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Li X, Liu Y. Multiscale Study on the Intramolecular C-S Bond Formation Catalyzed by P450 Monooxygenase CxnD Involved in the Biosynthesis of Chuangxinmycin: The Critical Roles of Noncrystal Water Molecule and Conformational Change. Inorg Chem 2024; 63:4086-4098. [PMID: 38376137 DOI: 10.1021/acs.inorgchem.3c03748] [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: 02/21/2024]
Abstract
Cytochrome P450 monooxygenase CxnD catalyzes intramolecular C-S bond formation in the biosynthesis of chuangxinmycin, which is representative of the synthesis of sulfur-containing natural heterocyclic compounds. The intramolecular cyclization usually requires the activation of two reaction sites and a large conformational change; thus, illuminating its detailed reaction mechanism remains challengeable. Here, the reaction pathway of CxnD-catalyzed C-S bond formation was clarified by a series of calculations, including Gaussian accelerated molecular dynamics simulations and quantum mechanical-molecular mechanical calculations. Our results revealed that the C-S formation follows a diradical coupling mechanism. CxnD first employs Cpd I to abstract the hydrogen atom from the imino group of the indole ring, and then, the resulted Cpd II further extracts another hydrogen atom from the thiol group of the side chain to afford a diradical intermediate, in which a noncrystal water molecule entering into the active site after the formation of Cpd I was proved to play an indispensable role. Moreover, the diradical intermediate cannot directly perform the coupling reaction. It should first undergo a series of conformational changes leading to the proximity of two reaction sites. It is the flexibility of the active site of the enzyme and the side chain of the substrate that makes the diradical coupling to be successful.
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Affiliation(s)
- Xinyi Li
- School of Chemistry and Chemical Engineering, Shandong University, Jinan, Shandong 250100, China
| | - Yongjun Liu
- School of Chemistry and Chemical Engineering, Shandong University, Jinan, Shandong 250100, China
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2
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Vitorino IR, Pinto E, Martín J, Mackenzie TA, Ramos MC, Sánchez P, de la Cruz M, Vicente F, Vasconcelos V, Reyes F, Lage OM. Uncovering the biotechnological capacity of marine and brackish water Planctomycetota. Antonie Van Leeuwenhoek 2024; 117:26. [PMID: 38261060 PMCID: PMC10805854 DOI: 10.1007/s10482-023-01923-z] [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: 09/14/2023] [Accepted: 12/21/2023] [Indexed: 01/24/2024]
Abstract
An appealing strategy for finding novel bioactive molecules in Nature consists in exploring underrepresented and -studied microorganisms. Here, we investigated the antimicrobial and tumoral anti-proliferative bioactivities of twenty-three marine and estuarine bacteria of the fascinating phylum Planctomycetota. This was achieved through extraction of compounds produced by the Planctomycetota cultured in oligotrophic medium followed by an antimicrobial screening against ten relevant human pathogens including Gram-positive and Gram-negative bacteria, and fungi. Cytotoxic effects of the extracts were also evaluated against five tumoral cell lines. Moderate to potent activities were obtained against Enterococcus faecalis, methicillin-sensitive and methicillin-resistant Staphylococcus aureus and vancomycin-sensitive and vancomycin-resistant Enterococcus faecium. Anti-fungal effects were observed against Trichophyton rubrum, Candida albicans and Aspergillus fumigatus. The highest cytotoxic effects were observed against human breast, pancreas and melanoma tumoral cell lines. Novipirellula caenicola and Rhodopirellula spp. strains displayed the widest spectrum of bioactivities while Rubinisphaera margarita ICM_H10T affected all Gram-positive bacteria tested. LC-HRMS analysis of the extracts did not reveal the presence of any known bioactive natural product, suggesting that the observed activities are most likely caused by novel molecules, that need identification. In summary, we expanded the scope of planctomycetal species investigated for bioactivities and demonstrated that various strains are promising sources of novel bioactive compounds, which reenforces the potential biotechnological prospects offered by Planctomycetota.
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Affiliation(s)
- Inês R Vitorino
- Department of Biology, Faculty of Sciences, University of Porto, Rua Do Campo Alegre S/N, 4169-007, Porto, Portugal.
