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Lv Q, Zhang X, Yuan D, Huang Z, Peng R, Peng J, Li Z, Tang L, Liu D, Zhou X, Wang L, Pan L, Shao Y, Mao B, Xin Y, Zhu L, Zhao B, Bai L. Exploring Natural Allelic Variations of the β-Triketone Herbicide Resistance Gene HIS1 for Application in indica Rice and Particularly in Two-Line Hybrid Rice. RICE (NEW YORK, N.Y.) 2021; 14:7. [PMID: 33415497 PMCID: PMC7790941 DOI: 10.1186/s12284-020-00448-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/14/2020] [Accepted: 12/17/2020] [Indexed: 06/12/2023]
Abstract
BACKGROUND Benzobicyclon (BBC) is a β-triketone herbicide (bTH) used in rice paddy fields. It has the advantages of high efficiency, low toxicity, high crop safety, and good environmental compatibility, and shows efficacy against paddy weeds resistant to other types of herbicides. However, as some important indica rice varieties are susceptible to BBC, BBC is currently only registered and applied in japonica rice cultivation areas. RESULTS By analyzing haplotypes of the bTHs broad-spectrum resistance gene HIS1 and phenotypes for BBC in 493 major indica rice accessions in China, we identified a novel non-functional allelic variant of HIS1 in addition to the previously reported 28-bp deletion. Through detection with markers specific to the two non-functional mutations, it was clear that 25.4% of indica conventional varieties, 59.9% of fertility restorers, and 15.9% of sterile lines were susceptible to BBC. In addition, due to natural allelic variations of the HIS1 gene in the sterile and restorer lines, some two-line hybrid sterile lines were sensitive to bTHs, and the corresponding restorers were resistant. We showed the potential effectiveness of using bTHs to address the issue of two-line hybrid rice seed purity stemming from the self-crossing of sterile lines during hybrid rice seed production. Finally, allelic variations of the HIS1 gene may also play an important role in the mechanized seed production of hybrid rice. CONCLUSIONS Our findings offer guidance for the application of BBC in indica rice areas and provide a non-transgenic approach to address the seed purity issue of two-line hybrid rice.
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Affiliation(s)
- Qiming Lv
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, China
- Longping Branch of Graduate School, Hunan University, Changsha, China
| | - Xiuli Zhang
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, China
- Longping Branch of Graduate School, Hunan University, Changsha, China
| | - Dingyang Yuan
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, China
- Longping Branch of Graduate School, Hunan University, Changsha, China
| | - Zhiyuan Huang
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, China
| | - Rui Peng
- Rice Research Institute, Hunan Academy of Agricultural Sciences, Changsha, China
| | - Jiming Peng
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, China
- Longping Branch of Graduate School, Hunan University, Changsha, China
| | - Zuren Li
- Hunan Agricultural Biotechnology Research Institute, Hunan Academy of Agricultural Sciences, Changsha, China
| | - Li Tang
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, China
- Longping Branch of Graduate School, Hunan University, Changsha, China
| | - Ducai Liu
- Institute of Plant Protection, Hunan Academy of Agricultural Sciences, Changsha, China
| | - Xiaomao Zhou
- Hunan Agricultural Biotechnology Research Institute, Hunan Academy of Agricultural Sciences, Changsha, China
| | - Lifeng Wang
- Hunan Agricultural Biotechnology Research Institute, Hunan Academy of Agricultural Sciences, Changsha, China
| | - Lang Pan
- Hunan Agricultural Biotechnology Research Institute, Hunan Academy of Agricultural Sciences, Changsha, China
| | - Ye Shao
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, China
| | - Bigang Mao
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, China
- Longping Branch of Graduate School, Hunan University, Changsha, China
| | - Yeyun Xin
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, China
- Longping Branch of Graduate School, Hunan University, Changsha, China
| | - Lihuang Zhu
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, China.
- Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China.
| | - Bingran Zhao
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, China.
- Longping Branch of Graduate School, Hunan University, Changsha, China.
| | - Lianyang Bai
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, China.
- Longping Branch of Graduate School, Hunan University, Changsha, China.
- Hunan Agricultural Biotechnology Research Institute, Hunan Academy of Agricultural Sciences, Changsha, China.
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Huang H, Wang MM, Shu L, Yan YL, Zhang JQ, Liu JM, Zhan XH, Zhang DY. Discovery of novel arylthioacetic acid derivatives as 4-hydroxyphenylpyruvate dioxygenase inhibitors. PEST MANAGEMENT SCIENCE 2020; 76:4112-4122. [PMID: 32578327 DOI: 10.1002/ps.5967] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2020] [Revised: 06/12/2020] [Accepted: 06/24/2020] [Indexed: 06/11/2023]
Abstract
BACKGROUND 4-Hydroxyphenylpyruvate dioxygenase (HPPD) plays an important role in addressing the issue of plant protection research. In a continuing effort to discover novel HPPD inhibitors, we adopted a bioisosterism strategy to design a series of novel arylthioacetic acid scaffold based on the previously discovered aryloxyacetic acid scaffold. This study sheds new light on the discovery of novel HPPD inhibitors. RESULTS The compounds A1-A30 and B1-B39 were prepared through an efficient synthetic route for in vitro and glasshouse experiments (herbicidal activities, herbicidal activity spectrum, and crop selectivity). Preliminary bioassay results reveal that these derivatives are promising Arabidopsis thaliana HPPD inhibitors, compounds A11 (Ki = 0.021 μmol L-1 ) and B20 (Ki = 0.022 μmol L-1 ), which exhibit similar activities to that of mesotrione (Ki = 0.020 μmol L-1 ). The glasshouse experiments data indicated that compounds B34 displayed excellent herbicidal activity, which was higher compared to that of mesotrione. Moreover, molecular simulation results show that the compounds B20, B34, and mesotrione shared similar interplay with surrounding residues, which led to a perfect interaction with the active site of Arabidopsis thaliana HPPD. Based on herbicidal results, compound B34 was selected for crop selectivity studies (corn injury ≤ 10%), indicating its potential for weed control in corn fields. CONCLUSION These bioassay results showed that the compound B34 could be used as a possible lead compound for the development of HPPD inhibitors. © 2020 Society of Chemical Industry.
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Affiliation(s)
- Hao Huang
- School of Sciences, China Pharmaceutical University, Nanjing, China
| | - Man-Man Wang
- School of Sciences, China Pharmaceutical University, Nanjing, China
| | - Lei Shu
- School of Sciences, China Pharmaceutical University, Nanjing, China
| | - Yi-Le Yan
- School of Sciences, China Pharmaceutical University, Nanjing, China
| | - Jian-Qiu Zhang
- School of Sciences, China Pharmaceutical University, Nanjing, China
| | - Jian-Min Liu
- School of Sciences, China Pharmaceutical University, Nanjing, China
| | - Xiao-Hang Zhan
- School of Sciences, China Pharmaceutical University, Nanjing, China
| | - Da-Yong Zhang
- School of Sciences, China Pharmaceutical University, Nanjing, China
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Leow SS, Lee WK, Khoo JS, Teoh S, Hoh CC, Fairus S, Sambanthamurthi R, Hayes KC. Identification of reference genes for real-time polymerase chain reaction gene expression studies in Nile rats fed Water-Soluble Palm Fruit Extract. Mol Biol Rep 2020; 47:9409-9427. [PMID: 33222119 DOI: 10.1007/s11033-020-06003-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2020] [Accepted: 11/11/2020] [Indexed: 12/17/2022]
Abstract
The Nile rat (Arvicanthis niloticus) is a novel diurnal carbohydrate-sensitive rodent useful for studies on type 2 diabetes mellitus (T2DM) and the metabolic syndrome. Hepatic responses to T2DM and any interventions thereof can be evaluated via transcriptomic gene expression analysis. However, the study of gene expression via real-time reverse transcription quantitative polymerase chain reaction (RT-qPCR) requires identification of stably expressed reference genes for accurate normalisation. This study describes the evaluation and identification of stable reference genes in the livers from Control Nile rats as well as those supplemented with Water-Soluble Palm Fruit Extract, which has been previously shown to attenuate T2DM in this animal model. Seven genes identified as having stable expression in RNA-Sequencing transcriptome analysis were chosen for verification using real-time RT-qPCR. Six commonly used reference genes from previous literature and two genes from a previous microarray gene expression study in Nile rats were also evaluated. The expression data of these 15 candidate reference genes were analysed using the RefFinder software which incorporated analyses performed by various algorithms. The Hpd, Pnpla6 and Vpp2 genes were identified as the most stable across the 36 samples tested. Their applicability was demonstrated through the normalisation of the gene expression profiles of two target genes, Cela1 and Lepr. In conclusion, three novel reference genes which can be used for robust normalisation of real-time RT-qPCR data were identified, thereby facilitating future hepatic gene expression studies in the Nile rat.
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Affiliation(s)
- Soon-Sen Leow
- Malaysian Palm Oil Board, No. 6, Persiaran Institusi, Bandar Baru Bangi, 43000, Kajang, Selangor, Malaysia.
| | - Wei-Kang Lee
- Codon Genomics Sdn Bhd, No. 26, Jalan Dutamas 7, Taman Dutamas Balakong, 43200, Seri Kembangan, Selangor, Malaysia
| | - Jia-Shiun Khoo
- Codon Genomics Sdn Bhd, No. 26, Jalan Dutamas 7, Taman Dutamas Balakong, 43200, Seri Kembangan, Selangor, Malaysia
| | - Seddon Teoh
- Codon Genomics Sdn Bhd, No. 26, Jalan Dutamas 7, Taman Dutamas Balakong, 43200, Seri Kembangan, Selangor, Malaysia
| | - Chee-Choong Hoh
- Codon Genomics Sdn Bhd, No. 26, Jalan Dutamas 7, Taman Dutamas Balakong, 43200, Seri Kembangan, Selangor, Malaysia
| | - Syed Fairus
- Malaysian Palm Oil Board, No. 6, Persiaran Institusi, Bandar Baru Bangi, 43000, Kajang, Selangor, Malaysia
| | - Ravigadevi Sambanthamurthi
- Malaysian Palm Oil Board, No. 6, Persiaran Institusi, Bandar Baru Bangi, 43000, Kajang, Selangor, Malaysia
| | - K C Hayes
- Brandeis University, 415 South Street, Waltham, MA, 02454, USA
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Biallelic variants in HPDL, encoding 4-hydroxyphenylpyruvate dioxygenase-like protein, lead to an infantile neurodegenerative condition. Genet Med 2020; 23:524-533. [PMID: 33188300 DOI: 10.1038/s41436-020-01010-y] [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: 07/24/2020] [Revised: 10/06/2020] [Accepted: 10/06/2020] [Indexed: 11/08/2022] Open
Abstract
PURPOSE Dioxygenases are oxidoreductase enzymes with roles in metabolic pathways necessary for aerobic life. 4-hydroxyphenylpyruvate dioxygenase-like protein (HPDL), encoded by HPDL, is an orphan paralogue of 4-hydroxyphenylpyruvate dioxygenase (HPD), an iron-dependent dioxygenase involved in tyrosine catabolism. The function and association of HPDL with human diseases remain unknown. METHODS We applied exome sequencing in a cohort of over 10,000 individuals with neurodevelopmental diseases. Effects of HPDL loss were investigated in vitro and in vivo, and through mass spectrometry analysis. Evolutionary analysis was performed to investigate the potential functional separation of HPDL from HPD. RESULTS We identified biallelic variants in HPDL in eight families displaying recessive inheritance. Knockout mice closely phenocopied humans and showed evidence of apoptosis in multiple cellular lineages within the cerebral cortex. HPDL is a single-exonic gene that likely arose from a retrotransposition event at the base of the tetrapod lineage, and unlike HPD, HPDL is mitochondria-localized. Metabolic profiling of HPDL mutant cells and mice showed no evidence of altered tyrosine metabolites, but rather notable accumulations in other metabolic pathways. CONCLUSION The mitochondrial localization, along with its disrupted metabolic profile, suggests HPDL loss in humans links to a unique neurometabolic mitochondrial infantile neurodegenerative condition.
