1
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Luković E, Zhu Y, Zhang Y, Genualdi JR, Sang S, Emala CW. Design and Evaluation of Novel Ginger 6-Shogaol-Inspired Phospholipase C Inhibitors to Enhance β-Agonist-Induced Relaxation in Human Airway Smooth Muscle. J Med Chem 2025; 68:12626-12640. [PMID: 40489244 DOI: 10.1021/acs.jmedchem.5c00378] [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: 06/11/2025]
Abstract
Over 300 million people suffer from asthma, with many experiencing poor symptom control despite current medications. This highlights the need for novel therapeutics. Phospholipase Cβ (PLCβ), which contributes to bronchoconstriction, is a promising drug target. We previously identified 6-shogaol (6S) derivatives containing a dec-1,4-dien-3-one backbone as promising PLCβ inhibitors in cell-based assays. However, they failed to relax airways in mouse lung tissues. To improve efficacy, we synthesized 15 novel 6S derivatives. Most derivatives inhibited PLCβ activity and modulated downstream effectors, including inositol phosphates, diacylglycerol, intracellular calcium, and pMLC20. Notably, derivatives 8a and 8c exhibited enhanced inhibition in human airway smooth muscle cells without cytotoxicity. Structure-activity analysis revealed that a para-phenol-conjugated dec-1,4-dien-3-one core with additional meta-free hydroxyl groups in the phenol moiety of 6S derivatives significantly enhanced PLCβ inhibition. Importantly, these two derivatives also significantly potentiated β-agonist-induced relaxation in human tracheal tissue, highlighting their therapeutic potential as innovative asthma treatments.
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Affiliation(s)
- Elvedin Luković
- Department of Anesthesiology, Columbia University, New York 10032, New York
| | - Yingdong Zhu
- Laboratory for Functional Foods and Human Health, Center for Excellence in Post-Harvest Technologies, North Carolina Agricultural and Technical State University, North Carolina Research Campus, Kannapolis, North Carolina 28081, United States
| | - Yi Zhang
- Department of Anesthesiology, Columbia University, New York 10032, New York
| | - Joseph R Genualdi
- Department of Anesthesiology, Columbia University, New York 10032, New York
| | - Shengmin Sang
- Laboratory for Functional Foods and Human Health, Center for Excellence in Post-Harvest Technologies, North Carolina Agricultural and Technical State University, North Carolina Research Campus, Kannapolis, North Carolina 28081, United States
| | - Charles W Emala
- Department of Anesthesiology, Columbia University, New York 10032, New York
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2
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Takekawa Y, Takino J, Sato S, Oikawa H, Ose T, Minami A. Chain-length preference of trans-acting enoylreductases involved in the biosynthesis of fungal polyhydroxy polyketides. Biochem Biophys Res Commun 2025; 761:151737. [PMID: 40186921 DOI: 10.1016/j.bbrc.2025.151737] [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: 03/19/2025] [Accepted: 03/30/2025] [Indexed: 04/07/2025]
Abstract
Fungal polyketides are diverse natural products synthesized by iterative polyketide synthases (i-PKSs) and modified by enzymes such as trans-acting enoylreductases (trans-ERs). In this study, we investigated PhiaB and PhomB, trans-ERs involved in the biosynthesis of polyhydroxy polyketides, phialotides, and phomenoic acids. In vitro assays using substrate analogs revealed distinct chain-length preferences. X-ray structural analysis of PhiaB revealed distinct N-terminal, central, and C-terminal regions. The importance of the central region, which possesses a canonical Rossmann fold for cofactor recognition, was further supported by biosynthetic refactoring using a chimeric enzyme. Docking studies revealed key amino acid residues that may be involved in substrate/cofactor recognition. These findings advance our understanding of trans-ER function, providing opportunities for the synthesis of structurally different polyhydroxy polyketides by genetic engineering of polyhydroxy polyketide biosynthesis.
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Affiliation(s)
- Yuichiro Takekawa
- Graduate School of Life Science, Hokkaido University, Sapporo, 060-0810, Japan
| | - Junya Takino
- Division of Chemistry, Faculty of Science, Hokkaido University, Sapporo, 060-0810, Japan
| | - Shusuke Sato
- Department of Chemistry, Institute of Science Tokyo, Tokyo, 152-8551, Japan
| | - Hideaki Oikawa
- Division of Chemistry, Faculty of Science, Hokkaido University, Sapporo, 060-0810, Japan.
| | - Toyoyuki Ose
- Graduate School of Life Science, Hokkaido University, Sapporo, 060-0810, Japan.
| | - Atsushi Minami
- Department of Chemistry, Institute of Science Tokyo, Tokyo, 152-8551, Japan.
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3
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Ogata K, Nakama R, Kobayashi H, Kawata T, Maruyama C, Tsunoda T, Ujihara T, Hamano Y, Ogasawara Y, Dairi T. Substrate specificities of two ketosynthases in eukaryotic microalgal and prokaryotic marine bacterial DHA synthases. Proc Natl Acad Sci U S A 2025; 122:e2424450122. [PMID: 40117318 PMCID: PMC11962503 DOI: 10.1073/pnas.2424450122] [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: 11/27/2024] [Accepted: 02/21/2025] [Indexed: 03/23/2025] Open
Abstract
Highly reducing iterative polyketide synthases (HR-iPKSs) are huge enzyme complexes with multiple catalytic domains that biosynthesize polyketides by intrinsically programmed iterative carbon chain extensions and reductions. Unlike most HR-iPKSs, which possess a single ketosynthase (KS) domain for all carbon chain elongations, polyunsaturated fatty acid (PUFA) synthases contain two KS domains. We previously examined the substrate specificities of two KS domains of prokaryotic marine PUFA synthases with several acyl-ACP intermediates and showed that the two KS domains are utilized differentially depending on the carbon chain length. In this study, we investigated two KS domains in a eukaryotic microalgal DHA synthase, KSA and KSB, which show low similarities to those of prokaryotic marine enzymes, together with almost all the acyl-ACP intermediates. C6-, C12-, and C18-ACPs were exclusively accepted by KSA while KSB utilized C-8. C14- and C20-ACPs. In contrast, both KSA and KSB showed activities against C2-, C4-, and C10-ACPs. A general tendency was observed in which both the prokaryotic KS and the eukaryotic KS recognized the acyl structures in the vicinity of the thioester in ACP substrates except for short-chain substrates.