- CIIMAR/CIMAR, Interdisciplinary Centre of Marine and Environmental Research, Terminal de Cruzeiros Do Porto de Leixões, 4450-208, Matosinhos, Portugal.
| | - Eugénia Pinto
- CIIMAR/CIMAR, Interdisciplinary Centre of Marine and Environmental Research, Terminal de Cruzeiros Do Porto de Leixões, 4450-208, Matosinhos, Portugal
- Laboratory of Microbiology, Biological Sciences Department, Faculty of Pharmacy, University of Porto, 4050-313, Porto, Portugal
| | - Jesús Martín
- Fundación MEDINA, PTS Health Sciences Technology Park, Avenida del Conocimiento 34, 18016, Granada, Spain
| | - Thomas A Mackenzie
- Fundación MEDINA, PTS Health Sciences Technology Park, Avenida del Conocimiento 34, 18016, Granada, Spain
| | - Maria C Ramos
- Fundación MEDINA, PTS Health Sciences Technology Park, Avenida del Conocimiento 34, 18016, Granada, Spain
| | - Pilar Sánchez
- Fundación MEDINA, PTS Health Sciences Technology Park, Avenida del Conocimiento 34, 18016, Granada, Spain
| | - Mercedes de la Cruz
- Fundación MEDINA, PTS Health Sciences Technology Park, Avenida del Conocimiento 34, 18016, Granada, Spain
| | - Francisca Vicente
- Fundación MEDINA, PTS Health Sciences Technology Park, Avenida del Conocimiento 34, 18016, Granada, Spain
| | - Vítor Vasconcelos
- Department of Biology, Faculty of Sciences, University of Porto, Rua Do Campo Alegre S/N, 4169-007, Porto, Portugal
- CIIMAR/CIMAR, Interdisciplinary Centre of Marine and Environmental Research, Terminal de Cruzeiros Do Porto de Leixões, 4450-208, Matosinhos, Portugal
| | - Fernando Reyes
- Fundación MEDINA, PTS Health Sciences Technology Park, Avenida del Conocimiento 34, 18016, Granada, Spain
| | - Olga M Lage
- Department of Biology, Faculty of Sciences, University of Porto, Rua Do Campo Alegre S/N, 4169-007, Porto, Portugal
- CIIMAR/CIMAR, Interdisciplinary Centre of Marine and Environmental Research, Terminal de Cruzeiros Do Porto de Leixões, 4450-208, Matosinhos, Portugal
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3
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Adhikari A, Shakya S, Shrestha S, Aryal D, Timalsina KP, Dhakal D, Khatri Y, Parajuli N. Biocatalytic role of cytochrome P450s to produce antibiotics: A review. Biotechnol Bioeng 2023; 120:3465-3492. [PMID: 37691185 DOI: 10.1002/bit.28548] [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: 02/01/2023] [Revised: 08/15/2023] [Accepted: 08/26/2023] [Indexed: 09/12/2023]
Abstract
Cytochrome P450s belong to a family of heme-binding monooxygenases, which catalyze regio- and stereospecific functionalisation of C-H, C-C, and C-N bonds, including heteroatom oxidation, oxidative C-C bond cleavages, and nitrene transfer. P450s are considered useful biocatalysts for the production of pharmaceutical products, fine chemicals, and bioremediating agents. Despite having tremendous biotechnological potential, being heme-monooxygenases, P450s require either autologous or heterologous redox partner(s) to perform chemical transformations. Randomly distributed P450s throughout a bacterial genome and devoid of particular redox partners in natural products biosynthetic gene clusters (BGCs) showed an extra challenge to reveal their pharmaceutical potential. However, continuous efforts have been made to understand their involvement in antibiotic biosynthesis and their modification, and this review focused on such BGCs. Here, particularly, we have discussed the role of P450s involved in the production of macrolides and aminocoumarin antibiotics, nonribosomal peptide (NRPSs) antibiotics, ribosomally synthesized and post-translationally modified peptide (RiPPs) antibiotics, and others. Several reactions catalyzed by P450s, as well as the role of their redox partners involved in the BGCs of various antibiotics and their derivatives, have been primarily addressed in this review, which would be useful in further exploration of P450s for the biosynthesis of new therapeutics.
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Affiliation(s)
- Anup Adhikari
- Central Department of Chemistry, Tribhuvan University, Kirtipur, Kathmandu, Nepal
| | - Sajan Shakya
- Central Department of Chemistry, Tribhuvan University, Kirtipur, Kathmandu, Nepal
| | - Shreesti Shrestha
- Central Department of Chemistry, Tribhuvan University, Kirtipur, Kathmandu, Nepal
- Department of Chemistry and Biochemistry, Miami University, Oxford, Ohio, USA
| | - Dipa Aryal
- Central Department of Chemistry, Tribhuvan University, Kirtipur, Kathmandu, Nepal
| | - Kavi Prasad Timalsina
- Department of Biotechnology, National College, Tribhuvan University, Kathmandu, Nepal
| | - Dipesh Dhakal
- Department of Medicinal Chemistry, Center for Natural Products, Drug Discovery and Development, University of Florida, Gainesville, Florida, USA
| | | | - Niranjan Parajuli
- Central Department of Chemistry, Tribhuvan University, Kirtipur, Kathmandu, Nepal
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4
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Hu X, Shi Y, Jiang B, Fu J, Li X, Li S, Sun G, Ren W, Hu X, You X, Liu Z, Han X, Zhang T, Hong B, Wu L. Iterative Methylation Leads to 3-Methylchuangxinmycin Production in Actinoplanes tsinanensis CPCC 200056. JOURNAL OF NATURAL PRODUCTS 2023; 86:1-7. [PMID: 36649560 DOI: 10.1021/acs.jnatprod.2c00360] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/17/2023]
Abstract
A new congener of chuangxinmycin (CM) was identified from Actinoplanes tsinanensis CPCC 200056. Its structure was determined as 3-methylchuangxinmycin (MCM) by 1D and 2D NMR. MCM could be generated in vivo from CM by heterologous expression of the vitamin B12-dependent radical SAM enzyme CxnA/A1 responsible for methylation of 3-demethylchuangxinmycin (DCM) in CM biosynthesis, indicating that CxnA/A1 could perform iterative methylation for MCM production. In vitro assays revealed significant activities of CM, DCM, and MCM against Mycobacterium tuberculosis H37Rv and clinically isolated isoniazid/rifampin-resistant M. tuberculosis, suggesting that CM and its derivatives may have potential for antituberculosis drug development.