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Liu B, Wang H, Zhang K, Zhu J, He Q, He J. Improved Herbicide Resistance of 4-Hydroxyphenylpyruvate Dioxygenase from Sphingobium sp. TPM-19 through Directed Evolution. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2020; 68:12365-12374. [PMID: 33105985 DOI: 10.1021/acs.jafc.0c05785] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
4-Hydroxyphenylpyruvate dioxygenase (HPPD) has attracted extensive interest as a promising target for the genetic engineering of herbicide-resistant crops. However, naturally occurring HPPDs are generally very sensitive to HPPD inhibitors. In this study, random mutagenesis was performed to increase the HPPD inhibitors' resistance of Sphingobium sp. HPPD (SpHPPD). Two mutants, Q258M and Y333F, with improved resistance were obtained. Subsequently, a double-mutant (Q258M/Y333F) was generated through combined mutation. Q258M/Y333F exhibited the highest resistance to four HPPD inhibitors [topramezone, mesotrione, tembotrione, and diketonitrile (DKN)]. The enzyme fitness of Q258M/Y333F to topramezone, mesotrione, tembotrione, and DKN was increased by 4.0-, 4.1-, 4.2-, and 3.2-folds, respectively, in comparison with that of the wild-type. Molecular modeling and docking revealed that Q258M mutation leads to the decrease of enzyme-inhibitor-binding strength by breaking the hydrogen bond between the enzyme and the inhibitor, and Y333F mutation changes the conformational balance of the C-terminal helix H11, which hinders the binding of the inhibitor to the enzyme and thus would contribute to improved herbicide resistance. This study helps to further elucidate the structural basis for herbicide resistance and provides better genetic resources for the genetic engineering of herbicide-resistant crops.
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Affiliation(s)
- Bin Liu
- Department of Microbiology, Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing 210095 Jiangsu, P. R. China
| | - Haiyan Wang
- Department of Microbiology, Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing 210095 Jiangsu, P. R. China
| | - Kaiyun Zhang
- Department of Microbiology, Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing 210095 Jiangsu, P. R. China
| | - Jianchun Zhu
- Department of Microbiology, Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing 210095 Jiangsu, P. R. China
| | - Qin He
- Department of Microbiology, Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing 210095 Jiangsu, P. R. China
| | - Jian He
- Department of Microbiology, Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing 210095 Jiangsu, P. R. China
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Sheng M, Liu B, Xu J, Peng Q, Zhang L, Chen K, He J. Cloning of a novel topramezone-resistant 4-hydroxyphenylpyruvate dioxygenase gene and improvement of its resistance through pressure acclimation. Enzyme Microb Technol 2020; 140:109642. [DOI: 10.1016/j.enzmictec.2020.109642] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2020] [Revised: 07/07/2020] [Accepted: 08/04/2020] [Indexed: 10/23/2022]
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Zhang R, He J, Dong Z, Liu G, Yin Y, Zhang X, Li Q, Ren Y, Yang Y, Liu W, Chen X, Xia W, Duan K, Hao F, Lin Z, Yang J, Chang Z, Zhao R, Wan W, Lu S, Peng Y, Ge S, Wang W, Li X. Genomic and experimental data provide new insights into luciferin biosynthesis and bioluminescence evolution in fireflies. Sci Rep 2020; 10:15882. [PMID: 32985577 PMCID: PMC7522259 DOI: 10.1038/s41598-020-72900-z] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2020] [Accepted: 09/09/2020] [Indexed: 02/08/2023] Open
Abstract
Fireflies are among the most charismatic insects for their spectacular bioluminescence, but the origin and evolution of bioluminescence remain elusive. Especially, the genic basis of luciferin (D-luciferin) biosynthesis and light patterns is largely unknown. Here, we present the high-quality reference genomes of two fireflies Lamprigera yunnana (1053 Mb) and Abscondita terminalis (501 Mb) with great differences in both morphology and luminous behavior. We sequenced the transcriptomes and proteomes of luminous organs of two species. We created the CRISPR/Cas9-induced mutants of Abdominal B gene without luminous organs in the larvae of A. terminalis and sequenced the transcriptomes of mutants and wild-types. Combining gene expression analyses with comparative genomics, we propose a more complete luciferin synthesis pathway, and confirm the convergent evolution of bioluminescence in insects. Using experiments, the function of the firefly acyl-CoA thioesterase (ACOT1) to convert L-luciferin to D-luciferin was validated for the first time. Comparisons of three-dimension reconstruction of luminous organs and their differentially expressed genes among two species suggest that two positive genes in the calcium signaling pathway and structural difference of luminous organs may play an important role in the evolution of flash pattern. Altogether, our results provide important resources for further exploring bioluminescence in insects.
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Affiliation(s)
- Ru Zhang
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710072, Shaanxi, China
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, Yunnan, China
| | - Jinwu He
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710072, Shaanxi, China
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, Yunnan, China
| | - Zhiwei Dong
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, Yunnan, China
| | - Guichun Liu
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, Yunnan, China
| | - Yuan Yin
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710072, Shaanxi, China
| | - Xinying Zhang
- Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Qi Li
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710072, Shaanxi, China
| | - Yandong Ren
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, Yunnan, China
| | - Yongzhi Yang
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710072, Shaanxi, China
| | - Wei Liu
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, Yunnan, China
| | - Xianqing Chen
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710072, Shaanxi, China
| | - Wenhao Xia
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710072, Shaanxi, China
| | - Kang Duan
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, Yunnan, China
| | - Fei Hao
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710072, Shaanxi, China
| | - Zeshan Lin
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710072, Shaanxi, China
| | - Jie Yang
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710072, Shaanxi, China
| | - Zhou Chang
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, Yunnan, China
| | - Ruoping Zhao
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, Yunnan, China
| | - Wenting Wan
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710072, Shaanxi, China
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, Yunnan, China
| | - Sihan Lu
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710072, Shaanxi, China
| | - Yanqiong Peng
- CAS Key Laboratory of Tropical Forest Ecology, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Mengla, 666303, Yunnan, China
| | - Siqin Ge
- Institute of Zoology, Chinese Academy of Sciences, Beijing, China.
| | - Wen Wang
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710072, Shaanxi, China.
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, Yunnan, China.
- Center for Excellence in Animal Evolution and Genetics, Kunming, 650223, Yunnan, China.
| | - Xueyan Li
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, Yunnan, China.
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Isolation and Antibacterial Activity of Indole Alkaloids from Pseudomonas aeruginosa UWI-1. Molecules 2020; 25:molecules25163744. [PMID: 32824432 PMCID: PMC7464872 DOI: 10.3390/molecules25163744] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2020] [Revised: 08/03/2020] [Accepted: 08/12/2020] [Indexed: 02/02/2023] Open
Abstract
In this study, we report the first isolation of three antibiotic indole alkaloid compounds from a Pseudomonad bacterium, Pseudomonas aeruginosa UWI-1. The bacterium was batch fermented in a modified Luria Broth medium and compounds were solvent extracted and isolated by bioassay-guided fractionation. The three compounds were identified as (1) tris(1H-indol-3-yl) methylium, (2) bis(indol-3-yl) phenylmethane, and (3) indolo (2, 1b) quinazoline-6, 12 dione. A combination of 1D and 2D NMR, high-resolution mass spectrometry data and comparison from related data from the literature was used to determine the chemical structures of the compounds. Compounds 1–3 were evaluated in vitro for their antimicrobial activities against a wide range of microorganisms using the broth microdilution technique. Compounds 1 and 2 displayed antibacterial activity against only Gram-positive pathogens, although 1 had significantly lower minimum inhibitory concentration (MIC) values than 2. Compound 3 displayed potent broad-spectrum antimicrobial activity against a range of Gram positive and negative bacteria. Several genes identified from the genome of P. aeruginosa UWI-1 were postulated to contribute to the biosynthesis of these compounds and we attempted to outline a possible route for bacterial synthesis. This study demonstrated the extended metabolic capability of Pseudomonas aeruginosa in synthesizing new chemotypes of bioactive compounds.
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Yang X, Chen SL, Lin CS, Liu LL, Wang CH, Yun JP. Tyrosine metabolic enzyme HPD is decreased and predicts unfavorable outcomes in hepatocellular carcinoma. Pathol Res Pract 2020; 216:153153. [PMID: 32891822 DOI: 10.1016/j.prp.2020.153153] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 05/28/2020] [Revised: 07/26/2020] [Accepted: 07/28/2020] [Indexed: 01/01/2023]
Abstract
BACKGROUND Liver is a major metabolic organ containing many metabolic enzymes. Disorders of liver-specific enzymes can cause liver dysfunction and tumorigenesis. Previous studies indicated that 4-Hydroxyphenylpyruvate dioxygenase (HPD) plays an essential role in catalyzing the tyrosinolytic metabolism of 4-hydroxyphenylpyruvate to homogeneous acids in liver tissues. However, the clinical significance of HPD in HCC has not been obtained. Here in our study, we aimed to identify the expression and the clinical significance of HPD in hepatocellular carcinoma (HCC). METHODS Western Blotting and qRT-PCR were employed to evaluate the level of HPD in HCC cell lines and fresh samples. The expression of HPD was further confirmed by immunohistochemistry (IHC) using a tissue microarray (TMA) cohort with a total of 778 HCC patients. Furthermore, the mRNA expression of HPD in HCC was evaluated from TCGA and GEO public databases. Kaplan-Meier analysis and univariate and multivariate Cox regression analyses were used to determine the correlation between HPD expression with clinicopathological variables and survival rate of HCC patients. The cellular behaviors of transfected cells were respectively examined by CCK8 and Migration assay. RESULTS The expression of HPD is restricted in liver compared with other cancer types. HPD mRNA and protein expression was dramatically reduced in HCC cell lines and fresh tissue samples. IHC staining in HCC TMA further showed that the decreased of HPD in paraffin-imbedded HCC samples was linked to an adverse overall postoperative survival (p < 0.001). Clinicopathologically, low expression of HPD was correlated with larger tumor size, advanced TNM staging and poor differentiaion. In addition, multivariate analyses indicated that HPD was an independent predictive factor of HCC survival. Our study pioneering validates that knockdown of HPD increases HCC cell cell growth and cell motility. CONCLUSION Our results suggested that HPD may serve as a valuable prognostic marker, a tumor suppressor, and a potential therapeutic target for HCC patients.
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Affiliation(s)
- Xia Yang
- Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangzhou, 510060, China; Department of Pathology, Sun Yat-sen University Cancer Center, Guangzhou, 510060, China
| | - Shi-Lu Chen
- Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangzhou, 510060, China; Department of Pathology, Sun Yat-sen University Cancer Center, Guangzhou, 510060, China
| | - Cen-Shan Lin
- Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangzhou, 510060, China; Department of Pathology, Sun Yat-sen University Cancer Center, Guangzhou, 510060, China
| | - Li-Li Liu
- Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangzhou, 510060, China; Department of Pathology, Sun Yat-sen University Cancer Center, Guangzhou, 510060, China
| | - Chun-Hua Wang
- Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangzhou, 510060, China; Department of Pathology, Sun Yat-sen University Cancer Center, Guangzhou, 510060, China
| | - Jing-Ping Yun
- Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangzhou, 510060, China; Department of Pathology, Sun Yat-sen University Cancer Center, Guangzhou, 510060, China.
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Liu YX, Zhao LX, Ye T, Gao S, Li JZ, Ye F, Fu Y. Identification of key residues determining the binding specificity of human 4-hydroxyphenylpyruvate dioxygenase. Eur J Pharm Sci 2020; 154:105504. [PMID: 32750420 DOI: 10.1016/j.ejps.2020.105504] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2020] [Revised: 07/12/2020] [Accepted: 07/31/2020] [Indexed: 11/29/2022]
Abstract
4-Hydroxyphenylpyruvate dioxygenase (HPPD, EC 1.13.11.27) is the second enzyme of the tyrosine catabolic pathway. Its physiological function is to catalyze the conversion of 4-hydroxyphenylpyruvic acid to homogentisic acid, which displays different physiological effects in mammals and plants. Insights on the selective inhibition of human HPPD (hHPPD) by triketone inhibitors were furnished by the integrated application of molecular simulation and biological testing. The binding free energy of hHPPD and inhibitors was obtained through molecular dynamics (MD) simulations, and the result was in agreement with the inhibition experiment in vitro. The binding free energy contribution demonstrated that the formation of hHPPD-inhibitor complexes was mainly driven by van der Waals energy. Ser226, Asn241, Gln265, Phe336, Phe359 and Phe364 made great contributions to binding affinities of all the systems. Among the residues involved in the interaction between nitisinone (NTBC) and hHPPD, Tyr221 and Leu224, whose mutation into Ala caused significant decrease of NTBC binding ability, were two key residues in determining the selective binding affinity of inhibitor and hHPPD. This work provides valuable theoretical basis for rational design of highly selective inhibitors targeting hHPPD.