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Affiliation(s)
- Kaito Ogata
- Biological Chemistry and Engineering Course, Graduate School of Chemical Sciences and Engineering, Hokkaido University, Sapporo060-8628, Japan
| | - Riku Nakama
- Biological Chemistry and Engineering Course, Graduate School of Chemical Sciences and Engineering, Hokkaido University, Sapporo060-8628, Japan
| | - Hiyu Kobayashi
- Biological Chemistry and Engineering Course, Graduate School of Chemical Sciences and Engineering, Hokkaido University, Sapporo060-8628, Japan
| | - Tomoya Kawata
- Biological Chemistry and Engineering Course, Graduate School of Chemical Sciences and Engineering, Hokkaido University, Sapporo060-8628, Japan
| | - Chitose Maruyama
- Major in Bioscience and Biotechnology, Graduate School of Bioscience and Biotechnology, Fukui Prefectural University, Fukui910-1195, Japan
| | - Takeshi Tsunoda
- Division of Applied Chemistry, Graduate School of Engineering, Hokkaido University, Sapporo060-8628, Japan
| | | | - Yoshimitsu Hamano
- Major in Bioscience and Biotechnology, Graduate School of Bioscience and Biotechnology, Fukui Prefectural University, Fukui910-1195, Japan
| | - Yasushi Ogasawara
- Division of Applied Chemistry, Graduate School of Engineering, Hokkaido University, Sapporo060-8628, Japan
| | - Tohru Dairi
- Division of Applied Chemistry, Graduate School of Engineering, Hokkaido University, Sapporo060-8628, Japan
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4
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Wang Y, Zou X, Zhu X, Qi J, Liu J, Zhang Z. The PKS-NRPS Gene BBA_09856 Deletion Mutant of Beauveria bassiana Enhanced Its Virulence Against Ostrinia furnacalis Larvae and Strengthened the Host Plant's Resistance to Botrytis cinerea as an Endotype. J Fungi (Basel) 2025; 11:197. [PMID: 40137235 PMCID: PMC11942696 DOI: 10.3390/jof11030197] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2025] [Revised: 02/28/2025] [Accepted: 03/03/2025] [Indexed: 03/27/2025] Open
Abstract
Nonribosomal peptide synthetase (NRPS) and polyketide synthase (PKS) play crucial roles in the development and pathogenicity of the entomopathogenic fungus Beauveria bassiana. However, they are among the few biosynthetic gene clusters with unknown functions in B. bassiana. To investigate the role of the hybrid PKS-NRPS synthetase gene BBA_09856 in B. bassiana, we constructed a mutant strain, ∆BBA09856-WT, by deleting the BBA_09856 gene through Agrobacterium-mediated transformation. We then analyzed the biological characteristics of the mutant strain and the virulence of the mutant strain toward Ostrinia furnacalis larvae, as well as its antagonistic effects against the phytopathogen Botrytis cinerea. We found that the average growth rate of the three mutant strains, ∆BBA09856-WT, was significantly higher compared to the wild-type (WT) strain on the 15th day of culture on potato dextrose agar (PDA) plates (7.01 cm vs. 6.30 cm, p < 0.01). Additionally, the average spore production(3.16 × 107/cm2 vs. 9.95 × 106/cm2, p < 0.001) and germination rate (82.50% vs. 54.72%, 12 h, p < 0.001) were significantly different between the three mutant strains, ∆BBA09856-WT, and the WT strain. The average survival rates of O. furnacalis infected with the WT strain and the three mutant strains, ∆BBA09856-WT, after 8 days were 61.66%, and 30.00%, respectively, indicating that the pathogenicity of the tested mutant strains was significantly greater than that of the WT strain. The results of the dual culture test indicated that the inhibitory rates of the WT and ∆BBA09856-WT strains against B. cinerea were 40.25% and 47.65%, respectively (p < 0.001). Similarly, in the dual culture test, the WT strain reduced the growth of B. cinerea by 9.90%, while the ∆BBA09856-WT exhibited a significantly greater inhibition rate of 28.29% (p < 0.05). The diameters of disease spots, measured 6 d after inoculation with B. cinerea in the tomato treatment groups, revealed significant differences in endophytic colonization between the WT and ∆BBA09856-WT strains in the WT+Bc and ∆BBA09856-WT+Bc treatment groups (15.26 mm vs. 12.16 mm, p < 0.01). Notably, ∆BBA09856-WT exhibited enhanced virulence toward O. furnacalis larvae and increased antagonistic activity against B. cinerea. Our results indicate that the gene BBA_09856 may have a negative correlation with the development and virulence of B. bassiana toward the insect pest O. furnacalis larvae, as well as its antagonism against B. cinerea. These findings suggest that molecular techniques, such as gene editing, could be employed to develop superior strains of B. bassiana for the biological control of plant diseases and insect pests.
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Affiliation(s)
- Yanan Wang
- College of Life Sciences, Jilin Normal University, Siping 136000, China; (Y.W.)
- Key Laboratory of Integrated Pest Management on Crops in Northeast China, Ministry of Agriculture and Rural Affairs, Institute of Plant Protection, Jilin Academy of Agricultural Sciences, Changchun 130033, China; (X.Z.); (X.Z.)
| | - Xiaowei Zou
- Key Laboratory of Integrated Pest Management on Crops in Northeast China, Ministry of Agriculture and Rural Affairs, Institute of Plant Protection, Jilin Academy of Agricultural Sciences, Changchun 130033, China; (X.Z.); (X.Z.)
| | - Xiaomin Zhu
- Key Laboratory of Integrated Pest Management on Crops in Northeast China, Ministry of Agriculture and Rural Affairs, Institute of Plant Protection, Jilin Academy of Agricultural Sciences, Changchun 130033, China; (X.Z.); (X.Z.)
| | - Ji Qi
- College of Life Sciences, Jilin Normal University, Siping 136000, China; (Y.W.)
- Key Laboratory of Integrated Pest Management on Crops in Northeast China, Ministry of Agriculture and Rural Affairs, Institute of Plant Protection, Jilin Academy of Agricultural Sciences, Changchun 130033, China; (X.Z.); (X.Z.)
| | - Jianfeng Liu
- College of Life Sciences, Jilin Normal University, Siping 136000, China; (Y.W.)
| | - Zhengkun Zhang
- Key Laboratory of Integrated Pest Management on Crops in Northeast China, Ministry of Agriculture and Rural Affairs, Institute of Plant Protection, Jilin Academy of Agricultural Sciences, Changchun 130033, China; (X.Z.); (X.Z.)
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5
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Wang J, Deng Z, Liang J, Wang Z. Structural enzymology of iterative type I polyketide synthases: various routes to catalytic programming. Nat Prod Rep 2023; 40:1498-1520. [PMID: 37581222 DOI: 10.1039/d3np00015j] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/16/2023]
Abstract
Time span of literature covered: up to mid-2023Iterative type I polyketide synthases (iPKSs) are outstanding natural chemists: megaenzymes that repeatedly utilize their catalytic domains to synthesize complex natural products with diverse bioactivities. Perhaps the most fascinating but least understood question about type I iPKSs is how they perform the iterative yet programmed reactions in which the usage of domain combinations varies during the synthetic cycle. The programmed patterns are fulfilled by multiple factors, and strongly influence the complexity of the resulting natural products. This article reviews selected reports on the structural enzymology of iPKSs, focusing on the individual domain structures followed by highlighting the representative programming activities that each domain may contribute.
