Centre for Infection Research , Inhoffenstrasse 7 , 38124 Braunschweig , Germany
| | - S C Wenzel
- Department of Microbial Natural Products , Helmholtz Institute for Pharmaceutical Research Saarland , Building C2 3 , 66123 Saarbrücken , Germany .
| | - R W Hartmann
- Department of Drug Design and Optimization , Helmholtz Institute for Pharmaceutical Research Saarland , Pharmaceutical and Medicinal Chemistry , Saarland University , Building C2 3 , 66123 Saarbrücken , Germany
| | - J Koehnke
- Workgroup Structural Biology of Biosynthetic Enzymes , Helmholtz Institute for Pharmaceutical Research Saarland , Building C2 2 , 66123 Saarbrücken , Germany .
| | - R Müller
- Department of Microbial Natural Products , Helmholtz Institute for Pharmaceutical Research Saarland , Building C2 3 , 66123 Saarbrücken , Germany .
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24
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25
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Oßwald C, Zaburannyi N, Burgard C, Hoffmann T, Wenzel SC, Müller R. A highly unusual polyketide synthase directs dawenol polyene biosynthesis in Stigmatella aurantiaca. J Biotechnol 2014; 191:54-63. [DOI: 10.1016/j.jbiotec.2014.07.447] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2014] [Revised: 07/17/2014] [Accepted: 07/25/2014] [Indexed: 01/29/2023]
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26
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Focken T, Hanessian S. Application of cyclic phosphonamide reagents in the total synthesis of natural products and biologically active molecules. Beilstein J Org Chem 2014; 10:1848-77. [PMID: 25246946 PMCID: PMC4168934 DOI: 10.3762/bjoc.10.195] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2014] [Accepted: 06/26/2014] [Indexed: 12/12/2022] Open
Abstract
A review of the synthesis of natural products and bioactive compounds adopting phosphonamide anion technology is presented highlighting the utility of phosphonamide reagents in stereocontrolled bond-forming reactions. Methodologies utilizing phosphonamide anions in asymmetric alkylations, Michael additions, olefinations, and cyclopropanations will be summarized, as well as an overview of the synthesis of the employed phosphonamide reagents.
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Affiliation(s)
- Thilo Focken
- Xenon Pharmaceuticals Inc., 3650 Gilmore Way, Burnaby, BC V5G 4W8, Canada
| | - Stephen Hanessian
- Department of Chemistry, Université de Montréal, C.P. 6128, Succursale Centre-Ville, Montréal, QC H3C 3J7, Canada
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27
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Van Wagoner RM, Satake M, Wright JLC. Polyketide biosynthesis in dinoflagellates: what makes it different? Nat Prod Rep 2014; 31:1101-37. [DOI: 10.1039/c4np00016a] [Citation(s) in RCA: 56] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
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28
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Atlas of nonribosomal peptide and polyketide biosynthetic pathways reveals common occurrence of nonmodular enzymes. Proc Natl Acad Sci U S A 2014; 111:9259-64. [PMID: 24927540 DOI: 10.1073/pnas.1401734111] [Citation(s) in RCA: 221] [Impact Index Per Article: 22.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023] Open
Abstract
Nonribosomal peptides and polyketides are a diverse group of natural products with complex chemical structures and enormous pharmaceutical potential. They are synthesized on modular nonribosomal peptide synthetase (NRPS) and polyketide synthase (PKS) enzyme complexes by a conserved thiotemplate mechanism. Here, we report the widespread occurrence of NRPS and PKS genetic machinery across the three domains of life with the discovery of 3,339 gene clusters from 991 organisms, by examining a total of 2,699 genomes. These gene clusters display extraordinarily diverse organizations, and a total of 1,147 hybrid NRPS/PKS clusters were found. Surprisingly, 10% of bacterial gene clusters lacked modular organization, and instead catalytic domains were mostly encoded as separate proteins. The finding of common occurrence of nonmodular NRPS differs substantially from the current classification. Sequence analysis indicates that the evolution of NRPS machineries was driven by a combination of common descent and horizontal gene transfer. We identified related siderophore NRPS gene clusters that encoded modular and nonmodular NRPS enzymes organized in a gradient. A higher frequency of the NRPS and PKS gene clusters was detected from bacteria compared with archaea or eukarya. They commonly occurred in the phyla of Proteobacteria, Actinobacteria, Firmicutes, and Cyanobacteria in bacteria and the phylum of Ascomycota in fungi. The majority of these NRPS and PKS gene clusters have unknown end products highlighting the power of genome mining in identifying novel genetic machinery for the biosynthesis of secondary metabolites.