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Affiliation(s)
- Xiaomin Hu
- NHC Key Laboratory of Biotechnology of Antibiotics, and CAMS Key Laboratory of Synthetic Biology for Drug Innovation, Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100050, People's Republic of China
| | - Yuanyuan Shi
- NHC Key Laboratory of Biotechnology of Antibiotics, and CAMS Key Laboratory of Synthetic Biology for Drug Innovation, Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100050, People's Republic of China
| | - Bingya Jiang
- NHC Key Laboratory of Biotechnology of Antibiotics, and CAMS Key Laboratory of Synthetic Biology for Drug Innovation, Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100050, People's Republic of China
| | - Jie Fu
- NHC Key Laboratory of Biotechnology of Antibiotics, and CAMS Key Laboratory of Synthetic Biology for Drug Innovation, Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100050, People's Republic of China
| | - Xingxing Li
- NHC Key Laboratory of Biotechnology of Antibiotics, and CAMS Key Laboratory of Synthetic Biology for Drug Innovation, Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100050, People's Republic of China
| | - Shufen Li
- NHC Key Laboratory of Biotechnology of Antibiotics, and CAMS Key Laboratory of Synthetic Biology for Drug Innovation, Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100050, People's Republic of China
| | - Guizhi Sun
- NHC Key Laboratory of Biotechnology of Antibiotics, and CAMS Key Laboratory of Synthetic Biology for Drug Innovation, Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100050, People's Republic of China
| | - Weicong Ren
- NHC Key Laboratory of Biotechnology of Antibiotics, and CAMS Key Laboratory of Synthetic Biology for Drug Innovation, Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100050, People's Republic of China
| | - Xinxin Hu
- NHC Key Laboratory of Biotechnology of Antibiotics, and CAMS Key Laboratory of Synthetic Biology for Drug Innovation, Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100050, People's Republic of China
| | - Xuefu You
- NHC Key Laboratory of Biotechnology of Antibiotics, and CAMS Key Laboratory of Synthetic Biology for Drug Innovation, Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100050, People's Republic of China
| | - Zhiyong Liu
- State Key Laboratory of Respiratory Disease, China-New Zealand Joint Laboratory of Biomedicine and Health, Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences, Guangzhou 510530, People's Republic of China
| | - Xingli Han
- State Key Laboratory of Respiratory Disease, China-New Zealand Joint Laboratory of Biomedicine and Health, Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences, Guangzhou 510530, People's Republic of China
| | - Tianyu Zhang
- State Key Laboratory of Respiratory Disease, China-New Zealand Joint Laboratory of Biomedicine and Health, Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences, Guangzhou 510530, People's Republic of China
| | - Bin Hong
- NHC Key Laboratory of Biotechnology of Antibiotics, and CAMS Key Laboratory of Synthetic Biology for Drug Innovation, Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100050, People's Republic of China
| | - Linzhuan Wu
- NHC Key Laboratory of Biotechnology of Antibiotics, and CAMS Key Laboratory of Synthetic Biology for Drug Innovation, Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100050, People's Republic of China
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5
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Fan S, Lv G, Feng X, Wu G, Jin Y, Yan M, Yang Z. Structural insights into the specific interaction between Geobacillus stearothermophilus tryptophanyl-tRNA synthetase and antimicrobial Chuangxinmycin. J Biol Chem 2022; 298:101580. [PMID: 35031320 PMCID: PMC8814664 DOI: 10.1016/j.jbc.2022.101580] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2021] [Revised: 01/06/2022] [Accepted: 01/08/2022] [Indexed: 11/29/2022] Open
Abstract
The potential antimicrobial compound Chuangxinmycin (CXM) targets the tryptophanyl-tRNA synthetase (TrpRS) of both Gram-negative and Gram-positive bacteria. However, the specific steric recognition mode and interaction mechanism between CXM and TrpRS is unclear. Here, we studied this interaction using recombinant GsTrpRS from Geobacillus stearothermophilus by X-ray crystallography and molecular dynamics (MD) simulations. The crystal structure of the recombinant GsTrpRS in complex with CXM was experimentally determined to a resolution at 2.06 Å. After analysis using a complex-structure probe, MD simulations, and site-directed mutation verification through isothermal titration calorimetry, the interaction between CXM and GsTrpRS was determined to involve the key residues M129, D132, I133, and V141 of GsTrpRS. We further evaluated binding affinities between GsTrpRS WT/mutants and CXM; GsTrpRS was found to bind CXM through hydrogen bonds with D132 and hydrophobic interactions between the lipophilic tricyclic ring of CXM and M129, I133, and V141 in the substrate-binding pockets. This study elucidates the precise interaction mechanism between CXM and its target GsTrpRS at the molecular level and provides a theoretical foundation and guidance for the screening and rational design of more effective CXM analogs against both Gram-negative and Gram-positive bacteria.