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Affiliation(s)
- Jialiang Wang
- State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic & Developmental Sciences, School of Life Science & Biotechnology, Shanghai Jiao Tong University, Shanghai, China.
| | - Zixin Deng
- State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic & Developmental Sciences, School of Life Science & Biotechnology, Shanghai Jiao Tong University, Shanghai, China.
| | - Jingdan Liang
- State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic & Developmental Sciences, School of Life Science & Biotechnology, Shanghai Jiao Tong University, Shanghai, China.
| | - Zhijun Wang
- State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic & Developmental Sciences, School of Life Science & Biotechnology, Shanghai Jiao Tong University, Shanghai, China.
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6
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Cox RJ. Curiouser and curiouser: progress in understanding the programming of iterative highly-reducing polyketide synthases. Nat Prod Rep 2023; 40:9-27. [PMID: 35543313 DOI: 10.1039/d2np00007e] [Citation(s) in RCA: 32] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
Covering: 1996-2022Investigations over the last 2 decades have begun to reveal how fungal iterative highly-reducing polyketide synthases are programmed. Both in vitro and in vivo experiments have revealed the interplay of intrinsic and extrinsic selectivity of the component catalytic domains of these systems. Structural biology has begun to provide high resolution structures of hr-PKS that can be used as the basis for their engineering and reprogramming, but progress to-date remains rudimentary. However, significant opportunities exist for translating the current level of understanding into the ability to rationally re-engineer these highly efficient systems for the production of important biologically active compounds through biotechnology.
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Affiliation(s)
- Russell J Cox
- Institute for Organic Chemistry and BMWZ, Leibniz University of Hannover, Schneiderberg 38, 30167, Hannover, Germany.
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7
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Wang Z, Hu L, Chekshin N, Zhuang Z, Qian S, Qiao JX, Yu JQ. Ligand-controlled divergent dehydrogenative reactions of carboxylic acids via C-H activation. Science 2021; 374:1281-1285. [PMID: 34762490 PMCID: PMC9084903 DOI: 10.1126/science.abl3939] [Citation(s) in RCA: 66] [Impact Index Per Article: 16.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
Dehydrogenative transformations of alkyl chains to alkenes through methylene carbon-hydrogen (C–H) activation remain a substantial challenge. We report two classes of pyridine-pyridone ligands that enable divergent dehydrogenation reactions through palladium-catalyzed β-methylene C–H activation of carboxylic acids, leading to the direct syntheses of α,β-unsaturated carboxylic acids or γ-alkylidene butenolides. The directed nature of this pair of reactions allows chemoselective dehydrogenation of carboxylic acids in the presence of other enolizable functionalities such as ketones, providing chemoselectivity that is not possible by means of existing carbonyl desaturation protocols. Product inhibition is overcome through ligand-promoted preferential activation of C(sp3)–H bonds rather than C(sp2)–H bonds or a sequence of dehydrogenation and vinyl C–H alkynylation. The dehydrogenation reaction is compatible with molecular oxygen as the terminal oxidant.
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Affiliation(s)
- Zhen Wang
- The Scripps Research Institute, 10550 N. Torrey Pines Road, La Jolla, CA 92037, USA
| | - Liang Hu
- The Scripps Research Institute, 10550 N. Torrey Pines Road, La Jolla, CA 92037, USA
| | - Nikita Chekshin
- The Scripps Research Institute, 10550 N. Torrey Pines Road, La Jolla, CA 92037, USA
| | - Zhe Zhuang
- The Scripps Research Institute, 10550 N. Torrey Pines Road, La Jolla, CA 92037, USA
| | - Shaoqun Qian
- The Scripps Research Institute, 10550 N. Torrey Pines Road, La Jolla, CA 92037, USA
| | - Jennifer X. Qiao
- Discovery Chemistry, Bristol-Myers Squibb, PO Box 4000, Princeton, NJ 08543, USA
| | - Jin-Quan Yu
- The Scripps Research Institute, 10550 N. Torrey Pines Road, La Jolla, CA 92037, USA
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8
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Takino J, Kotani A, Ozaki T, Peng W, Yu J, Guo Y, Mochizuki S, Akimitsu K, Hashimoto M, Ye T, Minami A, Oikawa H. Biochemistry-Guided Prediction of the Absolute Configuration of Fungal Reduced Polyketides. Angew Chem Int Ed Engl 2021; 60:23403-23411. [PMID: 34448341 DOI: 10.1002/anie.202110658] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2021] [Indexed: 11/08/2022]
Abstract
Highly reducing polyketide synthases (HR-PKSs) produce structurally diverse polyketides (PKs). The PK diversity is constructed by a variety of factors, including the β-keto processing, chain length, methylation pattern, and relative and absolute configurations of the substituents. We examined the stereochemical course of the PK processing for the synthesis of polyhydroxy PKs such as phialotides, phomenoic acid, and ACR-toxin. Heterologous expression of a HR-PKS gene, a trans-acting enoylreductase gene, and a truncated non-ribosomal peptide synthetase gene resulted in the formation of a linear PK with multiple stereogenic centers. The absolute configurations of the stereogenic centers were determined by chemical degradation followed by comparison of the degradation products with synthetic standards. A stereochemical rule was proposed to explain the absolute configurations of other reduced PKs and highlights an error in the absolute configurations of a reported structure. The present work demonstrates that focused functional analysis of functionally related HR-PKSs leads to a better understanding of the stereochemical course.