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29
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Krug D, Müller R. Secondary metabolomics: the impact of mass spectrometry-based approaches on the discovery and characterization of microbial natural products. Nat Prod Rep 2014; 31:768-83. [DOI: 10.1039/c3np70127a] [Citation(s) in RCA: 107] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
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30
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Reimer D, Bode HB. A natural prodrug activation mechanism in the biosynthesis of nonribosomal peptides. Nat Prod Rep 2014; 31:154-9. [DOI: 10.1039/c3np70081j] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Abstract
ThisHighlightdescribes the recently discovered prodrug activation mechanism found in the biosynthesis of nonribosomally produced peptides and peptide/polyketide hybrids as well as related mechanisms.
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Affiliation(s)
- Daniela Reimer
- Merck Stiftungsprofessur für Molekulare Biotechnologie
- Fachbereich Biowissenschaften
- Goethe Universität Frankfurt
- 60438 Frankfurt am Main, Germany
| | - Helge B. Bode
- Merck Stiftungsprofessur für Molekulare Biotechnologie
- Fachbereich Biowissenschaften
- Goethe Universität Frankfurt
- 60438 Frankfurt am Main, Germany
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31
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Gulder TAM, Neff S, Schüz T, Winkler T, Gees R, Böhlendorf B. The myxocoumarins A and B from Stigmatella aurantiaca strain MYX-030. Beilstein J Org Chem 2013; 9:2579-85. [PMID: 24367422 PMCID: PMC3869339 DOI: 10.3762/bjoc.9.293] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2013] [Accepted: 11/01/2013] [Indexed: 11/23/2022] Open
Abstract
The myxobacterial strain Stigmatella aurantiaca MYX-030 was selected as promising source for the discovery of new biologically active natural products by our screening methodology. The isolation, structure elucidation and initial biological evaluation of the myxocoumarins derived from this strain are described in this work. These compounds comprise an unusual structural framework and exhibit remarkable antifungal properties.
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Affiliation(s)
- Tobias A M Gulder
- Kekulé Institute of Organic Chemistry and Biochemistry, University of Bonn, Gerhard-Domagk-Straβe 1, 53121 Bonn, Germany
| | - Snežana Neff
- Syngenta Crop Protection AG, CH-4002 Basel, Switzerland
| | | | - Tammo Winkler
- Syngenta Crop Protection AG, CH-4002 Basel, Switzerland
| | - René Gees
- Syngenta Crop Protection AG, CH-4002 Basel, Switzerland
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32
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Viehrig K, Surup F, Harmrolfs K, Jansen R, Kunze B, Müller R. Concerted Action of P450 Plus Helper Protein To Form the Amino-hydroxy-piperidone Moiety of the Potent Protease Inhibitor Crocapeptin. J Am Chem Soc 2013; 135:16885-94. [DOI: 10.1021/ja4047153] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Konrad Viehrig
- Helmholtz
Institute for Pharmaceutical Research Saarland, Helmholtz Centre for
Infection Research, and Department of Pharmaceutical Biotechnology, Saarland University, Building C 2.3, D-66123, Saarbrücken, Germany
| | - Frank Surup
- Department
of Microbial Drugs, Helmholtz Centre for Infection Research, Inhoffenstrasse
7, D-38124, Braunschweig, Germany
| | - Kirsten Harmrolfs
- Helmholtz
Institute for Pharmaceutical Research Saarland, Helmholtz Centre for
Infection Research, and Department of Pharmaceutical Biotechnology, Saarland University, Building C 2.3, D-66123, Saarbrücken, Germany
| | - Rolf Jansen
- Department
of Microbial Drugs, Helmholtz Centre for Infection Research, Inhoffenstrasse
7, D-38124, Braunschweig, Germany
| | - Brigitte Kunze
- Helmholtz Centre for Infection Research, Department
of Microbial Communication, Inhoffenstrasse 7, D-38124, Braunschweig, Germany
| | - Rolf Müller
- Helmholtz
Institute for Pharmaceutical Research Saarland, Helmholtz Centre for
Infection Research, and Department of Pharmaceutical Biotechnology, Saarland University, Building C 2.3, D-66123, Saarbrücken, Germany
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Kretschmer M, Dieckmann M, Li P, Rudolph S, Herkommer D, Troendlin J, Menche D. Modular Total Synthesis of Rhizopodin: A Highly Potent G-Actin Dimerizing Macrolide. Chemistry 2013; 19:15993-6018. [DOI: 10.1002/chem.201302197] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2013] [Indexed: 01/13/2023]
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Müller R, Wink J. Future potential for anti-infectives from bacteria - how to exploit biodiversity and genomic potential. Int J Med Microbiol 2013; 304:3-13. [PMID: 24119567 DOI: 10.1016/j.ijmm.2013.09.004] [Citation(s) in RCA: 72] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023] Open
Abstract
The early stages of antibiotic development include the identification of novel hit compounds. Since actinomycetes and myxobacteria are still the most important natural sources of active metabolites, we provide an overview on these producers and discuss three of the most promising approaches toward finding novel anti-infectives from microorganisms. These are defined as the use of biodiversity to find novel producers, the variation of culture conditions and induction of silent genes, and the exploitation of the genomic potential of producers via "genome mining". Challenges that exist beyond compound discovery are outlined in the last section.