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Affiliation(s)
- Yong-Xuan Liu
- Department of Applied Chemistry, College of Arts and Sciences, Northeast Agricultural University, Harbin, 150030, China
| | - Li-Xia Zhao
- Department of Applied Chemistry, College of Arts and Sciences, Northeast Agricultural University, Harbin, 150030, China
| | - Tong Ye
- Department of Applied Chemistry, College of Arts and Sciences, Northeast Agricultural University, Harbin, 150030, China
| | - Shuang Gao
- Department of Applied Chemistry, College of Arts and Sciences, Northeast Agricultural University, Harbin, 150030, China
| | - Jia-Zhong Li
- School of Pharmacy, Lanzhou University, Lanzhou, 730000, China
| | - Fei Ye
- Department of Applied Chemistry, College of Arts and Sciences, Northeast Agricultural University, Harbin, 150030, China.
| | - Ying Fu
- Department of Applied Chemistry, College of Arts and Sciences, Northeast Agricultural University, Harbin, 150030, China.
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Liang W, Zhang W, Lv Z, Li C. 4-Hydroxyphenylpyruvate dioxygenase from sea cucumber Apostichopus japonicus negatively regulates reactive oxygen species production. FISH & SHELLFISH IMMUNOLOGY 2020; 101:261-268. [PMID: 32276034 DOI: 10.1016/j.fsi.2020.04.013] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2020] [Revised: 04/02/2020] [Accepted: 04/04/2020] [Indexed: 06/11/2023]
Abstract
As a wide distribution molecule, 4-hydroxyphenylpyruvate dioxygenase (4-HPPD) catalyzes the second step in the tyrosine catabolism pathway. This process commonly occurs in all aerobic life forms. The broad distribution of these metabolites suggests that they have an important role in many organisms. A portion of the 4-HPPD homology sequence was also identified in Apostichopus japonicus transcriptome. However, the functional roles of A. japonicus 4-HPPD remain unclear. In the current study, a 4-HPPD homolog was cloned from A. japonicus (designated as AjHPPD). The nucleotide sequence analysis showed that the open reading frame of AjHPPD was 1149 bp and encoded a 382-amino-acid residue polyprotein with glyoxalase_4 (residues 20-133) and glyoxalase (residues 180-335) domains. The spatial expression analysis revealed that AjHPPD was ubiquitously expressed in all examined tissues with large-magnitude in the respiratory tree and was minimally expressed in coelomocytes. Compared with a control group, the significant increase in transcription of AjHPPD mRNA in the Vibrio splendidus-challenged sea cucumber was 2.10-fold (p < 0.01) at 48 h and returned to the normal level at 72 and 96 h. Similarly, compared with a control group, the significant increase in the transcription of AjHPPD mRNA was 3.36-fold (p < 0.01) at 24 h after stimulation with 10 mg mL-1 of LPS. On the one hand, silencing AjHPPD in vitro could inhibit the expression of pentose phosphate pathway (PPP) flux enzyme glucose-6-phosphate dehydrogenase (G6PD) at the mRNA level and prevent the clearance of reactive oxygen species (ROS) in sea cucumbers. On the other hand, interference of AjHPPD by using specific siRNA can result in the significant promotion of coelomocyte apoptosis with a 1.61-fold increase in vitro. AjHPPD negatively regulated ROS levels by modulating tyrosine catabolism on AjG6PD expression and coelomocyte apoptosis in response to pathogen infection.
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Affiliation(s)
- Weikang Liang
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Ningbo University, PR China
| | - Weiwei Zhang
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Ningbo University, PR China
| | - Zhimeng Lv
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Ningbo University, PR China
| | - Chenghua Li
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Ningbo University, PR China; Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266071, PR China.
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He B, Wu FX, Yu LK, Wu L, Chen Q, Hao GF, Yang WC, Lin HY, Yang GF. Discovery of Novel Pyrazole-Quinazoline-2,4-dione Hybrids as 4-Hydroxyphenylpyruvate Dioxygenase Inhibitors. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2020; 68:5059-5067. [PMID: 32286826 DOI: 10.1021/acs.jafc.0c00051] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
4-Hydroxyphenylpyruvate dioxygenase (HPPD, EC 1.13.11.27) has been identified as one of the most significant targets in herbicide discovery for resistant weed control. In a continuing effort to discover potent novel HPPD inhibitors, we adopted a ring-expansion strategy to design a series of novel pyrazole-quinazoline-2,4-dione hybrids based on the previously discovered pyrazole-isoindoline-1,3-dione scaffold. One compound, 3-(2-chlorophenyl)-6-(5-hydroxy-1,3-dimethyl-1H-pyrazole-4-carbonyl)-1,5-dimethylquinazoline-2,4(1H,3H)-dione (9bj), displayed excellent potency against AtHPPD, with an IC50 value of 84 nM, which is approximately 16-fold more potent than pyrasulfotole (IC50 = 1359 nM) and 2.7-fold more potent than mesotrione (IC50 = 226 nM). Furthermore, the co-crystal structure of the AtHPPD-9bj complex (PDB ID 6LGT) was determined at a resolution of 1.75 Å. Similar to the existing HPPD inhibitors, compound 9bj formed a bidentate chelating interaction with the metal ion and a π-π stacking interaction with Phe381 and Phe424. In contrast, o-chlorophenyl at the N3 position of quinazoline-2,4-dione with a double conformation was surrounded by hydrophobic residues (Met335, Leu368, Leu427, Phe424, Phe392, and Phe381). Remarkably, the greenhouse assay indicated that most compounds displayed excellent herbicidal activity (complete inhibition) against at least one of the tested weeds at the application rate of 150 g of active ingredient (ai)/ha. Most promisingly, compounds 9aj and 9bi not only exhibited prominent weed control effects with a broad spectrum but also showed very good crop safety to cotton, peanuts, and corn at the dose of 150 g of ai/ha.
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Affiliation(s)
- Bo He
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, College of Chemistry, Central China Normal University, Wuhan, Hubei 430079, People's Republic of China
| | - Feng-Xu Wu
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, College of Chemistry, Central China Normal University, Wuhan, Hubei 430079, People's Republic of China
| | - Liang-Kun Yu
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, College of Chemistry, Central China Normal University, Wuhan, Hubei 430079, People's Republic of China
| | - Lei Wu
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, College of Chemistry, Central China Normal University, Wuhan, Hubei 430079, People's Republic of China
| | - Qiong Chen
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, College of Chemistry, Central China Normal University, Wuhan, Hubei 430079, People's Republic of China
| | - Ge-Fei Hao
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, College of Chemistry, Central China Normal University, Wuhan, Hubei 430079, People's Republic of China
| | - Wen-Chao Yang
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, College of Chemistry, Central China Normal University, Wuhan, Hubei 430079, People's Republic of China
| | - Hong-Yan Lin
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, College of Chemistry, Central China Normal University, Wuhan, Hubei 430079, People's Republic of China
| | - Guang-Fu Yang
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, College of Chemistry, Central China Normal University, Wuhan, Hubei 430079, People's Republic of China
- Collaborative Innovation Center of Chemical Science and Engineering, Nankai University, Tianjin 300071, People's Republic of China
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Xu JJ, Fang X, Li CY, Yang L, Chen XY. General and specialized tyrosine metabolism pathways in plants. ABIOTECH 2020; 1:97-105. [PMID: 36304719 PMCID: PMC9590561 DOI: 10.1007/s42994-019-00006-w] [Citation(s) in RCA: 39] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/30/2019] [Accepted: 08/06/2019] [Indexed: 11/25/2022]
Abstract
The tyrosine metabolism pathway serves as a starting point for the production of a variety of structurally diverse natural compounds in plants, such as tocopherols, plastoquinone, ubiquinone, betalains, salidroside, benzylisoquinoline alkaloids, and so on. Among these, tyrosine-derived metabolites, tocopherols, plastoquinone, and ubiquinone are essential to plant survival. In addition, this pathway provides us essential micronutrients (e.g., vitamin E and ubiquinone) and medicine (e.g., morphine, salidroside, and salvianolic acid B). However, our knowledge of the plant tyrosine metabolism pathway remains rudimentary, and genes encoding the pathway enzymes have not been fully defined. In this review, we summarize and discuss recent advances in the tyrosine metabolism pathway, key enzymes, and important tyrosine-derived metabolites in plants.
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Affiliation(s)
- Jing-Jing Xu
- Shanghai Key Laboratory of Plant Functional Genomics and Resources, Plant Science Research Center, Shanghai Chenshan Botanical Garden, Shanghai, 201602 People’s Republic of China
| | - Xin Fang
- State Key Laboratory of Phytochemistry and Plant Resources in West China, Kunming Institute of Botany, Chinese Academy of Sciences Kunming, Kunming, 650201 Yunnan People’s Republic of China
| | - Chen-Yi Li
- State Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences/Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200032 People’s Republic of China
- University of Chinese Academy of Sciences, Shanghai, 200032 People’s Republic of China
| | - Lei Yang
- Shanghai Key Laboratory of Plant Functional Genomics and Resources, Plant Science Research Center, Shanghai Chenshan Botanical Garden, Shanghai, 201602 People’s Republic of China
| | - Xiao-Ya Chen
- Shanghai Key Laboratory of Plant Functional Genomics and Resources, Plant Science Research Center, Shanghai Chenshan Botanical Garden, Shanghai, 201602 People’s Republic of China
- State Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences/Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200032 People’s Republic of China
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Feng AN, Huang CW, Lin CH, Chang YL, Ni MY, Lee HJ. Role of the N-terminus in human 4-hydroxyphenylpyruvate dioxygenase activity. J Biochem 2020; 167:315-322. [PMID: 31722428 DOI: 10.1093/jb/mvz092] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2019] [Accepted: 10/22/2019] [Indexed: 11/14/2022] Open
Abstract
4-Hydroxyphenylpyruvate dioxygenase (HPPD) is a key enzyme in tyrosine catabolism, catalysing the oxidation of 4-hydroxyphenylpyruvate to homogentisate. Genetic deficiency of this enzyme causes type III tyrosinaemia. The enzyme comprises two barrel-shaped domains formed by the N- and C-termini, with the active site located in the C-terminus. This study investigated the role of the N-terminus, located at the domain interface, in HPPD activity. We observed that the kcat/Km decreased ∼8-fold compared with wild type upon removal of the 12 N-terminal residues (ΔR13). Interestingly, the wild-type level of activity was retained in a mutant missing the 17 N-terminal residues, with a kcat/Km 11-fold higher than that of the ΔR13 mutant; however, the structural stability of this mutant was lower than that of wild type. A 2-fold decrease in catalytic efficiency was observed for the K10A and E12A mutants, indicating synergism between these residues in the enzyme catalytic function. A molecular dynamics simulation showed large RMS fluctuations in ΔR13 suggesting that conformational flexibility at the domain interface leads to lower activity in this mutant. These results demonstrate that the N-terminus maintains the stability of the domain interface to allow for catalysis at the active site of HPPD.
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Affiliation(s)
- An-Ning Feng
- Department of Cardiology, Cheng Hsin General Hospital, No. 45, Cheng Hsin St. Pai-Tou, Taipei 11220, Taiwan
| | - Chih-Wei Huang
- Department of Pharmacy Practice, Tri-Service General Hospital, No. 325, Sec. 2, Chenggong Rd., Neihu, Taipei 11490, Taiwan.,School of Pharmacy, National Defense Medical Center, No. 161, Sec. 6, Minchuan East Rd., Neihu, Taipei 11490, Taiwan
| | - Chi-Huei Lin
- Department of Biochemistry, National Defense Medical Center, No. 161, Sec. 6, Minchuan East Rd., Neihu, Taipei 11490, Taiwan
| | - Yung-Lung Chang
- Department of Biochemistry, National Defense Medical Center, No. 161, Sec. 6, Minchuan East Rd., Neihu, Taipei 11490, Taiwan
| | - Meng-Yuan Ni
- Department of Biochemistry, National Defense Medical Center, No. 161, Sec. 6, Minchuan East Rd., Neihu, Taipei 11490, Taiwan
| | - Hwei-Jen Lee
- Department of Biochemistry, National Defense Medical Center, No. 161, Sec. 6, Minchuan East Rd., Neihu, Taipei 11490, Taiwan
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Ben Tahar I, Kus‐Liśkiewicz M, Lara Y, Javaux E, Fickers P. Characterization of a nontoxic pyomelanin pigment produced by the yeast
Yarrowia lipolytica. Biotechnol Prog 2020; 36:e2912. [DOI: 10.1002/btpr.2912] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2019] [Revised: 09/06/2019] [Accepted: 09/10/2019] [Indexed: 01/15/2023]
Affiliation(s)
- Imen Ben Tahar
- Microbial Processes and Interactions, TERRA Teaching and Research CentreUniversity of Liège ‐ Gembloux Agro Bio Tech Gembloux Belgium
| | | | - Yannick Lara
- Early Life Traces & Evolution – Astrobiology, UR Astrobiology, Geology DepartmentUniversity of Liège Gembloux Belgium
| | - Emmanuelle Javaux
- Early Life Traces & Evolution – Astrobiology, UR Astrobiology, Geology DepartmentUniversity of Liège Gembloux Belgium
| | - Patrick Fickers
- Microbial Processes and Interactions, TERRA Teaching and Research CentreUniversity of Liège ‐ Gembloux Agro Bio Tech Gembloux Belgium
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Scherman D, Fetro C. Drug repositioning for rare diseases: Knowledge-based success stories. Therapie 2020; 75:161-167. [PMID: 32164975 DOI: 10.1016/j.therap.2020.02.007] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2019] [Accepted: 11/15/2019] [Indexed: 01/31/2023]
Abstract
While more than 7000 rare diseases have been identified, only about 5 percent benefit from a licensed treatment. As the majority of these diseases is life threatening, these facts underscore the need for new drugs. Drug repositioning is an alternative strategy in drug development, which represents an attractive opportunity for rare diseases. Drug repositioning (also called drug repurposing, drug reprofiling or drug re-tasking) consists in identifying for an already approved or investigational drug a new use outside the scope of the original medical indication. Drug repositioning is considered in the field of orphan drugs as being a faster and somehow less costly strategy than traditional new drug development for pharmaceutical companies. While several successful repositioning cases have been discovered by serendipity, most successes straightly derive from the molecular characterization of the concerned disease. This short commentary is mainly dedicated to these rationally-based success stories.