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Affiliation(s)
- Shuai Fan
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China
| | - Guangxin Lv
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China
| | - Xiao Feng
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China
| | - Guangteng Wu
- Research and Development Department, ArNuXon Pharm-Sci Co, Ltd, Beijing, China
| | - Yuanyuan Jin
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China
| | - Maocai Yan
- School of Pharmacy, Jining Medical University, Rizhao, Shandong, China.
| | - Zhaoyong Yang
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
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6
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Herisse M, Pidot SJ. Mobilization of cryptic antibiotic biosynthesis loci from human-pathogenic Nocardia. Methods Enzymol 2022; 664:173-197. [DOI: 10.1016/bs.mie.2021.11.007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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7
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Zhang X, Xu X, You C, Yang C, Guo J, Sang M, Geng C, Cheng F, Du L, Shen Y, Wang S, Lan H, Yang F, Li Y, Tang Y, Zhang Y, Bian X, Li S, Zhang W. Biosynthesis of Chuangxinmycin Featuring a Deubiquitinase‐like Sulfurtransferase. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202107745] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Xingwang Zhang
- State Key Laboratory of Microbial Technology Shandong University Qingdao Shandong 266237 China
- Laboratory for Marine Biology and Biotechnology Qingdao National Laboratory for Marine Science and Technology Qingdao Shandong 266237 China
| | - Xiaokun Xu
- State Key Laboratory of Microbial Technology Shandong University Qingdao Shandong 266237 China
| | - Cai You
- State Key Laboratory of Microbial Technology Shandong University Qingdao Shandong 266237 China
| | - Chaofan Yang
- State Key Laboratory of Microbial Technology Shandong University Qingdao Shandong 266237 China
| | - Jiawei Guo
- State Key Laboratory of Microbial Technology Shandong University Qingdao Shandong 266237 China
| | - Moli Sang
- State Key Laboratory of Microbial Technology Shandong University Qingdao Shandong 266237 China
| | - Ce Geng
- Shandong Provincial Key Laboratory of Synthetic Biology CAS Key Laboratory of Biofuels Qingdao Institute of Bioenergy and Bioprocess Technology Chinese Academy of Sciences Qingdao Shandong 266101 China
| | - Fangyuan Cheng
- State Key Laboratory of Microbial Technology Shandong University Qingdao Shandong 266237 China
| | - Lei Du
- State Key Laboratory of Microbial Technology Shandong University Qingdao Shandong 266237 China
| | - Yuemao Shen
- Key Laboratory of Chemical Biology (Ministry of Education) School of Pharmaceutical Sciences Shandong University Jinan Shandong 250012 China
| | - Sheng Wang
- Tencent AI Lab Shenzhen Guangdong 518063 China
| | - Haidong Lan
- Tencent AI Lab Shenzhen Guangdong 518063 China
| | - Fan Yang
- Research Center for Marine Drugs State Key Laboratory of Oncogenes and Related Genes Department of Pharmacy Renji Hospital School of Medicine Shanghai Jiao Tong University Shanghai 200127 China
| | - Yuezhong Li
- State Key Laboratory of Microbial Technology Shandong University Qingdao Shandong 266237 China
| | - Ya‐Jie Tang
- State Key Laboratory of Microbial Technology Shandong University Qingdao Shandong 266237 China
| | - Youming Zhang
- State Key Laboratory of Microbial Technology Shandong University Qingdao Shandong 266237 China
- Helmholtz International Lab for Anti-Infectives Shandong University-Helmholtz Institute of Biotechnology Shandong University Qingdao Shandong 266237 China
| | - Xiaoying Bian
- State Key Laboratory of Microbial Technology Shandong University Qingdao Shandong 266237 China
- Helmholtz International Lab for Anti-Infectives Shandong University-Helmholtz Institute of Biotechnology Shandong University Qingdao Shandong 266237 China
| | - Shengying Li
- State Key Laboratory of Microbial Technology Shandong University Qingdao Shandong 266237 China
- Laboratory for Marine Biology and Biotechnology Qingdao National Laboratory for Marine Science and Technology Qingdao Shandong 266237 China
| | - Wei Zhang
- State Key Laboratory of Microbial Technology Shandong University Qingdao Shandong 266237 China
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8
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Zhang X, Xu X, You C, Yang C, Guo J, Sang M, Geng C, Cheng F, Du L, Shen Y, Wang S, Lan H, Yang F, Li Y, Tang YJ, Zhang Y, Bian X, Li S, Zhang W. Biosynthesis of Chuangxinmycin Featuring a Deubiquitinase-like Sulfurtransferase. Angew Chem Int Ed Engl 2021; 60:24418-24423. [PMID: 34498345 DOI: 10.1002/anie.202107745] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2021] [Revised: 08/20/2021] [Indexed: 11/11/2022]
Abstract
The knowledge on sulfur incorporation mechanism involved in sulfur-containing molecule biosynthesis remains limited. Chuangxinmycin is a sulfur-containing antibiotic with a unique thiopyrano[4,3,2-cd]indole (TPI) skeleton and selective inhibitory activity against bacterial tryptophanyl-tRNA synthetase. Despite the previously reported biosynthetic gene clusters and the recent functional characterization of a P450 enzyme responsible for C-S bond formation, the enzymatic mechanism for sulfur incorporation remains unknown. Here, we resolve this central biosynthetic problem by in vitro biochemical characterization of the key enzymes and reconstitute the TPI skeleton in a one-pot enzymatic reaction. We reveal that the JAMM/MPN+ protein Cxm3 functions as a deubiquitinase-like sulfurtransferase to catalyze a non-classical sulfur-transfer reaction by interacting with the ubiquitin-like sulfur carrier protein Cxm4GG. This finding adds a new mechanism for sulfurtransferase in nature.