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Affiliation(s)
- Rolf Müller
- Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), P.O. Box 151150, 66041 Saarbrücken, Germany; Helmholtz Centre for Infectious Research (HZI), Inhoffenstrasse 7, 38124 Braunschweig, Germany
| | - Joachim Wink
- Helmholtz Centre for Infectious Research (HZI), Inhoffenstrasse 7, 38124 Braunschweig, Germany.
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Li Y, Luxenburger E, Müller R. An alternative isovaleryl CoA biosynthetic pathway involving a previously unknown 3-methylglutaconyl CoA decarboxylase. Angew Chem Int Ed Engl 2012; 52:1304-8. [PMID: 23225771 DOI: 10.1002/anie.201207984] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2012] [Indexed: 11/08/2022]
Affiliation(s)
- Yanyan Li
- Helmholtz Institut für Pharmazeutische Forschung Saarland, Helmholtz Zentrum für Infektionsforschung und Pharmazeutische Biotechnologie, Universität des Saarlandes, 66041 Saarbrücken, Germany
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Li Y, Luxenburger E, Müller R. Ein alternativer Isovaleryl-CoA-Biosyntheseweg: Beteiligung einer bisher unbekannten 3-Methylglutaconyl-CoA-Decarboxylase. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/ange.201207984] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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ZHU LP, Li ZF, HAN K, LI SG, LI YZ. Novel Characters of Myxobacterial Modular Natural Product Assembly Lines*. PROG BIOCHEM BIOPHYS 2012. [DOI: 10.3724/sp.j.1206.2011.00325] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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Smoum R, Rubinstein A, Dembitsky VM, Srebnik M. Boron containing compounds as protease inhibitors. Chem Rev 2012; 112:4156-220. [PMID: 22519511 DOI: 10.1021/cr608202m] [Citation(s) in RCA: 303] [Impact Index Per Article: 25.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Reem Smoum
- The School of Pharmacy, Institute for Drug Research, The Hebrew University of Jerusalem, Faculty of Medicine, Jerusalem, Israel.
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Heterologous Expression and Genetic Engineering of the Tubulysin Biosynthetic Gene Cluster Using Red/ET Recombineering and Inactivation Mutagenesis. ACTA ACUST UNITED AC 2012; 19:361-71. [DOI: 10.1016/j.chembiol.2012.01.007] [Citation(s) in RCA: 52] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2011] [Revised: 12/22/2011] [Accepted: 01/02/2012] [Indexed: 11/18/2022]
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Brinkhoff T, Fischer D, Vollmers J, Voget S, Beardsley C, Thole S, Mussmann M, Kunze B, Wagner-Döbler I, Daniel R, Simon M. Biogeography and phylogenetic diversity of a cluster of exclusively marine myxobacteria. ISME JOURNAL 2011; 6:1260-72. [PMID: 22189493 DOI: 10.1038/ismej.2011.190] [Citation(s) in RCA: 50] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
Myxobacteria are common in terrestrial habitats and well known for their formation of fruiting bodies and production of secondary metabolites. We studied a cluster of myxobacteria consisting only of sequences of marine origin (marine myxobacteria cluster, MMC) in sediments of the North Sea. Using a specific PCR, MMC sequences were detected in North Sea sediments down to 2.2 m depth, but not in the limnetic section of the Weser estuary and other freshwater habitats. In the water column, this cluster was only detected on aggregates up to a few meters above the sediment surface, but never in the fraction of free-living bacteria. A quantitative real-time PCR approach revealed that the MMC constituted up to 13% of total bacterial 16S rRNA genes in surface sediments of the North Sea. In a global survey, including sediments from the Mediterranean Sea, the Atlantic, Pacific and Indian Ocean and various climatic regions, the MMC was detected in most samples and to a water depth of 4300 m. Two fosmids of a library from sediment of the southern North Sea containing 16S rRNA genes affiliated with the MMC were sequenced. Both fosmids have a single unlinked 16S rRNA gene and no complete rRNA operon as found in most bacteria. No synteny to other myxobacterial genomes was found. The highest numbers of orthologues for both fosmids were assigned to Sorangium cellulosum and Haliangium ochraceum. Our results show that the MMC is an important and widely distributed but largely unknown component of marine sediment-associated bacterial communities.