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Affiliation(s)
- Junya Takino
- Department of Chemistry, Faculty of Science, Hokkaido University, Sapporo, 060-0810, Japan
| | - Akari Kotani
- Department of Chemistry, Faculty of Science, Hokkaido University, Sapporo, 060-0810, Japan
| | - Taro Ozaki
- Department of Chemistry, Faculty of Science, Hokkaido University, Sapporo, 060-0810, Japan
| | - Wenquan Peng
- State Key Laboratory of Chemical Oncogenomics, Peking University Shenzhen Graduate School, Xili, Nanshan District, Shenzhen, 518055, China
| | - Jie Yu
- State Key Laboratory of Chemical Oncogenomics, Peking University Shenzhen Graduate School, Xili, Nanshan District, Shenzhen, 518055, China.,School of Biotechnology and Health Sciences, Wuyi University, Jiangmen, 529020, China
| | - Yian Guo
- State Key Laboratory of Chemical Oncogenomics, Peking University Shenzhen Graduate School, Xili, Nanshan District, Shenzhen, 518055, China.,School of Biotechnology and Health Sciences, Wuyi University, Jiangmen, 529020, China
| | - Susumu Mochizuki
- International Institute of Rare Sugar Research and Education & Faculty of Agriculture, Kagawa University, Kagawa, 761-0795, Japan
| | - Kazuya Akimitsu
- International Institute of Rare Sugar Research and Education & Faculty of Agriculture, Kagawa University, Kagawa, 761-0795, Japan
| | - Masaru Hashimoto
- Faculty of Agriculture and Life Science, Hirosaki University, Hirosaki, 036-8561, Japan
| | - Tao Ye
- State Key Laboratory of Chemical Oncogenomics, Peking University Shenzhen Graduate School, Xili, Nanshan District, Shenzhen, 518055, China
| | - Atsushi Minami
- Department of Chemistry, Faculty of Science, Hokkaido University, Sapporo, 060-0810, Japan
| | - Hideaki Oikawa
- Department of Chemistry, Faculty of Science, Hokkaido University, Sapporo, 060-0810, Japan
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9
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Takino J, Kotani A, Ozaki T, Peng W, Yu J, Guo Y, Mochizuki S, Akimitsu K, Hashimoto M, Ye T, Minami A, Oikawa H. Biochemistry‐Guided Prediction of the Absolute Configuration of Fungal Reduced Polyketides. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202110658] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Junya Takino
- Department of Chemistry Faculty of Science Hokkaido University Sapporo 060-0810 Japan
| | - Akari Kotani
- Department of Chemistry Faculty of Science Hokkaido University Sapporo 060-0810 Japan
| | - Taro Ozaki
- Department of Chemistry Faculty of Science Hokkaido University Sapporo 060-0810 Japan
| | - Wenquan Peng
- State Key Laboratory of Chemical Oncogenomics Peking University Shenzhen Graduate School Xili, Nanshan District Shenzhen 518055 China
| | - Jie Yu
- State Key Laboratory of Chemical Oncogenomics Peking University Shenzhen Graduate School Xili, Nanshan District Shenzhen 518055 China
- School of Biotechnology and Health Sciences Wuyi University Jiangmen 529020 China
| | - Yian Guo
- State Key Laboratory of Chemical Oncogenomics Peking University Shenzhen Graduate School Xili, Nanshan District Shenzhen 518055 China
- School of Biotechnology and Health Sciences Wuyi University Jiangmen 529020 China
| | - Susumu Mochizuki
- International Institute of Rare Sugar Research and Education & Faculty of Agriculture Kagawa University Kagawa 761-0795 Japan
| | - Kazuya Akimitsu
- International Institute of Rare Sugar Research and Education & Faculty of Agriculture Kagawa University Kagawa 761-0795 Japan
| | - Masaru Hashimoto
- Faculty of Agriculture and Life Science Hirosaki University Hirosaki 036-8561 Japan
| | - Tao Ye
- State Key Laboratory of Chemical Oncogenomics Peking University Shenzhen Graduate School Xili, Nanshan District Shenzhen 518055 China
| | - Atsushi Minami
- Department of Chemistry Faculty of Science Hokkaido University Sapporo 060-0810 Japan
| | - Hideaki Oikawa
- Department of Chemistry Faculty of Science Hokkaido University Sapporo 060-0810 Japan
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10
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11
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Kuhnert E, Navarro-Muñoz J, Becker K, Stadler M, Collemare J, Cox R. Secondary metabolite biosynthetic diversity in the fungal family Hypoxylaceae and Xylaria hypoxylon. Stud Mycol 2021; 99:100118. [PMID: 34527085 PMCID: PMC8403587 DOI: 10.1016/j.simyco.2021.100118] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
To date little is known about the genetic background that drives the production and diversification of secondary metabolites in the Hypoxylaceae. With the recent availability of high-quality genome sequences for 13 representative species and one relative (Xylaria hypoxylon) we attempted to survey the diversity of biosynthetic pathways in these organisms to investigate their true potential as secondary metabolite producers. Manual search strategies based on the accumulated knowledge on biosynthesis in fungi enabled us to identify 783 biosynthetic pathways across 14 studied species, the majority of which were arranged in biosynthetic gene clusters (BGC). The similarity of BGCs was analysed with the BiG-SCAPE engine which organised the BGCs into 375 gene cluster families (GCF). Only ten GCFs were conserved across all of these fungi indicating that speciation is accompanied by changes in secondary metabolism. From the known compounds produced by the family members some can be directly correlated with identified BGCs which is highlighted herein by the azaphilone, dihydroxynaphthalene, tropolone, cytochalasan, terrequinone, terphenyl and brasilane pathways giving insights into the evolution and diversification of those compound classes. Vice versa, products of various BGCs can be predicted through homology analysis with known pathways from other fungi as shown for the identified ergot alkaloid, trigazaphilone, curvupallide, viridicatumtoxin and swainsonine BGCs. However, the majority of BGCs had no obvious links to known products from the Hypoxylaceae or other well-studied biosynthetic pathways from fungi. These findings highlight that the number of known compounds strongly underrepresents the biosynthetic potential in these fungi and that a tremendous number of unidentified secondary metabolites is still hidden. Moreover, with increasing numbers of genomes for further Hypoxylaceae species becoming available, the likelihood of revealing new biosynthetic pathways that encode new, potentially useful compounds will significantly improve. Reaching a better understanding of the biology of these producers, and further development of genetic methods for their manipulation, will be crucial to access their treasures.
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Affiliation(s)
- E. Kuhnert
- Centre of Biomolecular Drug Research (BMWZ), Institute for Organic Chemistry, Leibniz University Hannover, Schneiderberg 38, 30167, Hannover, Germany
| | - J.C. Navarro-Muñoz
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands
| | - K. Becker
- Centre of Biomolecular Drug Research (BMWZ), Institute for Organic Chemistry, Leibniz University Hannover, Schneiderberg 38, 30167, Hannover, Germany
- Department Microbial Drugs, Helmholtz Centre for Infection Research (HZI), German Centre for Infection Research (DZIF), partner site Hannover-Braunschweig, Inhoffenstrasse 7, 38124, Braunschweig, Germany
| | - M. Stadler
- Department Microbial Drugs, Helmholtz Centre for Infection Research (HZI), German Centre for Infection Research (DZIF), partner site Hannover-Braunschweig, Inhoffenstrasse 7, 38124, Braunschweig, Germany
| | - J. Collemare
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands
| | - R.J. Cox
- Centre of Biomolecular Drug Research (BMWZ), Institute for Organic Chemistry, Leibniz University Hannover, Schneiderberg 38, 30167, Hannover, Germany
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12
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Yin S, Friedrich S, Hrupins V, Cox RJ. In vitro studies of maleidride-forming enzymes. RSC Adv 2021; 11:14922-14931. [PMID: 35424071 PMCID: PMC8697804 DOI: 10.1039/d1ra02118d] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2021] [Accepted: 04/15/2021] [Indexed: 11/21/2022] Open
Abstract
In vitro assays of enzymes involved in the biosynthesis of maleidrides from polyketides in fungi were performed. The results show that the enzymes are closely related to primary metabolism enzymes of the citric acid cycle in terms of stereochemical preferences, but with an expanded substrate selectivity. A key citrate synthase can react both saturated and unsaturated acyl CoA substrates to give solely anti substituted citrates. This undergoes anti-dehydration to afford an unsaturated precursor which is cyclised in vitro by ketosteroid-isomerase-like enzymes to give byssochlamic acid.