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Affiliation(s)
- Daniel Scherman
- French foundation for rare diseases, 75014 Paris, France; Chemical and biological technologies for health unit (UTCBS), CNRS UMR8258, 75006 Paris, France; UTCBS, Inserm U1267, 75006 Paris, France; Faculté de pharmacie, université Paris Descartes, université de Paris, 75006 Paris, France.
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Liu B, Peng Q, Sheng M, Ni H, Xiao X, Tao Q, He Q, He J. Isolation and Characterization of a Topramezone-Resistant 4-Hydroxyphenylpyruvate Dioxygenase from Sphingobium sp. TPM-19. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2020; 68:1022-1029. [PMID: 31884791 DOI: 10.1021/acs.jafc.9b06871] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Topramezone is a 4-hydroxyphenylpyruvate dioxygenase (HPPD) inhibitor. Due to its broad-spectrum, high efficiency, and low toxicity, topramezone is a candidate herbicide for the construction of genetically modified (GM) herbicide-resistant crops. In the present study, we screened a topramezone-resistant isolate Sphingobium sp. TPM-19 and cloned a topramezone-resistant HPPD gene (SphppD) from this isolate. SpHPPD shared the highest similarity (53%) with an HPPD from Vibrio vulnificus CMCP6. SpHPPD was synthesized in Escherichia coli BL21(DE3) and purified to homogeneity using Co2+-affinity chromatography. SpHPPD was found to be a monomer. The Km and kcat of SpHPPD for 4-hydroxyphenylpyruvate (4-HPP) were 82.8 μM and 15.0 s-1, respectively. SpHPPD showed high resistance to topramezone with half maximal inhibitory concentration (IC50) and Ki values of 5.2 and 2.5 μM, respectively. Additionally, SpHPPD also showed high resistance to isoxaflutole (DKN) (IC50: 8.7 μM; Ki: 6.0 μM) and mesotrione (IC50: 4.2 μM; Ki: 1.3 μM) and moderate resistance to tembotrione (IC50: 2.5 μM; Ki: 1.0 μM). The introduction of the SphppD gene into Arabidopsis thaliana enhanced obvious resistance against topramezone. In conclusion, this study provides a novel topramezone-resistant HPPD gene for the genetic engineering of GM herbicide-resistant crops.
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Affiliation(s)
- Bin Liu
- Department of Microbiology, Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences , Nanjing Agricultural University , Nanjing 210095 , Jiangsu , P. R. China
| | - Qian Peng
- Department of Microbiology, Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences , Nanjing Agricultural University , Nanjing 210095 , Jiangsu , P. R. China
| | - Mengyao Sheng
- Department of Microbiology, Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences , Nanjing Agricultural University , Nanjing 210095 , Jiangsu , P. R. China
| | - Haiyan Ni
- College of Life Science , Jiangxi Normal University , Nanchang 330022 , Jiangxi , China
| | - Xiang Xiao
- DBN Biotech Center, Beijing DBN Technology Group Co., Ltd. , Beijing 100193 , P. R. China
| | - Qing Tao
- DBN Biotech Center, Beijing DBN Technology Group Co., Ltd. , Beijing 100193 , P. R. China
| | - Qin He
- Department of Microbiology, Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences , Nanjing Agricultural University , Nanjing 210095 , Jiangsu , P. R. China
| | - Jian He
- Department of Microbiology, Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences , Nanjing Agricultural University , Nanjing 210095 , Jiangsu , P. R. China
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Naegeli H, Bresson J, Dalmay T, Dewhurst IC, Epstein MM, Firbank LG, Guerche P, Hejatko J, Moreno FJ, Mullins E, Nogué F, Rostoks N, Sánchez Serrano JJ, Savoini G, Veromann E, Veronesi F, Álvarez F, Ardizzone M, Dumont AF, Devos Y, Gennaro A, Gómez Ruiz JÁ, Lanzoni A, Neri FM, Paraskevopoulos K. Assessment of genetically modified soybean SYHT0H2 for food and feed uses, import and processing, under Regulation (EC) No 1829/2003 (application EFSA-GMO-DE-2012-111). EFSA J 2020; 18:e05946. [PMID: 32626498 PMCID: PMC7008876 DOI: 10.2903/j.efsa.2020.5946] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023] Open
Abstract
The scope of application EFSA-GMO-DE-2012-111 is for food and feed uses, import and processing of genetically modified (GM) soybean SYHT0H2 in the European Union. Soybean SYHT0H2 was developed to confer tolerance to the herbicidal active substances mesotrione and other p-hydroxyphenylpyruvate dioxygenase (HPPD)-inhibiting herbicides and glufosinate ammonium. The molecular characterisation data and bioinformatic analyses do not identify issues except for sequence similarity of AvHPPD-03 to bacterial haemolysins that was considered in food/feed safety assessment. The outcome of the comparative analysis (agronomic/phenotypic and compositional characteristics) did not need further assessment except for the changes in seed levels of α-tocopherol and γ-tocopherol that were assessed for food and feed relevance. The GMO Panel does not identify toxicological and allergenicity concerns for the AvHPPD-03 and PAT proteins expressed in soybean SYHT0H2 and finds no evidence that the genetic modification would change the overall allergenicity of soybean SYHT0H2. The nutritional impact of food/feed from soybean SYHT0H2 is expected to be the same as that of food/feed from the conventional counterpart and commercial non-GM soybean reference varieties. The GMO Panel concludes that soybean SYHT0H2 is as safe as and nutritionally equivalent to the conventional counterpart and the tested non-GM soybean reference varieties, and no post-market monitoring of food/feed is considered necessary. In the case of accidental release of viable soybean SYHT0H2 grains into the environment, soybean SYHT0H2 would not raise environmental safety concerns. The post-market environmental monitoring plan and reporting intervals are in line with the intended uses of soybean SYHT0H2. In conclusion, the GMO Panel considers that soybean SYHT0H2, as described in this application, is as safe as its conventional counterpart and the tested non-GM soybean reference varieties with respect to potential effects on human and animal health and the environment.
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Kašuba V, Micek V, Pizent A, Lovaković BT, Želježić D, Milić M, Kopjar N. DNA damage in kidney and parenchymal and non-parenchymal liver cells of adult Wistar rats after subchronic oral treatment with tembotrione. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2020; 27:1800-1807. [PMID: 31758481 DOI: 10.1007/s11356-019-06782-8] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/22/2019] [Accepted: 10/15/2019] [Indexed: 06/10/2023]
Abstract
DNA damage in the liver and kidney cells of adult male Wistar rats was studied using the comet assay after a 28-day oral administration of tembotrione at doses of 0.0007, 0.0013 and 0.7 mg/kg b.w./day [AOEL (acceptable operator exposure level), REL (residual exposure level) and 1000× AOEL]. As a descriptor of DNA damage, tail intensity was used. Antioxidant status was assessed by activity of glutathione peroxidase (GPx). Significant DNA damage was recorded in the kidney cells at all three doses as compared to negative control. In parenchymal liver cells, significant DNA damage was observed in AOEL and 1000× AOEL doses, while in non-parenchymal liver cells, only AOEL-treated group was significantly different compared to negative control. In both types of liver cells, REL and 1000× AOEL doses were significantly different from the AOEL dose. No significant changes in GPx activity compared to control were observed at any exposure level. The results of the present study suggest that repeated in vivo exposure to tembotrione led to low-level DNA instability in kidney and liver cells. Exposure to the highest tembotrione dose showed a relatively weak response with the alkaline comet assay. Further research should focus on the effects of this herbicide in other models along with different exposure scenarios.
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Affiliation(s)
- Vilena Kašuba
- Mutagenesis Unit, Institute for Medical Research and Occupational Health, Ksaverska c.2, 10000, Zagreb, Croatia.
| | - Vedran Micek
- Animal Breeding Unit, Institute for Medical Research and Occupational Health, Ksaverska c.2, Zagreb, Croatia
| | - Alica Pizent
- Analytical Toxicology and Mineral Metabolism Unit, Institute for Medical Research and Occupational Health, Ksaverska c.2, Zagreb, Croatia
| | - Blanka Tariba Lovaković
- Analytical Toxicology and Mineral Metabolism Unit, Institute for Medical Research and Occupational Health, Ksaverska c.2, Zagreb, Croatia
| | - Davor Želježić
- Mutagenesis Unit, Institute for Medical Research and Occupational Health, Ksaverska c.2, 10000, Zagreb, Croatia
| | - Mirta Milić
- Mutagenesis Unit, Institute for Medical Research and Occupational Health, Ksaverska c.2, 10000, Zagreb, Croatia
| | - Nevenka Kopjar
- Mutagenesis Unit, Institute for Medical Research and Occupational Health, Ksaverska c.2, 10000, Zagreb, Croatia
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van Ginkel WG, Rodenburg IL, Harding CO, Hollak CEM, Heiner-Fokkema MR, van Spronsen FJ. Long-Term Outcomes and Practical Considerations in the Pharmacological Management of Tyrosinemia Type 1. Paediatr Drugs 2019; 21:413-426. [PMID: 31667718 PMCID: PMC6885500 DOI: 10.1007/s40272-019-00364-4] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
Tyrosinemia type 1 (TT1) is a rare metabolic disease caused by a defect in tyrosine catabolism. TT1 is clinically characterized by acute liver failure, development of hepatocellular carcinoma, renal and neurological problems, and consequently an extremely poor outcome. This review showed that the introduction of 2-(2-nitro-4-trifluoromethylbenzoyl)-1,3-cyclohexanedione (NTBC) in 1992 has revolutionized the outcome of TT1 patients, especially when started pre-clinically. If started early, NTBC can prevent liver failure, renal problems, and neurological attacks and decrease the risk for hepatocellular carcinoma. NTBC has been shown to be safe and well tolerated, although the long-term effectiveness of treatment with NTBC needs to be awaited. The high tyrosine concentrations caused by treatment with NTBC could result in ophthalmological and skin problems and requires life-long dietary restriction of tyrosine and its precursor phenylalanine, which could be strenuous to adhere to. In addition, neurocognitive problems have been reported since the introduction of NTBC, with hypothesized but as yet unproven pathophysiological mechanisms. Further research should be done to investigate the possible relationship between important clinical outcomes and blood concentrations of biochemical parameters such as phenylalanine, tyrosine, succinylacetone, and NTBC, and to develop clear guidelines for treatment and follow-up with reliable measurements. This all in order to ultimately improve the combined NTBC and dietary treatment and limit possible complications such as hepatocellular carcinoma development, neurocognitive problems, and impaired quality of life.
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Affiliation(s)
- Willem G van Ginkel
- Department of Metabolic Diseases, Beatrix Children's Hospital, University Medical Center Groningen, University of Groningen, Hanzeplein 1, 9700 RB, Groningen, The Netherlands
| | - Iris L Rodenburg
- Department of Dietetics, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands
| | - Cary O Harding
- Department of Molecular and Medical Genetics, Oregon Health & Science University, Portland, USA
| | - Carla E M Hollak
- Deparment of Endocrinology and Metabolism, Amsterdam University Medical Center, University of Amsterdam, Amsterdam, The Netherlands
| | - M Rebecca Heiner-Fokkema
- Department of Laboratory Medicine, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands
| | - Francjan J van Spronsen
- Department of Metabolic Diseases, Beatrix Children's Hospital, University Medical Center Groningen, University of Groningen, Hanzeplein 1, 9700 RB, Groningen, The Netherlands.