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Affiliation(s)
- Thorsten Brinkhoff
- Institute for Chemistry and Biology of the Marine Environment, University of Oldenburg, Oldenburg, Germany.
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Floyd WC, Datta GK, Imamura S, Kieler-Ferguson HM, Jerger K, Patterson AW, Fox ME, Szoka FC, Fréchet JMJ, Ellman JA. Chemotherapeutic evaluation of a synthetic tubulysin analogue-dendrimer conjugate in c26 tumor bearing mice. ChemMedChem 2011; 6:49-53. [PMID: 20973119 DOI: 10.1002/cmdc.201000377] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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Stec E, Pistorius D, Müller R, Li SM. AuaA, a Membrane-Bound Farnesyltransferase from Stigmatella aurantiaca, Catalyzes the Prenylation of 2-Methyl-4-hydroxyquinoline in the Biosynthesis of Aurachins. Chembiochem 2011; 12:1724-30. [DOI: 10.1002/cbic.201100188] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2011] [Indexed: 01/05/2023]
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Cortina NS, Revermann O, Krug D, Müller R. Identification and Characterization of the Althiomycin Biosynthetic Gene Cluster in Myxococcus xanthus DK897. Chembiochem 2011; 12:1411-6. [DOI: 10.1002/cbic.201100154] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2011] [Indexed: 11/06/2022]
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Khatri Y, Hannemann F, Perlova O, Müller R, Bernhardt R. Investigation of cytochromes P450 in myxobacteria: Excavation of cytochromes P450 from the genome ofSorangium cellulosumSo ce56. FEBS Lett 2011; 585:1506-13. [DOI: 10.1016/j.febslet.2011.04.035] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2011] [Revised: 04/13/2011] [Accepted: 04/14/2011] [Indexed: 10/18/2022]
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Burkhart JL, Müller R, Kazmaier U. Syntheses and Evaluation of Simplified Pretubulysin Analogues. European J Org Chem 2011. [DOI: 10.1002/ejoc.201100155] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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Keck M, Gisch N, Moll H, Vorhölter FJ, Gerth K, Kahmann U, Lissel M, Lindner B, Niehaus K, Holst O. Unusual outer membrane lipid composition of the gram-negative, lipopolysaccharide-lacking myxobacterium Sorangium cellulosum So ce56. J Biol Chem 2011; 286:12850-9. [PMID: 21321121 PMCID: PMC3075632 DOI: 10.1074/jbc.m110.194209] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2010] [Revised: 02/11/2011] [Indexed: 11/06/2022] Open
Abstract
The gram-negative myxobacterium Sorangium cellulosum So ce56 bears the largest bacterial genome published so far, coding for nearly 10,000 genes. Careful analysis of this genome data revealed that part of the genes coding for the very well conserved biosynthesis of lipopolysaccharides (LPS) are missing in this microbe. Biochemical analysis gave no evidence for the presence of LPS in the membranes of So ce56. By analyzing the lipid composition of its outer membrane sphingolipids were identified as the major lipid class, together with ornithine-containing lipids (OL) and ether lipids. A detailed analysis of these lipids resulted in the identification of more than 50 structural variants within these three classes, which possessed several interesting properties regarding to LPS replacement, mediators in myxobacterial differentiation, as well as potential bioactive properties. The sphingolipids with the basic structure C9-methyl-C(20)-sphingosine possessed as an unusual trait C9-methylation, which is common to fungi but highly uncommon to bacteria. Such sphingolipids have not been found in bacteria before, and they may have a function in myxobacterial development. The OL, also identified in myxobacteria for the first time, contained acyloxyacyl groups, which are also characteristic for LPS and might replace those in certain functions. Finally, the ether lipids may serve as biomarkers in myxobacterial development.