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Affiliation(s)
- Sen Yin
- OCI, BMWZ, Leibniz University of Hannover Schneiderberg 38 30167 Hannover Germany
| | - Steffen Friedrich
- OCI, BMWZ, Leibniz University of Hannover Schneiderberg 38 30167 Hannover Germany
| | - Vjaceslavs Hrupins
- OCI, BMWZ, Leibniz University of Hannover Schneiderberg 38 30167 Hannover Germany
| | - Russell J Cox
- OCI, BMWZ, Leibniz University of Hannover Schneiderberg 38 30167 Hannover Germany
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13
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Abstract
Statins are effective cholesterol-lowering drugs. Lovastatin, one of the precursors of statins, is formed from dihydromonacolin L (DML), which is synthesized by lovastatin nonaketide synthase (LovB), with the assistance of a separate trans-acting enoyl reductase (LovC). A full DML synthesis comprises 8 polyketide synthetic cycles with about 35 steps. The assembling of the LovB-LovC complex, and the structural basis for the iterative and yet permutative functions of the megasynthase have remained a mystery. Here, we present the cryo-EM structures of the LovB-LovC complex at 3.60 Å and the core LovB at 2.91 Å resolution. The domain organization of LovB is an X-shaped face-to-face dimer containing eight connected domains. The binding of LovC laterally to the malonyl-acetyl transferase domain allows the completion of a L-shaped catalytic chamber consisting of six active domains. This architecture and the structural details of the megasynthase provide the basis for the processing of the intermediates by the individual catalytic domains. The detailed architectural model provides structural insights that may enable the re-engineering of the megasynthase for the generation of new statins.
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14
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Wunderlich J, Roß T, Schröder M, Hahn F. Step-Economic Synthesis of Biomimetic β-Ketopolyene Thioesters and Demonstration of Their Usefulness in Enzymatic Biosynthesis Studies. Org Lett 2020; 22:4955-4959. [PMID: 32610930 DOI: 10.1021/acs.orglett.0c01348] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Studies on the biosynthetic processing of polyene thioester intermediates are complicated by limited access to appropriate substrate surrogates. We present a step-economic synthetic access to biomimetic β-ketopolyene thioesters that is based on an Ir-catalyzed reductive Horner-Wadsworth-Emmons olefination. New β-ketotriene and pentaenethioates of pantetheine and N-acetylcysteamine were exemplarily synthesized via short and concise routes. The usefulness of these compounds was demonstrated in an in vitro assay with the ketoreductase domain MycKRB from mycolactone biosynthesis.
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Affiliation(s)
- Johannes Wunderlich
- Fakultät Biologie, Chemie und Geologie, Department of Chemistry, Universität Bayreuth, Universitätsstraße 30, 95447 Bayreuth, Germany
| | - Theresa Roß
- Fakultät Biologie, Chemie und Geologie, Department of Chemistry, Universität Bayreuth, Universitätsstraße 30, 95447 Bayreuth, Germany
| | - Marius Schröder
- Fakultät Biologie, Chemie und Geologie, Department of Chemistry, Universität Bayreuth, Universitätsstraße 30, 95447 Bayreuth, Germany
| | - Frank Hahn
- Fakultät Biologie, Chemie und Geologie, Department of Chemistry, Universität Bayreuth, Universitätsstraße 30, 95447 Bayreuth, Germany
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15
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Piech O, Cox RJ. Reengineering the programming of a functional domain of an iterative highly reducing polyketide synthase. RSC Adv 2020; 10:18469-18476. [PMID: 35517211 PMCID: PMC9053739 DOI: 10.1039/d0ra04026f] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2020] [Accepted: 05/05/2020] [Indexed: 12/17/2022] Open
Abstract
A structural model of the enoyl reductase (ER) catalytic domain of the fungal highly-reducing polyketide synthase squalestatin tetraketide synthase (SQTKS) was developed. Simulated docking of substrates and inhibitors allowed the definition of active site residues involved in catalysis and substrate selectivity. These were investigated in silico with the aim of extending the substrate scope. Residues were identified which limit the substrate selectivity of the SQTKS ER, and these were mutated and the engineered ER domain assayed in vitro. Significant changes to the programming of the mutant SQTKS ER domains were observed allowing the processing of longer and more methylated substrates.
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Affiliation(s)
- Oliver Piech
- Institute for Organic Chemistry, Leibniz University of Hannover Schneiderberg 1B 30167 Hannover Germany .,BMWZ, Leibniz University of Hannover Schneiderberg 38 30167 Hannover Germany
| | - Russell J Cox
- Institute for Organic Chemistry, Leibniz University of Hannover Schneiderberg 1B 30167 Hannover Germany .,BMWZ, Leibniz University of Hannover Schneiderberg 38 30167 Hannover Germany
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16
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Yang XL, Friedrich S, Yin S, Piech O, Williams K, Simpson TJ, Cox RJ. Molecular basis of methylation and chain-length programming in a fungal iterative highly reducing polyketide synthase. Chem Sci 2019; 10:8478-8489. [PMID: 31803427 PMCID: PMC6839510 DOI: 10.1039/c9sc03173a] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2019] [Accepted: 07/28/2019] [Indexed: 12/28/2022] Open
Abstract
Exchange of 32 different sub-fragments of the C-methyltransferase (C-MeT), pseudo-ketoreductase (ΨKR) and ketoreductase (KR) catalytic domains of the tenellin iterative Type I polyketide synthase non ribosomal peptide synthetase (PKS-NRPS) TENS by homologous fragments from the desmethylbassianin (DMBS) and militarinone (MILS) PKS-NRPS led to the creation of chimeric synthetases in which programming fidelity was altered, resulting in the production of mixtures of products with different methylation patterns and chain lengths. Swap of KR domain subfragments with the homologous fragments from the KR of the heptaketide militarinone synthetase resulted in the synthesis of penta, hexa and heptaketides. The results of these and previous experiments are rationalised by considering the existence of competition for acyl-carrier protein (ACP) bound substrates between different catalytic domains of the PKS. In particular, competition between the C-MeT and ketoreductase domains (KR) can account for methylation programming, and competition between the KR and the off-loading NRPS accounts for chain-length selectivity.