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71
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Tukur S, Shallangwa GA, Ibrahim A. Theoretical QSAR modelling and molecular docking studies of some 4-hydroxyphenylpyruvate dioxygenase (HPPD) enzyme inhibitors potentially used as herbicides. Heliyon 2019; 5:e02859. [PMID: 31768442 PMCID: PMC6872840 DOI: 10.1016/j.heliyon.2019.e02859] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2019] [Revised: 10/29/2019] [Accepted: 11/13/2019] [Indexed: 12/01/2022] Open
Abstract
Computational QSAR studies together with molecular docking calculations have been performed on 118 different derivatives of organic molecules potentially used as herbicides. The Becke's three parameter exchange functional (B3) hybrid with Lee, Yang and Parr correlation functional (LYP), termed as B3LYP hybrid function and 6-31G* basis set (B3LYP/6-31G*) were used to develop five models of QSAR using the GFA technique. Models 1, was preferred as the best model because it possesses certain statistical implications (Friedman LOF = 0.52567, R2 = 0.9034, Radjst2= 0.8943, QCV2= 0.87 98 and Rpred.2= 0.8403).” The prepared model was validated internally and externally using training and test inhibitors. The molecular docking studies conducted in this study has actually outline the binding affinities of the 10 selected compounds (5, 25, 26, 27, 29, 35, 52, 55, 98 and 114) which were all in good correlation with their pIC50 values. The binding affinities of the 10 selected compounds range between -5.9 kcal/mol to -10.1 kcal/mol. The compounds 25 and 27 with binding affinities of -10.1 kcal/mol and -9.7 kcal/mol formed the most stable complexes with the receptor (HPPD) as compared to other inhibitors. The complexes of these inhibitors show two most important types of bonding; Hydrogen bonding and hydrophobic bond interaction with the target amino acid residues. The computational QSAR study together with the molecular docking has actually provided a valuable approach for agrochemical researchers in synthesizing and developing new herbicides with high potency against the target enzyme.
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Affiliation(s)
- Saidu Tukur
- Faculty of Physical Sciences, Chemistry Department, Ahmadu Bello University, P.M.B. 1044, Zaria, Kaduna State, Nigeria
| | - Gideon Adamu Shallangwa
- Faculty of Physical Sciences, Chemistry Department, Ahmadu Bello University, P.M.B. 1044, Zaria, Kaduna State, Nigeria
| | - Abdulkadir Ibrahim
- Faculty of Physical Sciences, Chemistry Department, Ahmadu Bello University, P.M.B. 1044, Zaria, Kaduna State, Nigeria
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Fu Y, Zhang D, Zhang SQ, Liu YX, Guo YY, Wang MX, Gao S, Zhao LX, Ye F. Discovery of N-Aroyl Diketone/Triketone Derivatives as Novel 4-Hydroxyphenylpyruvate Dioxygenase Inhibiting-Based Herbicides. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2019; 67:11839-11847. [PMID: 31589436 DOI: 10.1021/acs.jafc.9b01412] [Citation(s) in RCA: 59] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
4-Hydroxyphenylpyruvate dioxygenase (HPPD, EC 1.13.11.27) is an important target site for discovering new bleaching herbicides. To explore novel HPPD inhibitors with excellent herbicidal activity, a series of novel N-aroyl diketone/triketone derivatives were rationally designed by splicing active groups and bioisosterism. Bioassays revealed that most of these derivatives displayed preferable herbicidal activity against Echinochloa crus-galli (EC) at 0.045 mmol/m2 and Abutilon juncea (AJ) at 0.090 mmol/m2. In particular, compound I-f was more potent compared to the commercialized compound mesotrione. Molecular docking indicated that the corresponding active molecules of target compounds and mesotrione shared similar interplay with surrounding residues, which led to a perfect interaction with the active site of Arabidopsis thaliana HPPD.
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Affiliation(s)
- Ying Fu
- Department of Applied Chemistry, College of Science , Northeast Agricultural University , Harbin , Heilongjiang 150030 , People's Republic of China
| | - Dong Zhang
- Department of Applied Chemistry, College of Science , Northeast Agricultural University , Harbin , Heilongjiang 150030 , People's Republic of China
| | - Shuai-Qi Zhang
- Department of Applied Chemistry, College of Science , Northeast Agricultural University , Harbin , Heilongjiang 150030 , People's Republic of China
| | - Yong-Xuan Liu
- Department of Applied Chemistry, College of Science , Northeast Agricultural University , Harbin , Heilongjiang 150030 , People's Republic of China
| | - You-Yuan Guo
- Department of Applied Chemistry, College of Science , Northeast Agricultural University , Harbin , Heilongjiang 150030 , People's Republic of China
| | - Meng-Xia Wang
- Department of Applied Chemistry, College of Science , Northeast Agricultural University , Harbin , Heilongjiang 150030 , People's Republic of China
| | - Shuang Gao
- Department of Applied Chemistry, College of Science , Northeast Agricultural University , Harbin , Heilongjiang 150030 , People's Republic of China
| | - Li-Xia Zhao
- Department of Applied Chemistry, College of Science , Northeast Agricultural University , Harbin , Heilongjiang 150030 , People's Republic of China
| | - Fei Ye
- Department of Applied Chemistry, College of Science , Northeast Agricultural University , Harbin , Heilongjiang 150030 , People's Republic of China
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He B, Dong J, Lin HY, Wang MY, Li XK, Zheng BF, Chen Q, Hao GF, Yang WC, Yang GF. Pyrazole-Isoindoline-1,3-dione Hybrid: A Promising Scaffold for 4-Hydroxyphenylpyruvate Dioxygenase Inhibitors. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2019; 67:10844-10852. [PMID: 31525997 DOI: 10.1021/acs.jafc.9b04917] [Citation(s) in RCA: 36] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
The discovery of 4-hydroxyphenylpyruvate dioxygenase (HPPD, EC 1.13.11.27) inhibitors has been an active area of research due to their great potential as herbicides for weed control. Starting from the binding mode of known inhibitors of HPPD, a series of HPPD inhibitors with new molecular scaffolds were designed and synthesized by hybridizing 2-benzoylethen-1-ol and isoindoline-1,3-dione fragments. The results of the in vitro tests indicated that the newly synthesized compounds showed good HPPD inhibitory activity with IC50 values against the recombinant Arabidopsis thaliana HPPD (AtHPPD) ranging from 0.0039 μM to over 1 μM. Most promisingly, compound 4ae, 2-benzyl-5-(5-hydroxy-1,3-dimethyl-1H-pyrazole-4- carbonyl)isoindoline-1,3-dione, showed the highest AtHPPD inhibitory activity with a Ki value of 3.92 nM, making it approximately 10 times more potent than pyrasulfotole (Ki = 44 nM) and slightly more potent than mesotrione (Ki = 4.56 nM). In addition, the cocrystal structure of the AtHPPD-4ae complex was successfully resolved at a resolution of 1.8 Å. The X-ray diffraction analysis indicated that the two carbonyl groups of 2-benzoylethen-1-ol formed a bidentate chelating interaction with the metal ion, while the isoindoline-1,3-dione moiety formed pronounced π-π stacking interactions with Phe381 and Phe424. Moreover, water-mediated hydrogen bonding interactions were observed between Asn282 and the nitrogen atoms of the pyrazole ring of 4ae. The above results showed that the pyrazole-isoindoline-1,3-dione hybrid is a promising scaffold for developing HPPD inhibitors.
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Affiliation(s)
- Bo He
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, and Chemical Biology Center, College of Chemistry , Central China Normal University , Wuhan 430079 , P.R. China
| | - Jin Dong
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, and Chemical Biology Center, College of Chemistry , Central China Normal University , Wuhan 430079 , P.R. China
| | - Hong-Yan Lin
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, and Chemical Biology Center, College of Chemistry , Central China Normal University , Wuhan 430079 , P.R. China
| | - Meng-Yao Wang
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, and Chemical Biology Center, College of Chemistry , Central China Normal University , Wuhan 430079 , P.R. China
| | - Xian-Kai Li
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, and Chemical Biology Center, College of Chemistry , Central China Normal University , Wuhan 430079 , P.R. China
| | - Bai-Feng Zheng
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, and Chemical Biology Center, College of Chemistry , Central China Normal University , Wuhan 430079 , P.R. China
| | - Qiong Chen
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, and Chemical Biology Center, College of Chemistry , Central China Normal University , Wuhan 430079 , P.R. China
| | - Ge-Fei Hao
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, and Chemical Biology Center, College of Chemistry , Central China Normal University , Wuhan 430079 , P.R. China
| | - Wen-Chao Yang
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, and Chemical Biology Center, College of Chemistry , Central China Normal University , Wuhan 430079 , P.R. China
| | - Guang-Fu Yang
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, and Chemical Biology Center, College of Chemistry , Central China Normal University , Wuhan 430079 , P.R. China
- Collaborative Innovation Center of Chemical Science and Engineering , Nankai University , Tianjin 300071 , P.R. China
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74
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Han YJ, Kim JI. Application of CRISPR/Cas9-mediated gene editing for the development of herbicide-resistant plants. PLANT BIOTECHNOLOGY REPORTS 2019; 13:447-457. [PMID: 0 DOI: 10.1007/s11816-019-00575-8] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2019] [Accepted: 09/26/2019] [Indexed: 05/27/2023]
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75
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Wang X, Shang Y, Yang L, Tan X, Zhang H, Shan C, Liu S. HPD overexpression predicts poor prognosis in breast cancer. Pathol Res Pract 2019; 215:152524. [DOI: 10.1016/j.prp.2019.152524] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/22/2019] [Revised: 06/06/2019] [Accepted: 06/27/2019] [Indexed: 12/12/2022]
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76
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4-hydroxyphenylpyruvate dioxygenase promotes lung cancer growth via pentose phosphate pathway (PPP) flux mediated by LKB1-AMPK/HDAC10/G6PD axis. Cell Death Dis 2019; 10:525. [PMID: 31285420 PMCID: PMC6614486 DOI: 10.1038/s41419-019-1756-1] [Citation(s) in RCA: 47] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2019] [Revised: 06/17/2019] [Accepted: 06/18/2019] [Indexed: 02/06/2023]
Abstract
4-hydroxyphenylpyruvate dioxygenase (HPD) is an important modifier of tyrosine metabolism. However, the precise contribution of HPD to cancer metabolism and tumorigenesis remains unclear. In this study, we found that HPD was highly expressed in lung cancer and its higher expression correlated with poor prognosis in lung cancer patients. Suppressed HPD expression was sufficient to decrease oxidative pentose phosphate pathway (PPP) flux, leading to reduced RNA biosynthesis and enhanced reactive oxygen species (ROS) level, attenuated cancer cell proliferation, and tumor growth. Mechanistically, HPD not only promotes tyrosine catabolism leading to increased acetyl-CoA levels, the source of histone acetylation, but also stimulates histone deacetylase 10 (HDAC10) translocation from the nucleus into the cytoplasm mediated by tumor suppressor liver kinase B1 (LKB1)–AMP-activated protein kinase (AMPK) signaling. Both controlled histone acetylation modification, which enhanced transcription of the important PPP enzyme Glucose-6-Phosphate Dehydrogenase (G6PD). Thus, this study reveals HPD as a novel regulator of LKB1–AMPK signaling-mediated HDAC10 nuclear location, which contributes to G6PD expression in promoting tumor growth, which is a promising target for lung cancer treatment.
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77
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Lin HY, Chen X, Chen JN, Wang DW, Wu FX, Lin SY, Zhan CG, Wu JW, Yang WC, Yang GF. Crystal Structure of 4-Hydroxyphenylpyruvate Dioxygenase in Complex with Substrate Reveals a New Starting Point for Herbicide Discovery. RESEARCH 2019; 2019:2602414. [PMID: 31549053 PMCID: PMC6750108 DOI: 10.34133/2019/2602414] [Citation(s) in RCA: 55] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/19/2019] [Accepted: 06/10/2019] [Indexed: 01/09/2023]
Abstract
4-Hydroxyphenylpyruvate dioxygenase (HPPD) is a promising target for drug and pesticide discovery. The unknown binding mode of substrate is still a big challenge for the understanding of enzymatic reaction mechanism and novel HPPD inhibitor design. Herein, we determined the first crystal structure of Arabidopsis thaliana HPPD (AtHPPD) in complex with its natural substrate (HPPA) at a resolution of 2.80 Å. Then, combination of hybrid quantum mechanics/molecular mechanics (QM/MM) calculations confirmed that HPPA takes keto rather than enol form inside the HPPD active pocket. Subsequent site-directed mutagenesis and kinetic analysis further showed that residues (Phe424, Asn423, Glu394, Gln307, Asn282, and Ser267) played important roles in substrate binding and catalytic cycle. Structural comparison between HPPA-AtHPPD and holo-AtHPPD revealed that Gln293 underwent a remarkable rotation upon the HPPA binding and formed H-bond network of Ser267-Asn282-Gln307-Gln293, resulting in the transformation of HPPD from an inactive state to active state. Finally, taking the conformation change of Gln293 as a target, we proposed a new strategy of blocking the transformation of HPPD from inactive state to active state to design a novel inhibitor with Ki value of 24.10 nM towards AtHPPD. The inhibitor has entered into industry development as the first selective herbicide used for the weed control in sorghum field. The crystal structure of AtHPPD in complex with the inhibitor (2.40 Å) confirmed the rationality of the design strategy. We believe that the present work provides a new starting point for the understanding of enzymatic reaction mechanism and the design of next generation HPPD inhibitors.