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Affiliation(s)
- Xingwang Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong, 266237, China.,Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, Shandong, 266237, China
| | - Xiaokun Xu
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong, 266237, China
| | - Cai You
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong, 266237, China
| | - Chaofan Yang
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong, 266237, China
| | - Jiawei Guo
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong, 266237, China
| | - Moli Sang
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong, 266237, China
| | - Ce Geng
- Shandong Provincial Key Laboratory of Synthetic Biology, CAS Key Laboratory of Biofuels, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, Shandong, 266101, China
| | - Fangyuan Cheng
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong, 266237, China
| | - Lei Du
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong, 266237, China
| | - Yuemao Shen
- Key Laboratory of Chemical Biology (Ministry of Education), School of Pharmaceutical Sciences, Shandong University, Jinan, Shandong, 250012, China
| | - Sheng Wang
- Tencent AI Lab, Shenzhen, Guangdong, 518063, China
| | - Haidong Lan
- Tencent AI Lab, Shenzhen, Guangdong, 518063, China
| | - Fan Yang
- Research Center for Marine Drugs, State Key Laboratory of Oncogenes and Related Genes, Department of Pharmacy, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, 200127, China
| | - Yuezhong Li
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong, 266237, China
| | - Ya-Jie Tang
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong, 266237, China
| | - Youming Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong, 266237, China.,Helmholtz International Lab for Anti-Infectives, Shandong University-Helmholtz Institute of Biotechnology, Shandong University, Qingdao, Shandong, 266237, China
| | - Xiaoying Bian
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong, 266237, China.,Helmholtz International Lab for Anti-Infectives, Shandong University-Helmholtz Institute of Biotechnology, Shandong University, Qingdao, Shandong, 266237, China
| | - Shengying Li
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong, 266237, China.,Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, Shandong, 266237, China
| | - Wei Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong, 266237, China
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9
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Shi Y, Jiang Z, Hu X, Hu X, Gu R, Jiang B, Zuo L, Li X, Sun H, Zhang C, Wang L, Wu L, Hong B. The Cytochrome P450 Catalyzing C−S Bond Formation in
S
‐Heterocyclization of Chuangxinmycin Biosynthesis. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202015814] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Affiliation(s)
- Yuanyuan Shi
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Zhibo Jiang
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Xiaowen Hu
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Xiaomin Hu
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Renjie Gu
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Bingya Jiang
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Lijie Zuo
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Xingxing Li
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Hongmin Sun
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Cong Zhang
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Lifei Wang
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Linzhuan Wu
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Bin Hong
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
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10
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Shi Y, Jiang Z, Hu X, Hu X, Gu R, Jiang B, Zuo L, Li X, Sun H, Zhang C, Wang L, Wu L, Hong B. The Cytochrome P450 Catalyzing C−S Bond Formation in
S
‐Heterocyclization of Chuangxinmycin Biosynthesis. Angew Chem Int Ed Engl 2021; 60:15399-15404. [DOI: 10.1002/anie.202015814] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2020] [Revised: 04/08/2021] [Indexed: 11/10/2022]
Affiliation(s)
- Yuanyuan Shi
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Zhibo Jiang
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Xiaowen Hu
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Xiaomin Hu
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Renjie Gu
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Bingya Jiang
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Lijie Zuo
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Xingxing Li
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Hongmin Sun
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Cong Zhang
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Lifei Wang
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Linzhuan Wu
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
| | - Bin Hong
- NHC Key Laboratory of Biotechnology of Antibiotics CAMS Key Laboratory of Synthetic Biology for Drug Innovation Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences & Peking Union Medical College No.1 Tiantan Xili Beijing 100050 China
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11