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Affiliation(s)
- Xiao-Long Yang
- Institute for Organic Chemistry , Leibniz University of Hannover , Schneiderberg 1B , 30167 , Hannover , Germany . .,BMWZ , Leibniz University of Hannover , Schneiderberg 38 , 30167 , Hannover , Germany
| | - Steffen Friedrich
- Institute for Organic Chemistry , Leibniz University of Hannover , Schneiderberg 1B , 30167 , Hannover , Germany . .,BMWZ , Leibniz University of Hannover , Schneiderberg 38 , 30167 , Hannover , Germany
| | - Sen Yin
- Institute for Organic Chemistry , Leibniz University of Hannover , Schneiderberg 1B , 30167 , Hannover , Germany . .,BMWZ , Leibniz University of Hannover , Schneiderberg 38 , 30167 , Hannover , Germany
| | - Oliver Piech
- Institute for Organic Chemistry , Leibniz University of Hannover , Schneiderberg 1B , 30167 , Hannover , Germany . .,BMWZ , Leibniz University of Hannover , Schneiderberg 38 , 30167 , Hannover , Germany
| | - Katherine Williams
- Institute for Organic Chemistry , Leibniz University of Hannover , Schneiderberg 1B , 30167 , Hannover , Germany . .,BMWZ , Leibniz University of Hannover , Schneiderberg 38 , 30167 , Hannover , Germany.,School of Chemistry , University of Bristol , Cantock's Close , Bristol , BS8 1TS , UK
| | - Thomas J Simpson
- School of Chemistry , University of Bristol , Cantock's Close , Bristol , BS8 1TS , UK
| | - Russell J Cox
- Institute for Organic Chemistry , Leibniz University of Hannover , Schneiderberg 1B , 30167 , Hannover , Germany . .,BMWZ , Leibniz University of Hannover , Schneiderberg 38 , 30167 , Hannover , Germany
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17
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Guzmán-Chávez F, Zwahlen RD, Bovenberg RAL, Driessen AJM. Engineering of the Filamentous Fungus Penicillium chrysogenum as Cell Factory for Natural Products. Front Microbiol 2018; 9:2768. [PMID: 30524395 PMCID: PMC6262359 DOI: 10.3389/fmicb.2018.02768] [Citation(s) in RCA: 52] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2018] [Accepted: 10/29/2018] [Indexed: 12/14/2022] Open
Abstract
Penicillium chrysogenum (renamed P. rubens) is the most studied member of a family of more than 350 Penicillium species that constitute the genus. Since the discovery of penicillin by Alexander Fleming, this filamentous fungus is used as a commercial β-lactam antibiotic producer. For several decades, P. chrysogenum was subjected to a classical strain improvement (CSI) program to increase penicillin titers. This resulted in a massive increase in the penicillin production capacity, paralleled by the silencing of several other biosynthetic gene clusters (BGCs), causing a reduction in the production of a broad range of BGC encoded natural products (NPs). Several approaches have been used to restore the ability of the penicillin production strains to synthetize the NPs lost during the CSI. Here, we summarize various re-activation mechanisms of BGCs, and how interference with regulation can be used as a strategy to activate or silence BGCs in filamentous fungi. To further emphasize the versatility of P. chrysogenum as a fungal production platform for NPs with potential commercial value, protein engineering of biosynthetic enzymes is discussed as a tool to develop de novo BGC pathways for new NPs.
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Affiliation(s)
- Fernando Guzmán-Chávez
- Molecular Microbiology, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Groningen, Netherlands.,Synthetic Biology and Cell Engineering, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Groningen, Netherlands
| | - Reto D Zwahlen
- Molecular Microbiology, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Groningen, Netherlands.,Synthetic Biology and Cell Engineering, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Groningen, Netherlands
| | - Roel A L Bovenberg
- Synthetic Biology and Cell Engineering, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Groningen, Netherlands.,DSM Biotechnology Centre, Delft, Netherlands
| | - Arnold J M Driessen
- Molecular Microbiology, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Groningen, Netherlands.,Synthetic Biology and Cell Engineering, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Groningen, Netherlands
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18
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Sabatini M, Comba S, Altabe S, Recio-Balsells AI, Labadie GR, Takano E, Gramajo H, Arabolaza A. Biochemical characterization of the minimal domains of an iterative eukaryotic polyketide synthase. FEBS J 2018; 285:4494-4511. [PMID: 30300504 PMCID: PMC6334511 DOI: 10.1111/febs.14675] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2018] [Revised: 08/03/2018] [Accepted: 09/25/2018] [Indexed: 01/19/2023]
Abstract
Iterative type I polyketide synthases (PKS) are megaenzymes essential to the biosynthesis of an enormously diverse array of bioactive natural products. Each PKS contains minimally three functional domains, β-ketosynthase (KS), acyltransferase (AT), and acyl carrier protein (ACP), and a subset of reducing domains such as ketoreductase (KR), dehydratase (DH), and enoylreductase (ER). The substrate selection, condensation reactions, and β-keto processing of the polyketide growing chain are highly controlled in a programmed manner. However, the structural features and mechanistic rules that orchestrate the iterative cycles, processing domains functionality, and chain termination in this kind of megaenzymes are often poorly understood. Here, we present a biochemical and functional characterization of the KS and the AT domains of a PKS from the mallard duck Anas platyrhynchos (ApPKS). ApPKS belongs to an animal PKS family phylogenetically more related to bacterial PKS than to metazoan fatty acid synthases. Through the dissection of the ApPKS enzyme into mono- to didomain fragments and its reconstitution in vitro, we determined its substrate specificity toward different starters and extender units. ApPKS AT domain can effectively transfer acetyl-CoA and malonyl-CoA to the ApPKS ACP stand-alone domain. Furthermore, the KS and KR domains, in the presence of Escherichia coli ACP, acetyl-CoA, and malonyl-CoA, showed the ability to catalyze the chain elongation and the β-keto reduction steps necessary to yield a 3-hydroxybutyryl-ACP derivate. These results provide new insights into the catalytic efficiency and specificity of this uncharacterized family of PKSs.