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Affiliation(s)
- Hong-Yan Lin
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, College of Chemistry, Chemical Biology Center, Central China Normal University, Wuhan 430079, China.,MOE Key Laboratory of Protein Sciences, Tsinghua-Peking Center for Life Sciences, School of Life Sciences, Tsinghua University, Beijing 100084, China
| | - Xi Chen
- College of Chemistry and Material Science, South-Central University for Nationalities, Wuhan 430074, China
| | - Jia-Nan Chen
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, College of Chemistry, Chemical Biology Center, Central China Normal University, Wuhan 430079, China
| | - Da-Wei Wang
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, College of Chemistry, Chemical Biology Center, Central China Normal University, Wuhan 430079, China
| | - Feng-Xu Wu
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, College of Chemistry, Chemical Biology Center, Central China Normal University, Wuhan 430079, China
| | - Song-Yun Lin
- MOE Key Laboratory of Protein Sciences, Tsinghua-Peking Center for Life Sciences, School of Life Sciences, Tsinghua University, Beijing 100084, China
| | - Chang-Guo Zhan
- Department of Pharmaceutical Sciences, College of Pharmacy, University of Kentucky, 789 South Limestone Street, Lexington, KY 40536, USA
| | - Jia-Wei Wu
- MOE Key Laboratory of Protein Sciences, Tsinghua-Peking Center for Life Sciences, School of Life Sciences, Tsinghua University, Beijing 100084, China
| | - Wen-Chao Yang
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, College of Chemistry, Chemical Biology Center, Central China Normal University, Wuhan 430079, China
| | - Guang-Fu Yang
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, International Joint Research Center for Intelligent Biosensor Technology and Health, College of Chemistry, Chemical Biology Center, Central China Normal University, Wuhan 430079, China.,Collaborative Innovation Center of Chemical Science and Engineering, Tianjin 30071, China
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78
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Naveed M, Tehreem S, Mehboob MZ. In-Silico analysis of missense SNPs in Human HPPD gene associated with Tyrosinemia type III and Hawkinsinuria. Comput Biol Chem 2019; 80:284-291. [DOI: 10.1016/j.compbiolchem.2019.04.007] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2018] [Revised: 04/14/2019] [Accepted: 04/18/2019] [Indexed: 11/24/2022]
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79
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Schindler CEM, Hollenbach E, Mietzner T, Schleifer K, Zacharias M. Free energy calculations elucidate substrate binding, gating mechanism, and tolerance-promoting mutations in herbicide target 4-hydroxyphenylpyruvate dioxygenase. Protein Sci 2019; 28:1048-1058. [PMID: 30945368 PMCID: PMC6511742 DOI: 10.1002/pro.3612] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2019] [Accepted: 03/28/2019] [Indexed: 11/07/2022]
Abstract
4-Hydroxyphenylpyruvate dioxygenase (HPPD) catalyzes the second reaction in the tyrosine catabolism and is linked to the production of cofactors plastoquinone and tocopherol in plants. This important biological role has put HPPD in the focus of current herbicide design efforts including the development of herbicide-tolerant mutants. However, the molecular mechanisms of substrate binding and herbicide tolerance have yet to be elucidated. In this work, we performed molecular dynamics simulations and free energy calculations to characterize active site gating by the C-terminal helix H11 in HPPD. We compared gating equilibria in Arabidopsis thaliana (At) and Zea mays (Zm) wild-type proteins retrieving the experimentally observed preferred orientations from the simulations. We investigated the influence of substrate and product binding on the open-closed transition and discovered a ligand-mediated conformational switch in H11 that mediates rapid substrate access followed by active site closing and efficient product release through H11 opening. We further studied H11 gating in At mutant HPPD, and found large differences with correlation to experimentally measured herbicide tolerance. The computational findings were then used to design a new At mutant HPPD protein that showed increased tolerance to six commercially available HPPD inhibitors in biochemical in vitro experiments. Our results underline the importance of protein flexibility and conformational transitions in substrate recognition and enzyme inhibition by herbicides.
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Affiliation(s)
- Christina E. M. Schindler
- Physics Department T38Technical University of MunichGarchingGermany
- Center for Integrated Protein Science MunichMunichGermany
| | - Eva Hollenbach
- BASF SE, Global Research Crop ProtectionAgricultural Centre LimburgerhofLimburgerhofGermany
| | - Thomas Mietzner
- BASF SE, Global Research Crop Protection, Molecular ModelingLudwigshafenGermany
| | | | - Martin Zacharias
- Physics Department T38Technical University of MunichGarchingGermany
- Center for Integrated Protein Science MunichMunichGermany
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80
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Hawkes TR, Langford MP, Viner R, Blain RE, Callaghan FM, Mackay EA, Hogg BV, Singh S, Dale RP. Characterization of 4-hydroxyphenylpyruvate dioxygenases, inhibition by herbicides and engineering for herbicide tolerance in crops. PESTICIDE BIOCHEMISTRY AND PHYSIOLOGY 2019; 156:9-28. [PMID: 31027586 DOI: 10.1016/j.pestbp.2019.01.006] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/06/2018] [Revised: 01/11/2019] [Accepted: 01/17/2019] [Indexed: 06/09/2023]
Abstract
4-Hydroxyphenylpyruvate dioxgenase (HPPD) enzymes from rat and from several plants contained only about a single inhibitor-binding active site per dimer which matched the content of iron in the purified Arabidopsis thaliana and Avena sativa enzymes. The dimeric HPPDs were about 10 fold more catalytically active than the tetrameric P. fluorescens enzyme with kcat/KmHPP values ranging from 0.8 to 2.5 s-1 μM-1. Most were also highly sensitive to herbicides with, for example, Ki values for mesotrione ranging from 25 to 100 pM. Curiously HPPDs from cool climate grasses were much less herbicide-sensitive. When likewise expressed in Nicotinia tabacum, Avena sativa HPPD, Ki value of 11 nM for mesotrione, conferred far greater tolerance to mesotrione (CallistoTM) than did any of the more sensitive HPPDs. Targeted mutagenesis of the Avena HPPD led to the discovery of 4 mutations imparting improved inherent tolerance, defined as the ratio of Ki to KmHPP, by about 16 fold without any loss of catalytic activity. The Nicotinia line with the highest expression of this quadruple mutant exhibited substantial resistance even up to a 3 kg/ha post-emergence application of mesotrione. The maximum observed expression level of heterologous plant HPPDs in tobacco was ca. 0.35% of the total soluble protein whereas the endogenous tobacco HPPD constituted only ca. 0.00075%. At such high expression even HPPDs with impaired catalytic activity could be effective. A quintuple mutant Avena sativa HPPD conferred substantial tolerance across a broad range of HPPD herbicide chemistries despite being only ca. 5 % as catalytically active as the wild type enzyme. Testing various wild type and mutant HPPDs in tobacco revealed that tolerance to field rates of herbicide generally requires about two order of magnitude increases in both inherent herbicide tolerance and expression relative to endogenous levels. This double hurdle may explain why target-site based resistance to HPPD-inhibiting herbicides has been slow to evolve in weeds.
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Affiliation(s)
- Tim R Hawkes
- Syngenta Ltd., Jealott's Hill Research Centre, Bracknell RG426EY, United Kingdom
| | - Michael P Langford
- Syngenta Ltd., Jealott's Hill Research Centre, Bracknell RG426EY, United Kingdom
| | - Russell Viner
- Syngenta Ltd., Jealott's Hill Research Centre, Bracknell RG426EY, United Kingdom
| | - Rachael E Blain
- Syngenta Ltd., Jealott's Hill Research Centre, Bracknell RG426EY, United Kingdom
| | - Fiona M Callaghan
- Syngenta Ltd., Jealott's Hill Research Centre, Bracknell RG426EY, United Kingdom
| | - Elaine A Mackay
- Syngenta Ltd., Jealott's Hill Research Centre, Bracknell RG426EY, United Kingdom
| | - Bridget V Hogg
- Syngenta Ltd., Jealott's Hill Research Centre, Bracknell RG426EY, United Kingdom
| | - Shradha Singh
- Syngenta Ltd., Jealott's Hill Research Centre, Bracknell RG426EY, United Kingdom
| | - Richard P Dale
- Syngenta Ltd., Jealott's Hill Research Centre, Bracknell RG426EY, United Kingdom.
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81
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Wang M, Toda K, Block A, Maeda HA. TAT1 and TAT2 tyrosine aminotransferases have both distinct and shared functions in tyrosine metabolism and degradation in Arabidopsis thaliana. J Biol Chem 2019; 294:3563-3576. [PMID: 30630953 PMCID: PMC6416433 DOI: 10.1074/jbc.ra118.006539] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2018] [Revised: 01/08/2019] [Indexed: 12/18/2022] Open
Abstract
Plants produce various l-tyrosine (Tyr)-derived compounds that are critical for plant adaptation and have pharmaceutical or nutritional importance for human health. Tyrosine aminotransferases (TATs) catalyze the reversible reaction between Tyr and 4-hydroxyphenylpyruvate (HPP), representing the entry point in plants for both biosynthesis of various natural products and Tyr degradation in the recycling of energy and nutrients. To better understand the roles of TATs and how Tyr is metabolized in planta, here we characterized single and double loss-of-function mutants of TAT1 (At5g53970) and TAT2 (At5g36160) in the model plant Arabidopsis thaliana As reported previously, tat1 mutants exhibited elevated and decreased levels of Tyr and tocopherols, respectively. The tat2 mutation alone had no impact on Tyr and tocopherol levels, but a tat1 tat2 double mutant had increased Tyr accumulation and decreased tocopherol levels under high-light stress compared with the tat1 mutant. Relative to WT and the tat2 mutant, the tat1 mutant displayed increased vulnerability to continuous dark treatment, associated with an early drop in respiratory activity and sucrose depletion. During isotope-labeled Tyr feeding in the dark, we observed that the tat1 mutant exhibits much slower 13C incorporation into tocopherols, fumarate, and other tricarboxylic acid (TCA) cycle intermediates than WT and the tat2 mutant. These results indicate that TAT1 and TAT2 function together in tocopherol biosynthesis, with TAT2 having a lesser role, and that TAT1 plays the major role in Tyr degradation in planta Our study also highlights the importance of Tyr degradation under carbon starvation conditions during dark-induced senescence in plants.
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Affiliation(s)
- Minmin Wang
- From the Department of Botany, University of Wisconsin-Madison, Madison, Wisconsin 53706
- the Department of Biochemistry, University of Missouri, Columbia, Missouri 65211
| | - Kyoko Toda
- From the Department of Botany, University of Wisconsin-Madison, Madison, Wisconsin 53706
- the Institute of Crop Science, National Agriculture and Food Research Organization (NARO), 2-1-2 Kannondai, Tsukuba, Ibaraki 305-8518, Japan
| | - Anna Block
- the Center for Medical, Agricultural, and Veterinary Entomology, Agricultural Research Service, United States Department of Agriculture, Gainesville, Florida 32608, and
| | - Hiroshi A Maeda
- From the Department of Botany, University of Wisconsin-Madison, Madison, Wisconsin 53706,
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82
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Ndikuryayo F, Kang WM, Wu FX, Yang WC, Yang GF. Hydrophobicity-oriented drug design (HODD) of new human 4-hydroxyphenylpyruvate dioxygenase inhibitors. Eur J Med Chem 2019; 166:22-31. [DOI: 10.1016/j.ejmech.2019.01.032] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2018] [Revised: 01/13/2019] [Accepted: 01/13/2019] [Indexed: 02/01/2023]
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83
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Thinnes CC, Lohans CT, Abboud MI, Yeh T, Tumber A, Nowak RP, Attwood M, Cockman ME, Oppermann U, Loenarz C, Schofield CJ. Selective Inhibitors of a Human Prolyl Hydroxylase (OGFOD1) Involved in Ribosomal Decoding. Chemistry 2019; 25:2019-2024. [PMID: 30427558 PMCID: PMC6471485 DOI: 10.1002/chem.201804790] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2018] [Indexed: 12/12/2022]
Abstract
Human prolyl hydroxylases are involved in the modification of transcription factors, procollagen, and ribosomal proteins, and are current medicinal chemistry targets. To date, there are few reports on inhibitors selective for the different types of prolyl hydroxylases. We report a structurally informed template-based strategy for the development of inhibitors selective for the human ribosomal prolyl hydroxylase OGFOD1. These inhibitors did not target the other human oxygenases tested, including the structurally similar hypoxia-inducible transcription factor prolyl hydroxylase, PHD2.