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Recent Advances in the Heterologous Biosynthesis of Natural Products from Streptomyces. APPLIED SCIENCES-BASEL 2021. [DOI: 10.3390/app11041851] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Streptomyces is a significant source of natural products that are used as therapeutic antibiotics, anticancer and antitumor agents, pesticides, and dyes. Recently, with the advances in metabolite analysis, many new secondary metabolites have been characterized. Moreover, genome mining approaches demonstrate that many silent and cryptic biosynthetic gene clusters (BGCs) and many secondary metabolites are produced in very low amounts under laboratory conditions. One strain many compounds (OSMAC), overexpression/deletion of regulatory genes, ribosome engineering, and promoter replacement have been utilized to activate or enhance the production titer of target compounds. Hence, the heterologous expression of BGCs by transferring to a suitable production platform has been successfully employed for the detection, characterization, and yield quantity production of many secondary metabolites. In this review, we introduce the systematic approach for the heterologous production of secondary metabolites from Streptomyces in Streptomyces and other hosts, the genome analysis tools, the host selection, and the development of genetic control elements for heterologous expression and the production of secondary metabolites.
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Morita I, Mori T, Abe I. Enzymatic Formation of Indolactam Scaffold by C−N Bond‐Forming Cytochrome P450 Oxidases in Teleocidin Biosynthesis. Chemistry 2020; 27:2963-2972. [DOI: 10.1002/chem.202003899] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2020] [Revised: 09/29/2020] [Indexed: 11/10/2022]
Affiliation(s)
- Iori Morita
- Graduate School of Pharmaceutical Sciences The University of Tokyo 7-3-1 Hongo Bunkyo-ku Tokyo 113-0033 Japan
| | - Takahiro Mori
- Graduate School of Pharmaceutical Sciences The University of Tokyo 7-3-1 Hongo Bunkyo-ku Tokyo 113-0033 Japan
- Collaborative Research Institute for Innovative Microbiology The University of Tokyo 1-1-1 Yayoi Bunkyo-ku Tokyo 113–8657 Japan
| | - Ikuro Abe
- Graduate School of Pharmaceutical Sciences The University of Tokyo 7-3-1 Hongo Bunkyo-ku Tokyo 113-0033 Japan
- Collaborative Research Institute for Innovative Microbiology The University of Tokyo 1-1-1 Yayoi Bunkyo-ku Tokyo 113–8657 Japan
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Tong Q, Li Y, Wang S, Yan S. High-Throughput Screening of Streptomyces virginiae Strains Using Microtiter Plates for the High-Titer Production of Virginiamycin. ANAL LETT 2019. [DOI: 10.1080/00032719.2019.1700516] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Affiliation(s)
- Qianqian Tong
- Bioengineering School, Huainan Normal University, Huainan, China
- Key Laboratory of Bioresource and Environmental Biotechnology of Anhui Higher Education Institutes, Huainan Normal University, Huainan, China
| | - Yaliang Li
- Bioengineering School, Huainan Normal University, Huainan, China
- Key Laboratory of Bioresource and Environmental Biotechnology of Anhui Higher Education Institutes, Huainan Normal University, Huainan, China
| | - Shunchang Wang
- Bioengineering School, Huainan Normal University, Huainan, China
- Key Laboratory of Bioresource and Environmental Biotechnology of Anhui Higher Education Institutes, Huainan Normal University, Huainan, China
| | - Shoubao Yan
- Bioengineering School, Huainan Normal University, Huainan, China
- Key Laboratory of Bioresource and Environmental Biotechnology of Anhui Higher Education Institutes, Huainan Normal University, Huainan, China
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14
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Genome mining and prospects for antibiotic discovery. Curr Opin Microbiol 2019; 51:1-8. [DOI: 10.1016/j.mib.2019.01.001] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2018] [Revised: 01/06/2019] [Accepted: 01/08/2019] [Indexed: 12/13/2022]
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15
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Zhang JJ, Tang X, Moore BS. Genetic platforms for heterologous expression of microbial natural products. Nat Prod Rep 2019; 36:1313-1332. [PMID: 31197291 PMCID: PMC6750982 DOI: 10.1039/c9np00025a] [Citation(s) in RCA: 86] [Impact Index Per Article: 17.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
Covering: 2005 up to 2019Natural products are of paramount importance in human medicine. Not only are most antibacterial and anticancer drugs derived directly from or inspired by natural products, many other branches of medicine, such as immunology, neurology, and cardiology, have similarly benefited from natural product-based drugs. Typically, the genetic material required to synthesize a microbial specialized product is arranged in a multigene biosynthetic gene cluster (BGC), which codes for proteins associated with molecule construction, regulation, and transport. The ability to connect natural product compounds to BGCs and vice versa, along with ever-increasing knowledge of biosynthetic machineries, has spawned the field of genomics-guided natural product genome mining for the rational discovery of new chemical entities. One significant challenge in the field of natural product genome mining is how to rapidly link orphan biosynthetic genes to their associated chemical products. This review highlights state-of-the-art genetic platforms to identify, interrogate, and engineer BGCs from diverse microbial sources, which can be broken into three stages: (1) cloning and isolation of genomic loci, (2) heterologous expression in a host organism, and (3) genetic manipulation of cloned pathways. In the future, we envision natural product genome mining will be rapidly accelerated by de novo DNA synthesis and refactoring of whole biosynthetic pathways in combination with systematic heterologous expression methodologies.