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Affiliation(s)
- Martin Sabatini
- Facultad de Ciencias Bioquímicas y Farmacéuticas, Instituto de Biología Molecular y Celular de Rosario (IBR-CONICET), Universidad Nacional de Rosario, Argentina
| | - Santiago Comba
- Facultad de Ciencias Bioquímicas y Farmacéuticas, Instituto de Biología Molecular y Celular de Rosario (IBR-CONICET), Universidad Nacional de Rosario, Argentina
| | - Silvia Altabe
- Facultad de Ciencias Bioquímicas y Farmacéuticas, Instituto de Biología Molecular y Celular de Rosario (IBR-CONICET), Universidad Nacional de Rosario, Argentina
| | - Alejandro I Recio-Balsells
- Facultad de Ciencias Bioquímicas y Farmacéuticas, Instituto de Química de Rosario (IQUIR-CONICET), Universidad Nacional de Rosario, Argentina
| | - Guillermo R Labadie
- Facultad de Ciencias Bioquímicas y Farmacéuticas, Instituto de Química de Rosario (IQUIR-CONICET), Universidad Nacional de Rosario, Argentina
| | - Eriko Takano
- Manchester Centre of Fine and Specialty Chemicals (SYNBIOCHEM), Manchester Institute of Biotechnology (MIB), University of Manchester, UK
| | - Hugo Gramajo
- Facultad de Ciencias Bioquímicas y Farmacéuticas, Instituto de Biología Molecular y Celular de Rosario (IBR-CONICET), Universidad Nacional de Rosario, Argentina
| | - Ana Arabolaza
- Facultad de Ciencias Bioquímicas y Farmacéuticas, Instituto de Biología Molecular y Celular de Rosario (IBR-CONICET), Universidad Nacional de Rosario, Argentina
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19
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Abstract
Covering: up to mid of 2018 Type I fatty acid synthases (FASs) are giant multienzymes catalyzing all steps of the biosynthesis of fatty acids from acetyl- and malonyl-CoA by iterative precursor extension. Two strikingly different architectures of FAS evolved in yeast (as well as in other fungi and some bacteria) and metazoans. Yeast-type FAS (yFAS) assembles into a barrel-shaped structure of more than 2 MDa molecular weight. Catalytic domains of yFAS are embedded in an extensive scaffolding matrix and arranged around two enclosed reaction chambers. Metazoan FAS (mFAS) is a 540 kDa X-shaped dimer, with lateral reaction clefts, minimal scaffolding and pronounced conformational variability. All naturally occurring yFAS are strictly specialized for the production of saturated fatty acids. The yFAS architecture is not used for the biosynthesis of any other secondary metabolite. On the contrary, mFAS is related at the domain organization level to major classes of polyketide synthases (PKSs). PKSs produce a variety of complex and potent secondary metabolites; they either act iteratively (iPKS), or are linked via directed substrate transfer into modular assembly lines (modPKSs). Here, we review the architectures of yFAS, mFAS, and iPKSs. We rationalize the evolution of the yFAS assembly, and provide examples for re-engineering of yFAS. Recent studies have provided novel insights into the organization of iPKS. A hybrid crystallographic model of a mycocerosic acid synthase-like Pks5 yielded a comprehensive visualization of the organization and dynamics of fully-reducing iPKS. Deconstruction experiments, structural and functional studies of specialized enzymatic domains, such as the product template (PT) and the starter-unit acyltransferase (SAT) domain have revealed functional principles of non-reducing iterative PKS (NR-PKSs). Most recently, a six-domain loading region of an NR-PKS has been visualized at high-resolution together with cryo-EM studies of a trapped loading intermediate. Altogether, these data reveal the related, yet divergent architectures of mFAS, iPKS and also modPKSs. The new insights highlight extensive dynamics, and conformational coupling as key features of mFAS and iPKS and are an important step towards collection of a comprehensive series of snapshots of PKS action.
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Affiliation(s)
- Dominik A Herbst
- Department Biozentrum, University of Basel, Klingelbergstrasse 50/70, 4056 Basel, Switzerland.
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20
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Zhang L, Ji J, Yuan M, Feng Y, Wang L, Deng Z, Bai L, Zheng J. Stereospecificity of Enoylreductase Domains from Modular Polyketide Synthases. ACS Chem Biol 2018; 13:871-875. [PMID: 29437374 DOI: 10.1021/acschembio.7b00982] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
An enoylreductase (ER) domain of a polyketide synthase module recruiting a methylmalonate extender unit sets the C2 methyl branch to either the S or R configuration during processing of a polyketide intermediate carried by an acyl carrier protein (ACP) domain. In the present study, pantetheine- and ACP-bound trans-2-methylcrotonyl substrate surrogates were used to scrutinize the stereospecificity of the ER domains. The pantetheine-bound thioester was reduced to mixtures of both 2 R and 2 S products, whereas the expected 2 S epimer was almost exclusively generated when the cognate ACP-bound substrate surrogate was utilized. The analogous incubation of an ER with the substrate surrogate carried by a noncognate ACP significantly increased the generation of the unexpected 2 R epimer, highlighting the dependence of stereospecificity on proper protein-protein interactions between ER and ACP domains. The ER mutant assays revealed the involvement of the conserved tyrosine and lysine in stereocontrol. Taken together, these results expand the current understanding of the ER stereochemistry and help in the engineering of modular PKSs.
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Affiliation(s)
- Luyun Zhang
- State Key Laboratory of Microbial Metabolism and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Junjie Ji
- National Key Laboratory of Biochemical Engineering, Institute of Process Engineering, Chinese Academy of Sciences, Beijing, 100190, People’s Republic of China
| | - Meijuan Yuan
- State Key Laboratory of Microbial Metabolism and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Yuanyuan Feng
- State Key Laboratory of Microbial Metabolism and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Lei Wang
- State Key Laboratory of Microbial Metabolism and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Zixin Deng
- State Key Laboratory of Microbial Metabolism and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Linquan Bai
- State Key Laboratory of Microbial Metabolism and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Jianting Zheng
- State Key Laboratory of Microbial Metabolism and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China
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21
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Schor R, Cox R. Classic fungal natural products in the genomic age: the molecular legacy of Harold Raistrick. Nat Prod Rep 2018. [PMID: 29537034 DOI: 10.1039/c8np00021b] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Covering: 1893 to 2017Harold Raistrick was involved in the discovery of many of the most important classes of fungal metabolites during the 20th century. This review focusses on how these discoveries led to developments in isotopic labelling, biomimetic chemistry and the discovery, analysis and exploitation of biosynthetic gene clusters for major classes of fungal metabolites including: alternariol; geodin and metabolites of the emodin pathway; maleidrides; citrinin and the azaphilones; dehydrocurvularin; mycophenolic acid; and the tropolones. Key recent advances in the molecular understanding of these important pathways, including the discovery of biosynthetic gene clusters, the investigation of the molecular and chemical aspects of key biosynthetic steps, and the reengineering of key components of the pathways are reviewed and compared. Finally, discussion of key relationships between metabolites and pathways and the most important recent advances and opportunities for future research directions are given.
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Affiliation(s)
- Raissa Schor
- Institut für Organische Chemie, BMWZ, Leibniz Universität Hannover, Germany.
| | - Russell Cox
- Institut für Organische Chemie, BMWZ, Leibniz Universität Hannover, Germany.