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Affiliation(s)
| | | | | | - Tzu‐Lan Yeh
- Department of ChemistryUniversity of OxfordOxfordOX1 3TAUK
| | - Anthony Tumber
- Department of ChemistryUniversity of OxfordOxfordOX1 3TAUK
- Structural Genomics ConsortiumUniversity of OxfordHeadingtonOX3 7DQUK
| | - Radosław P. Nowak
- Structural Genomics ConsortiumUniversity of OxfordHeadingtonOX3 7DQUK
- Department of Cancer BiologyDana-Farber Cancer InstituteBoston, MA02215USA
| | - Martin Attwood
- Centre for Cellular and Molecular PhysiologyUniversity of OxfordOxfordOX3 7BNUK
| | - Matthew E. Cockman
- Centre for Cellular and Molecular PhysiologyUniversity of OxfordOxfordOX3 7BNUK
| | - Udo Oppermann
- Structural Genomics ConsortiumUniversity of OxfordHeadingtonOX3 7DQUK
| | - Christoph Loenarz
- Department of ChemistryUniversity of OxfordOxfordOX1 3TAUK
- Institute of Pharmaceutical SciencesAlbert-Ludwigs-Universität Freiburg79104FreiburgGermany
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84
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Lin H, Yang J, Wang D, Hao G, Dong J, Wang Y, Yang W, Wu J, Zhan C, Yang G. Molecular insights into the mechanism of 4‐hydroxyphenylpyruvate dioxygenase inhibition: enzyme kinetics, X‐ray crystallography and computational simulations. FEBS J 2019; 286:975-990. [DOI: 10.1111/febs.14747] [Citation(s) in RCA: 49] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2018] [Revised: 11/29/2018] [Accepted: 01/09/2019] [Indexed: 02/03/2023]
Affiliation(s)
- Hong‐Yan Lin
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education International Joint Research Center for Intelligent Biosensor Technology and Health Chemical Biology Center College of Chemistry Central China Normal University Wuhan China
| | - Jing‐Fang Yang
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education International Joint Research Center for Intelligent Biosensor Technology and Health Chemical Biology Center College of Chemistry Central China Normal University Wuhan China
| | - Da‐Wei Wang
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education International Joint Research Center for Intelligent Biosensor Technology and Health Chemical Biology Center College of Chemistry Central China Normal University Wuhan China
| | - Ge‐Fei Hao
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education International Joint Research Center for Intelligent Biosensor Technology and Health Chemical Biology Center College of Chemistry Central China Normal University Wuhan China
| | - Jiang‐Qing Dong
- MOE Key Laboratory of Protein Sciences Tsinghua‐Peking Center for Life Sciences School of Life Sciences Tsinghua University Beijing China
| | - Yu‐Xia Wang
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education International Joint Research Center for Intelligent Biosensor Technology and Health Chemical Biology Center College of Chemistry Central China Normal University Wuhan China
| | - Wen‐Chao Yang
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education International Joint Research Center for Intelligent Biosensor Technology and Health Chemical Biology Center College of Chemistry Central China Normal University Wuhan China
| | - Jia‐Wei Wu
- MOE Key Laboratory of Protein Sciences Tsinghua‐Peking Center for Life Sciences School of Life Sciences Tsinghua University Beijing China
| | - Chang‐Guo Zhan
- Department of Pharmaceutical Sciences College of Pharmacy University of Kentucky Lexington KY USA
| | - Guang‐Fu Yang
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education International Joint Research Center for Intelligent Biosensor Technology and Health Chemical Biology Center College of Chemistry Central China Normal University Wuhan China
- Collaborative Innovation Center of Chemical Science and Engineering Tianjin China
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85
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Chen AY, Adamek RN, Dick BL, Credille CV, Morrison CN, Cohen SM. Targeting Metalloenzymes for Therapeutic Intervention. Chem Rev 2019; 119:1323-1455. [PMID: 30192523 PMCID: PMC6405328 DOI: 10.1021/acs.chemrev.8b00201] [Citation(s) in RCA: 161] [Impact Index Per Article: 32.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
Metalloenzymes are central to a wide range of essential biological activities, including nucleic acid modification, protein degradation, and many others. The role of metalloenzymes in these processes also makes them central for the progression of many diseases and, as such, makes metalloenzymes attractive targets for therapeutic intervention. Increasing awareness of the role metalloenzymes play in disease and their importance as a class of targets has amplified interest in the development of new strategies to develop inhibitors and ultimately useful drugs. In this Review, we provide a broad overview of several drug discovery efforts focused on metalloenzymes and attempt to map out the current landscape of high-value metalloenzyme targets.
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Affiliation(s)
- Allie Y Chen
- Department of Chemistry and Biochemistry , University of California, San Diego , La Jolla , California 92093 , United States
| | - Rebecca N Adamek
- Department of Chemistry and Biochemistry , University of California, San Diego , La Jolla , California 92093 , United States
| | - Benjamin L Dick
- Department of Chemistry and Biochemistry , University of California, San Diego , La Jolla , California 92093 , United States
| | - Cy V Credille
- Department of Chemistry and Biochemistry , University of California, San Diego , La Jolla , California 92093 , United States
| | - Christine N Morrison
- Department of Chemistry and Biochemistry , University of California, San Diego , La Jolla , California 92093 , United States
| | - Seth M Cohen
- Department of Chemistry and Biochemistry , University of California, San Diego , La Jolla , California 92093 , United States
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86
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Fu Y, Wang K, Wang P, Kang JX, Gao S, Zhao LX, Ye F. Design, Synthesis, and Herbicidal Activity Evaluation of Novel Aryl-Naphthyl Methanone Derivatives. Front Chem 2019; 7:2. [PMID: 30723715 PMCID: PMC6349756 DOI: 10.3389/fchem.2019.00002] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2018] [Accepted: 01/03/2019] [Indexed: 01/26/2023] Open
Abstract
4-Hydroxyphenylpyruvate dioxygenase (HPPD) is one of the most vital targets for herbicides discovery. In search for HPPD inhibitors with novel scaffolds, a series of aryl-naphthyl methanone derivatives have been designed and synthesized through alkylation and Friedel-Crafts acylation reactions. The bioassay indicated some of these compounds displayed preferable herbicidal activity at the rate of 0.75 mmol/m2 by post-emergence application, in which compound 3h displayed the best herbicidal activity. The molecular docking showed that compound 3h could bind well to the active site of the AtHPPD. This study shows that aryl-naphthyl methanone derivatives could be a potential lead structure for further development of novel herbicides.
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Affiliation(s)
- Ying Fu
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin, China
| | - Kui Wang
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin, China
| | - Peng Wang
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin, China
| | - Jing-Xin Kang
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin, China
| | - Shuang Gao
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin, China
| | - Li-Xia Zhao
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin, China
| | - Fei Ye
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin, China
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87
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Zhang X, Shi J, Sun Y, Habib YJ, Yang H, Zhang Z, Wang Y. Integrative transcriptome analysis and discovery of genes involving in immune response of hypoxia/thermal challenges in the small abalone Haliotis diversicolor. FISH & SHELLFISH IMMUNOLOGY 2019; 84:609-626. [PMID: 30366091 DOI: 10.1016/j.fsi.2018.10.044] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/25/2018] [Revised: 10/18/2018] [Accepted: 10/20/2018] [Indexed: 06/08/2023]
Abstract
In recent years, the abalone aquaculture industry has been threatened by the deteriorating environmental conditions, such as hypoxia and thermal stress in the hot summers. It is necessary to investigate the molecular mechanism in response to these environmental challenges, and subsequently understand the immune defense system. In this study, the transcriptome profiles by RNA-seq of hemocytes from the small abalone Haliotis diversicolor after exposure to hypoxia, thermal stress, and hypoxia plus thermal stress were established. A total of 103,703,074 clean reads were obtained and 99,774 unigenes were assembled. Of the 99,774 unigenes, 47,154 and 20,455 had homologous sequences in the Nr and Swiss-Prot protein databases, while 16,944 and 10,840 unigenes could be classified by COG or KEGG databases, respectively. RNAseq analysis revealed that the differentially expressed genes (DEGs) after challenges of hypoxia, thermal stress, or hypoxia plus thermal stress were 24,189, 29,165 and 23,665, among which more than 3000 genes involved in at least 230 pathways, including several classical immune-related pathways. The genes and pathways that were involved in immune response to hypoxia/thermal challenges were identified by transcriptome analysis and further validated by quantitative real-time PCR and RNAi technology. The findings in this study can provide information on H. diversicolor innate immunity to improve the abalone aquaculture industry, and the analysis of the potential immune-related genes in innate immunity signaling pathways and the obtained transcriptome data can provide an invaluable genetic resource for the study of the genome and functional genes.
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Affiliation(s)
- Xin Zhang
- College of Animal Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian Province, 350002, China
| | - Jialong Shi
- College of Animal Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian Province, 350002, China
| | - Yulong Sun
- College of Animal Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian Province, 350002, China
| | - Yusuf Jibril Habib
- College of Animal Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian Province, 350002, China
| | - Huiping Yang
- School of Forest Resources and Conservation, Institute of Food and Agricultural Sciences, University of Florida, 7922 NW 71st Street, Gainesville, FL, 32653, USA
| | - Ziping Zhang
- College of Animal Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian Province, 350002, China.
| | - Yilei Wang
- Fisheries College, Jimei University, Xiamen, 361021, China.
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88
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Singh D, Kumar J, Kumar A. Isolation of pyomelanin from bacteria and evidences showing its synthesis by 4-hydroxyphenylpyruvate dioxygenase enzyme encoded by hppD gene. Int J Biol Macromol 2018; 119:864-873. [DOI: 10.1016/j.ijbiomac.2018.08.003] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2018] [Revised: 07/29/2018] [Accepted: 08/01/2018] [Indexed: 11/27/2022]
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89
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Zhao H, Xu Y, Lin S, Spain JC, Zhou NY. The molecular basis for the intramolecular migration (NIH shift) of the carboxyl group duringpara-hydroxybenzoate catabolism. Mol Microbiol 2018; 110:411-424. [PMID: 30070064 DOI: 10.1111/mmi.14094] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 07/28/2018] [Indexed: 11/28/2022]
Affiliation(s)
- Huan Zhao
- State Key Laboratory of Microbial Metabolism; and School of Life Sciences & Biotechnology; Shanghai Jiao Tong University; Shanghai 200240 China
| | - Ying Xu
- State Key Laboratory of Microbial Metabolism; and School of Life Sciences & Biotechnology; Shanghai Jiao Tong University; Shanghai 200240 China
| | - Shuangjun Lin
- State Key Laboratory of Microbial Metabolism; and School of Life Sciences & Biotechnology; Shanghai Jiao Tong University; Shanghai 200240 China
| | - Jim C. Spain
- Center for Environmental Diagnostics & Bioremediation; University of West Florida; 11000 University Parkway Pensacola FL 32514-5751 USA
| | - Ning-Yi Zhou
- State Key Laboratory of Microbial Metabolism; and School of Life Sciences & Biotechnology; Shanghai Jiao Tong University; Shanghai 200240 China
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90
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Liang W, Zhang W, Shao Y, Zhao X, Li C. Dual functions of a 4-hydroxyphenylpyruvate dioxygenase for Vibrio splendidus survival and infection. Microb Pathog 2018; 120:47-54. [DOI: 10.1016/j.micpath.2018.04.055] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2018] [Revised: 04/25/2018] [Accepted: 04/26/2018] [Indexed: 01/08/2023]
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91
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Ravensdale JT, Coorey R, Dykes GA. Integration of Emerging Biomedical Technologies in Meat Processing to Improve Meat Safety and Quality. Compr Rev Food Sci Food Saf 2018; 17:615-632. [PMID: 33350135 DOI: 10.1111/1541-4337.12339] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2017] [Revised: 01/11/2018] [Accepted: 01/12/2018] [Indexed: 01/16/2023]
Abstract
Modern-day processing of meat products involves a series of complex procedures designed to ensure the quality and safety of the meat for consumers. As the size of abattoirs increases, the logistical problems associated with large-capacity animal processing can affect the sanitation of the facility and the meat products, potentially increasing transmission of infectious diseases. Additionally, spoilage of food from improper processing and storage increases the global economic and ecological burden of meat production. Advances in biomedical and materials science have allowed for the development of innovative new antibacterial technologies that have broad applications in the medical industry. Additionally, new approaches in tissue engineering and nondestructive cooling of biological specimens could significantly improve organ transplantation and tissue grafting. These same strategies may be even more effective in the preservation and protection of meat as animal carcasses are easier to manipulate and do not have the same stringent requirements of care as living patients. This review presents potential applications of emerging biomedical technologies in the food industry to improve meat safety and quality. Future research directions investigating these new technologies and their usefulness in the meat processing chain along with regulatory, logistical, and consumer perception issues will also be discussed.