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Affiliation(s)
- Jia Jia Zhang
- Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California at San Diego, La Jolla, California, USA.
| | - Xiaoyu Tang
- Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California at San Diego, La Jolla, California, USA.
| | - Bradley S Moore
- Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California at San Diego, La Jolla, California, USA. and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California at San Diego, La Jolla, California, USA
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16
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Direct cloning and heterologous expression of natural product biosynthetic gene clusters by transformation-associated recombination. Methods Enzymol 2019; 621:87-110. [PMID: 31128791 DOI: 10.1016/bs.mie.2019.02.026] [Citation(s) in RCA: 34] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
Heterologous expression of natural product biosynthetic gene clusters (BGCs) is a robust approach not only to decipher biosynthetic logic behind natural product (NP) biosynthesis, but also to discover new chemicals from uncharacterized BGCs. This approach largely relies on techniques used for cloning large BGCs into suitable expression vectors. Recently, several whole-pathway direct cloning approaches, including full-length RecE-mediated recombination in Escherichia coli, Cas9-assisted in vitro assembly, and transformation-associated recombination (TAR) in Saccharomyces cerevisiae, have been developed to accelerate BGC isolation. In this chapter, we summarize a protocol for TAR cloning large NP BGCs, detailing the process of choosing TAR plasmids, designing pathway-specific TAR vectors, generating yeast spheroplasts, performing yeast transformation, and heterologously expressing BGCs in various host strains. We believe that the established platforms can accelerate the process of discovering new NPs, understanding NP biosynthetic logic, and engineering biosynthetic pathways.
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Huo L, Hug JJ, Fu C, Bian X, Zhang Y, Müller R. Heterologous expression of bacterial natural product biosynthetic pathways. Nat Prod Rep 2019. [DOI: 10.1039/c8np00091c [epub ahead of print]] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
The review highlights the 2013–2018 literature on the heterologous expression of bacterial natural product biosynthetic pathways and emphasises new techniques, heterologous hosts, and novel chemistry.
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Affiliation(s)
- Liujie Huo
- Helmholtz International Laboratory
- State Key Laboratory of Microbial Technology
- Shandong University
- Qingdao 266237
- P. R. China
| | - Joachim J. Hug
- Helmholtz International Laboratory
- Department of Microbial Natural Products (MINS)
- Helmholtz Institute for Pharmaceutical Research Saarland (HIPS)
- Helmholtz Centre for Infection Research (HZI)
- 66123 Saarbrücken
| | - Chengzhang Fu
- Helmholtz International Laboratory
- Department of Microbial Natural Products (MINS)
- Helmholtz Institute for Pharmaceutical Research Saarland (HIPS)
- Helmholtz Centre for Infection Research (HZI)
- 66123 Saarbrücken
| | - Xiaoying Bian
- Helmholtz International Laboratory
- State Key Laboratory of Microbial Technology
- Shandong University
- Qingdao 266237
- P. R. China
| | - Youming Zhang
- Helmholtz International Laboratory
- State Key Laboratory of Microbial Technology
- Shandong University
- Qingdao 266237
- P. R. China
| | - Rolf Müller
- Helmholtz International Laboratory
- Department of Microbial Natural Products (MINS)
- Helmholtz Institute for Pharmaceutical Research Saarland (HIPS)
- Helmholtz Centre for Infection Research (HZI)
- 66123 Saarbrücken
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Huo L, Hug JJ, Fu C, Bian X, Zhang Y, Müller R. Heterologous expression of bacterial natural product biosynthetic pathways. Nat Prod Rep 2019; 36:1412-1436. [DOI: 10.1039/c8np00091c] [Citation(s) in RCA: 127] [Impact Index Per Article: 25.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
The review highlights the 2013–2018 literature on the heterologous expression of bacterial natural product biosynthetic pathways and emphasises new techniques, heterologous hosts, and novel chemistry.