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22
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Hai Y, Tang Y. Biosynthesis of Long-Chain N-Acyl Amide by a Truncated Polyketide Synthase-Nonribosomal Peptide Synthetase Hybrid Megasynthase in Fungi. J Am Chem Soc 2018; 140:1271-1274. [PMID: 29343058 DOI: 10.1021/jacs.7b13350] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Truncated iterative polyketide synthase-nonribosomal peptide synthetase (PKS-NRPS) megasynthases in which only the C domain is present are widespread in fungi, yet nearly all members have unknown functions. Bioinformatics analysis showed that the C domains of such PKS-C enzymes are noncanonical due to substitution at the second histidine in the active site HHxxxDG motif. Here, we used genome mining strategy to characterize a cryptic PKS-C hybrid from Talaromyces wortmanii and discovered the products are reduced long-chain polyketides amidated with a specific ω-amino acid 5-aminopentanoic acid (5PA). The wortmanamides resemble long-chain N-acyl-amide signaling lipids that target diverse receptors including GPCRs. The noncanonical C domain of this PKS-C hybrid was also demonstrated to be a bona fide condensation domain that specifically selects 5PA and catalyzes amidation to release polyketide chain.
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Affiliation(s)
- Yang Hai
- Department of Chemical and Biomolecular Engineering, ‡Chemistry and Biochemistry, University of California, Los Angeles , Los Angeles, California 90095, United States
| | - Yi Tang
- Department of Chemical and Biomolecular Engineering, ‡Chemistry and Biochemistry, University of California, Los Angeles , Los Angeles, California 90095, United States
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23
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Hang L, Tang MC, Harvey CJB, Page CG, Li J, Hung YS, Liu N, Hillenmeyer ME, Tang Y. Reversible Product Release and Recapture by a Fungal Polyketide Synthase Using a Carnitine Acyltransferase Domain. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201705237] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Leibniz Hang
- Department of Chemistry and Biochemistry; Department of Chemical and Biomolecular Engineering; University of California; Los Angeles CA 90095 USA
| | - Man-Cheng Tang
- Department of Chemistry and Biochemistry; Department of Chemical and Biomolecular Engineering; University of California; Los Angeles CA 90095 USA
| | - Colin J. B. Harvey
- Stanford Genome Technology Center; Stanford University; Palo CA 93404 USA
| | - Claire G. Page
- Department of Chemistry and Biochemistry; Department of Chemical and Biomolecular Engineering; University of California; Los Angeles CA 90095 USA
| | - Jian Li
- Stanford Genome Technology Center; Stanford University; Palo CA 93404 USA
| | - Yiu-Sun Hung
- Department of Chemistry and Biochemistry; Department of Chemical and Biomolecular Engineering; University of California; Los Angeles CA 90095 USA
| | - Nicholas Liu
- Department of Chemistry and Biochemistry; Department of Chemical and Biomolecular Engineering; University of California; Los Angeles CA 90095 USA
| | | | - Yi Tang
- Department of Chemistry and Biochemistry; Department of Chemical and Biomolecular Engineering; University of California; Los Angeles CA 90095 USA
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24
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Hang L, Tang MC, Harvey CJB, Page CG, Li J, Hung YS, Liu N, Hillenmeyer ME, Tang Y. Reversible Product Release and Recapture by a Fungal Polyketide Synthase Using a Carnitine Acyltransferase Domain. Angew Chem Int Ed Engl 2017; 56:9556-9560. [PMID: 28679030 DOI: 10.1002/anie.201705237] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2017] [Indexed: 01/01/2023]
Abstract
Fungal polyketides have significant biological activities, yet the biosynthesis by highly reducing polyketide synthases (HRPKSs) remains enigmatic. An uncharacterized group of HRPKSs was found to contain a C-terminal domain with significant homology to carnitine O-acyltransferase (cAT). Characterization of one such HRPKS (Tv6-931) from Trichoderma virens showed that the cAT domain is capable of esterifying the polyketide product with polyalcohol nucleophiles. This process is readily reversible, as confirmed through the holo ACP-dependent transesterification of the released product. The methyltransferase (MT) domain of Tv6-931 can perform two consecutive α-methylation steps on the last β-keto intermediate to yield an α,α-gem-dimethyl product, a new programing feature among HRPKSs. Recapturing of the released product by cAT domain is suggested to facilitate complete gem-dimethylation by the MT.
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Affiliation(s)
- Leibniz Hang
- Department of Chemistry and Biochemistry, Department of Chemical and Biomolecular Engineering, University of California, Los Angeles, CA, 90095, USA
| | - Man-Cheng Tang
- Department of Chemistry and Biochemistry, Department of Chemical and Biomolecular Engineering, University of California, Los Angeles, CA, 90095, USA
| | - Colin J B Harvey
- Stanford Genome Technology Center, Stanford University, Palo, CA, 93404, USA
| | - Claire G Page
- Department of Chemistry and Biochemistry, Department of Chemical and Biomolecular Engineering, University of California, Los Angeles, CA, 90095, USA
| | - Jian Li
- Stanford Genome Technology Center, Stanford University, Palo, CA, 93404, USA
| | - Yiu-Sun Hung
- Department of Chemistry and Biochemistry, Department of Chemical and Biomolecular Engineering, University of California, Los Angeles, CA, 90095, USA
| | - Nicholas Liu
- Department of Chemistry and Biochemistry, Department of Chemical and Biomolecular Engineering, University of California, Los Angeles, CA, 90095, USA
| | | | - Yi Tang
- Department of Chemistry and Biochemistry, Department of Chemical and Biomolecular Engineering, University of California, Los Angeles, CA, 90095, USA
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25
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Liddle E, Scott A, Han LC, Ivison D, Simpson TJ, Willis CL, Cox RJ. In vitro kinetic study of the squalestatin tetraketide synthase dehydratase reveals the stereochemical course of a fungal highly reducing polyketide synthase. Chem Commun (Camb) 2017; 53:1727-1730. [PMID: 28106181 DOI: 10.1039/c6cc10172k] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Six potential diketide substrates for the squalestatin tetraketide synthase (SQTKS) dehydratase (DH) domain were synthesised as N-acetyl cysteamine thiolesters (SNAC) and tested in kinetic assays as substrates with an isolated DH domain. 3R-3-hydroxybutyryl SNAC 3R-16 was turned over by the enzyme, but its enantiomer was not. Of the four 2-methyl substrates only 2R,3R-2-methyl-3-hydroxybutyryl SNAC 2R,3R-8 was a substrate. Combined with stereochemical information from the isolated SQTKS enoyl reductase (ER) domain, our results provide a near complete stereochemical description of the first cycle of beta-modification reactions of a fungal highly reducing polyketide synthase (HR-PKS). The results emphasise the close relationship between fungal HR-PKS and vertebrate fatty acid synthases (vFAS).
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Affiliation(s)
- Emma Liddle
- School of Chemistry, University of Bristol, Cantock's Close, Bristol, BS8 1TS, UK
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26
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Abstract
A personal selection of 32 recent papers is presented covering various aspects of current developments in bioorganic chemistry and novel natural products such as furanmonogone A from Hypericum monogynum.
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