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Affiliation(s)
- Matthias Keck
- From the Department of Proteome and Metabolome Research, Faculty of Biology and
| | | | | | | | - Klaus Gerth
- the Research Group Microbial Drugs, Helmholtz Center for Infection Research, Inhoffenstrasse 7, 38124 Braunschweig, Germany
| | - Uwe Kahmann
- ZUD in the IIT GmbH, Bielefeld University, Universitätsstrasse 25, 33615 Bielefeld, Germany
| | - Manfred Lissel
- From the Department of Proteome and Metabolome Research, Faculty of Biology and
| | | | - Karsten Niehaus
- From the Department of Proteome and Metabolome Research, Faculty of Biology and
| | - Otto Holst
- Structural Biochemistry, Research Center Borstel, Leibniz-Center for Medicine and Biosciences, Parkallee 4a/c, 23845 Borstel, Germany, and
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Kopp M, Irschik H, Gemperlein K, Buntin K, Meiser P, Weissman KJ, Bode HB, Müller R. Insights into the complex biosynthesis of the leupyrrins in Sorangium cellulosum So ce690. MOLECULAR BIOSYSTEMS 2011; 7:1549-63. [PMID: 21365089 DOI: 10.1039/c0mb00240b] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
The anti-fungal leupyrrins are secondary metabolites produced by several strains of the myxobacterium Sorangium cellulosum. These intriguing compounds incorporate an atypically substituted γ-butyrolactone ring, as well as pyrrole and oxazolinone functionalities, which are located within an unusual asymmetrical macrodiolide. Previous feeding studies revealed that this novel structure arises from the homologation of four distinct structural units, nonribosomally-derived peptide, polyketide, isoprenoid and a dicarboxylic acid, coupled with modification of the various building blocks. Here we have attempted to reconcile the biosynthetic pathway proposed on the basis of the feeding studies with the underlying enzymatic machinery in the S. cellulosum strain So ce690. Gene products can be assigned to many of the suggested steps, but inspection of the gene set provokes the reconsideration of several key transformations. We support our analysis by the reconstitution in vitro of the biosynthesis of the pyrrole carboxylic starter unit along with gene inactivation. In addition, this study reveals that a significant proportion of the genes for leupyrrin biosynthesis are located outside the core cluster, a 'split' organization which is increasingly characteristic of the myxobacteria. Finally, we report the generation of four novel deshydroxy leupyrrin analogues by genetic engineering of the pathway.
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Affiliation(s)
- Maren Kopp
- Helmholtz Institute for Pharmaceutical Research, Helmholtz Center for Infection Research and Department of Pharmaceutical Biotechnology, Saarland University, PO Box 151150, 66041 Saarbrücken, Germany
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Irschik H, Kopp M, Weissman KJ, Buntin K, Piel J, Müller R. Analysis of the sorangicin gene cluster reinforces the utility of a combined phylogenetic/retrobiosynthetic analysis for deciphering natural product assembly by trans-AT PKS. Chembiochem 2011; 11:1840-9. [PMID: 20715267 DOI: 10.1002/cbic.201000313] [Citation(s) in RCA: 63] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Herbert Irschik
- Microbial Drugs, Helmholtz Center for Infection Research, Inhoffenstrasse 7, 38124 Braunschweig, Germany
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Pistorius D, Li Y, Sandmann A, Müller R. Completing the puzzle of aurachin biosynthesis in Stigmatella aurantiaca Sg a15. MOLECULAR BIOSYSTEMS 2011; 7:3308-15. [DOI: 10.1039/c1mb05328k] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
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50
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The CYPome of Sorangium cellulosum So ce56 and Identification of CYP109D1 as a New Fatty Acid Hydroxylase. ACTA ACUST UNITED AC 2010; 17:1295-305. [DOI: 10.1016/j.chembiol.2010.10.010] [Citation(s) in RCA: 47] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2010] [Revised: 09/13/2010] [Accepted: 10/08/2010] [Indexed: 01/22/2023]
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