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Affiliation(s)
- Liujie Huo
- Helmholtz International Laboratory
- State Key Laboratory of Microbial Technology
- Shandong University
- Qingdao 266237
- P. R. China
| | - Joachim J. Hug
- Helmholtz International Laboratory
- Department of Microbial Natural Products (MINS)
- Helmholtz Institute for Pharmaceutical Research Saarland (HIPS)
- Helmholtz Centre for Infection Research (HZI)
- 66123 Saarbrücken
| | - Chengzhang Fu
- Helmholtz International Laboratory
- Department of Microbial Natural Products (MINS)
- Helmholtz Institute for Pharmaceutical Research Saarland (HIPS)
- Helmholtz Centre for Infection Research (HZI)
- 66123 Saarbrücken
| | - Xiaoying Bian
- Helmholtz International Laboratory
- State Key Laboratory of Microbial Technology
- Shandong University
- Qingdao 266237
- P. R. China
| | - Youming Zhang
- Helmholtz International Laboratory
- State Key Laboratory of Microbial Technology
- Shandong University
- Qingdao 266237
- P. R. China
| | - Rolf Müller
- Helmholtz International Laboratory
- Department of Microbial Natural Products (MINS)
- Helmholtz Institute for Pharmaceutical Research Saarland (HIPS)
- Helmholtz Centre for Infection Research (HZI)
- 66123 Saarbrücken
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Xu X, Zhou H, Liu Y, Liu X, Fu J, Li A, Li YZ, Shen Y, Bian X, Zhang Y. Heterologous Expression Guides Identification of the Biosynthetic Gene Cluster of Chuangxinmycin, an Indole Alkaloid Antibiotic. JOURNAL OF NATURAL PRODUCTS 2018; 81:1060-1064. [PMID: 29565122 DOI: 10.1021/acs.jnatprod.7b00835] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
The indole alkaloid antibiotic chuangxinmycin, from Actinobacteria Actinoplanes tsinanensis, containing a unique thiopyrano[4,3,2- cd]indole scaffold, is a potent and selective inhibitor of bacterial tryptophanyl-tRNA synthetase. The chuangxinmycin biosynthetic gene cluster was identified by in silico analysis of the genome sequence, then verified by heterologous expression. Systemic gene inactivation and intermediate identification determined the minimum set of genes for unique thiopyrano[4,3,2- cd]indole formation and the concerted action of a radical S-adenosylmethionine protein plus an unknown protein for addition of the 3-methyl group. These findings set a solid foundation for comprehensively investigating the biosynthesis, optimizing yield, and generating new analogues of chuangxinmycin.
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Affiliation(s)
- Xiaokun Xu
- Suzhou Institute of Shandong University and Shandong University-Helmholtz Joint Institute of Biotechnology, State Key Laboratory of Microbial Technology, School of Life Science , Shandong University , People's Republic of China
| | - Haibo Zhou
- Suzhou Institute of Shandong University and Shandong University-Helmholtz Joint Institute of Biotechnology, State Key Laboratory of Microbial Technology, School of Life Science , Shandong University , People's Republic of China
| | - Yang Liu
- Suzhou Institute of Shandong University and Shandong University-Helmholtz Joint Institute of Biotechnology, State Key Laboratory of Microbial Technology, School of Life Science , Shandong University , People's Republic of China
| | - Xiaotong Liu
- Suzhou Institute of Shandong University and Shandong University-Helmholtz Joint Institute of Biotechnology, State Key Laboratory of Microbial Technology, School of Life Science , Shandong University , People's Republic of China
| | - Jun Fu
- Suzhou Institute of Shandong University and Shandong University-Helmholtz Joint Institute of Biotechnology, State Key Laboratory of Microbial Technology, School of Life Science , Shandong University , People's Republic of China
| | - Aiying Li
- Suzhou Institute of Shandong University and Shandong University-Helmholtz Joint Institute of Biotechnology, State Key Laboratory of Microbial Technology, School of Life Science , Shandong University , People's Republic of China
| | - Yue-Zhong Li
- Suzhou Institute of Shandong University and Shandong University-Helmholtz Joint Institute of Biotechnology, State Key Laboratory of Microbial Technology, School of Life Science , Shandong University , People's Republic of China
| | - Yuemao Shen
- Suzhou Institute of Shandong University and Shandong University-Helmholtz Joint Institute of Biotechnology, State Key Laboratory of Microbial Technology, School of Life Science , Shandong University , People's Republic of China
| | - Xiaoying Bian
- Suzhou Institute of Shandong University and Shandong University-Helmholtz Joint Institute of Biotechnology, State Key Laboratory of Microbial Technology, School of Life Science , Shandong University , People's Republic of China
| | - Youming Zhang
- Suzhou Institute of Shandong University and Shandong University-Helmholtz Joint Institute of Biotechnology, State Key Laboratory of Microbial Technology, School of Life Science , Shandong University , People's Republic of China
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