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Affiliation(s)
- Joshua T Ravensdale
- School of Public Health, Curtin Univ., Kent Street, Perth, Western Australia, 6102, Australia.,Curtin Health Innovation Research Inst., Curtin Univ., Kent Street, Perth, Western Australia, 6102, Australia
| | - Ranil Coorey
- School of Public Health, Curtin Univ., Kent Street, Perth, Western Australia, 6102, Australia.,Curtin Health Innovation Research Inst., Curtin Univ., Kent Street, Perth, Western Australia, 6102, Australia
| | - Gary A Dykes
- School of Public Health, Curtin Univ., Kent Street, Perth, Western Australia, 6102, Australia.,Curtin Health Innovation Research Inst., Curtin Univ., Kent Street, Perth, Western Australia, 6102, Australia
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92
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Fu Y, Sun YN, Yi KH, Li MQ, Cao HF, Li JZ, Ye F. Combination of Virtual Screening Protocol by in Silico toward the Discovery of Novel 4-Hydroxyphenylpyruvate Dioxygenase Inhibitors. Front Chem 2018; 6:14. [PMID: 29468151 PMCID: PMC5807903 DOI: 10.3389/fchem.2018.00014] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2017] [Accepted: 01/18/2018] [Indexed: 11/13/2022] Open
Abstract
4-Hydroxyphenylpyruvate dioxygenase (EC 1.13.11.27, HPPD) is a potent new bleaching herbicide target. Therefore, in silico structure-based virtual screening was performed in order to speed up the identification of promising HPPD inhibitors. In this study, an integrated virtual screening protocol by combining 3D-pharmacophore model, molecular docking and molecular dynamics (MD) simulation was established to find novel HPPD inhibitors from four commercial databases. 3D-pharmacophore Hypo1 model was applied to efficiently narrow potential hits. The hit compounds were subsequently submitted to molecular docking studies, showing four compounds as potent inhibitor with the mechanism of the Fe(II) coordination and interaction with Phe360, Phe403, and Phe398. MD result demonstrated that nonpolar term of compound 3881 made great contributions to binding affinities. It showed an IC50 being 2.49 μM against AtHPPD in vitro. The results provided useful information for developing novel HPPD inhibitors, leading to further understanding of the interaction mechanism of HPPD inhibitors.
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Affiliation(s)
- Ying Fu
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin, China
| | - Yi-Na Sun
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin, China
| | - Ke-Han Yi
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin, China
| | - Ming-Qiang Li
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin, China
| | - Hai-Feng Cao
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin, China
| | - Jia-Zhong Li
- School of Pharmacy, Lanzhou University, Lanzhou, China
| | - Fei Ye
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin, China
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93
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Ndikuryayo F, Moosavi B, Yang WC, Yang GF. 4-Hydroxyphenylpyruvate Dioxygenase Inhibitors: From Chemical Biology to Agrochemicals. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2017; 65:8523-8537. [PMID: 28903556 DOI: 10.1021/acs.jafc.7b03851] [Citation(s) in RCA: 81] [Impact Index Per Article: 11.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
The development of new herbicides is receiving considerable attention to control weed biotypes resistant to current herbicides. Consequently, new enzymes are always desired as targets for herbicide discovery. 4-Hydroxyphenylpyruvate dioxygenase (HPPD, EC 1.13.11.27) is an enzyme engaged in photosynthetic activity and catalyzes the transformation of 4-hydroxyphenylpyruvic acid (HPPA) into homogentisic acid (HGA). HPPD inhibitors constitute a promising area of discovery and development of innovative herbicides with some advantages, including excellent crop selectivity, low application rates, and broad-spectrum weed control. HPPD inhibitors have been investigated for agrochemical interests, and some of them have already been commercialized as herbicides. In this review, we mainly focus on the chemical biology of HPPD, discovery of new potential inhibitors, and strategies for engineering transgenic crops resistant to current HPPD-inhibiting herbicides. The conclusion raises some relevant gaps for future research directions.
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Affiliation(s)
- Ferdinand Ndikuryayo
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, College of Chemistry, Central China Normal University , Wuhan 430079, P. R. China
| | - Behrooz Moosavi
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, College of Chemistry, Central China Normal University , Wuhan 430079, P. R. China
| | - Wen-Chao Yang
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, College of Chemistry, Central China Normal University , Wuhan 430079, P. R. China
| | - Guang-Fu Yang
- Key Laboratory of Pesticide & Chemical Biology of Ministry of Education, College of Chemistry, Central China Normal University , Wuhan 430079, P. R. China
- Collaborative Innovation Center of Chemical Science and Engineering , Tianjin 30071, P. R. China
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94
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Zeng Z, Cai X, Wang P, Guo Y, Liu X, Li B, Wang X. Biofilm Formation and Heat Stress Induce Pyomelanin Production in Deep-Sea Pseudoalteromonas sp. SM9913. Front Microbiol 2017; 8:1822. [PMID: 28983293 PMCID: PMC5613676 DOI: 10.3389/fmicb.2017.01822] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2017] [Accepted: 09/06/2017] [Indexed: 01/24/2023] Open
Abstract
Pseudoalteromonas is an important bacterial genus present in various marine habitats. Many strains of this genus are found to be surface colonizers on marine eukaryotes and produce a wide range of pigments. However, the exact physiological role and mechanism of pigmentation were less studied. Pseudoalteromonas sp. SM9913 (SM9913), an non-pigmented strain isolated from the deep-sea sediment, formed attached biofilm at the solid–liquid interface and pellicles at the liquid–air interface at a wide range of temperatures. Lower temperatures and lower nutrient levels promoted the formation of attached biofilm, while higher nutrient levels promoted pellicle formation of SM9913. Notably, after prolonged incubation at higher temperatures growing planktonically or at the later stage of the biofilm formation, we found that SM9913 released a brownish pigment. By comparing the protein profile at different temperatures followed by qRT-PCR, we found that the production of pigment at higher temperatures was due to the induction of melA gene which is responsible for the synthesis of homogentisic acid (HGA). The auto-oxidation of HGA can lead to the formation of pyomelanin, which has been shown in other bacteria. Fourier Transform Infrared Spectrometer analysis confirmed that the pigment produced in SM9913 was pyomelanin-like compound. Furthermore, we demonstrated that, during heat stress and during biofilm formation, the induction level of melA gene was significantly higher than that of the hmgA gene which is responsible for the degradation of HGA in the L-tyrosine catabolism pathway. Collectively, our results suggest that the production of pyomelanin of SM9913 at elevated temperatures or during biofilm formation might be one of the adaptive responses of marine bacteria to environmental cues.
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Affiliation(s)
- Zhenshun Zeng
- Key Laboratory of Tropical Marine Bio-resources and Ecology, The South China Sea Institute of Oceanology, Chinese Academy of SciencesGuangzhou, China
| | - Xingsheng Cai
- Key Laboratory of Tropical Marine Bio-resources and Ecology, The South China Sea Institute of Oceanology, Chinese Academy of SciencesGuangzhou, China
| | - Pengxia Wang
- Key Laboratory of Tropical Marine Bio-resources and Ecology, The South China Sea Institute of Oceanology, Chinese Academy of SciencesGuangzhou, China
| | - Yunxue Guo
- Key Laboratory of Tropical Marine Bio-resources and Ecology, The South China Sea Institute of Oceanology, Chinese Academy of SciencesGuangzhou, China
| | - Xiaoxiao Liu
- Key Laboratory of Tropical Marine Bio-resources and Ecology, The South China Sea Institute of Oceanology, Chinese Academy of SciencesGuangzhou, China
| | - Baiyuan Li
- Key Laboratory of Tropical Marine Bio-resources and Ecology, The South China Sea Institute of Oceanology, Chinese Academy of SciencesGuangzhou, China.,Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of MicrobiologyGuangzhou, China
| | - Xiaoxue Wang
- Key Laboratory of Tropical Marine Bio-resources and Ecology, The South China Sea Institute of Oceanology, Chinese Academy of SciencesGuangzhou, China
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95
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96
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97
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Kaundun SS, Hutchings SJ, Dale RP, Howell A, Morris JA, Kramer VC, Shivrain VK, Mcindoe E. Mechanism of resistance to mesotrione in an Amaranthus tuberculatus population from Nebraska, USA. PLoS One 2017; 12:e0180095. [PMID: 28662111 PMCID: PMC5491128 DOI: 10.1371/journal.pone.0180095] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2017] [Accepted: 05/27/2017] [Indexed: 11/18/2022] Open
Abstract
Amaranthus tuberculatus is a troublesome weed in corn and soybean production systems in Midwestern USA, due in part to its ability to evolve multiple resistance to key herbicides including 4-hydroxyphenylpyruvate dioxygenase (HPPD). Here we have investigated the mechanism of resistance to mesotrione, an important chemical for managing broadleaf weeds in corn, in a multiple herbicide resistant population (NEB) from Nebraska. NEB showed a 2.4-fold and 45-fold resistance increase to mesotrione compared to a standard sensitive population (SEN) in pre-emergence and post-emergence dose-response pot tests, respectively. Sequencing of the whole HPPD gene from 12 each of sensitive and resistant plants did not detect any target-site mutations that could be associated with post-emergence resistance to mesotrione in NEB. Resistance was not due to HPPD gene duplication or over-expression before or after herbicide treatment, as revealed by qPCR. Additionally, no difference in mesotrione uptake was detected between NEB and SEN. In contrast, higher levels of mesotrione metabolism via 4-hydroxylation of the dione ring were observed in NEB compared to the sensitive population. Overall, the NEB population was characterised by lower levels of parent mesotrione exported to other parts of the plant, either as a consequence of metabolism in the treated leaves and/or impaired translocation of the herbicide. This study demonstrates another case of non-target-site based resistance to an important class of herbicides in an A. tuberculatus population. The knowledge generated here will help design strategies for managing multiple herbicide resistance in this problematic weed species.
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Affiliation(s)
- Shiv S. Kaundun
- Syngenta Ltd., Jealott’s Hill International Research Centre, Bracknell, Berkshire, United Kingdom
- * E-mail:
| | - Sarah-Jane Hutchings
- Syngenta Ltd., Jealott’s Hill International Research Centre, Bracknell, Berkshire, United Kingdom
| | - Richard P. Dale
- Syngenta Ltd., Jealott’s Hill International Research Centre, Bracknell, Berkshire, United Kingdom
| | - Anushka Howell
- Syngenta Ltd., Jealott’s Hill International Research Centre, Bracknell, Berkshire, United Kingdom
| | - James A. Morris
- Syngenta Ltd., Jealott’s Hill International Research Centre, Bracknell, Berkshire, United Kingdom
| | - Vance C. Kramer
- Syngenta, Research Triangle Park, NC, United States of America
| | - Vinod K. Shivrain
- Syngenta, Vero Beach Research Center, Vero Beach, FL, United States of America
| | - Eddie Mcindoe
- Syngenta Ltd., Jealott’s Hill International Research Centre, Bracknell, Berkshire, United Kingdom
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98
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Fu Y, Sun YN, Yi KH, Li MQ, Cao HF, Li JZ, Ye F. 3D Pharmacophore-Based Virtual Screening and Docking Approaches toward the Discovery of Novel HPPD Inhibitors. Molecules 2017; 22:molecules22060959. [PMID: 28598377 PMCID: PMC6152767 DOI: 10.3390/molecules22060959] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2017] [Accepted: 06/05/2017] [Indexed: 11/16/2022] Open
Abstract
p-Hydroxyphenylpyruvate dioxygenase (HPPD) is not only the useful molecular target in treating life-threatening tyrosinemia type I, but also an important target for chemical herbicides. A combined in silico structure-based pharmacophore and molecular docking-based virtual screening were performed to identify novel potential HPPD inhibitors. The complex-based pharmacophore model (CBP) with 0.721 of ROC used for screening compounds showed remarkable ability to retrieve known active ligands from among decoy molecules. The ChemDiv database was screened using CBP-Hypo2 as a 3D query, and the best-fit hits subjected to molecular docking with two methods of LibDock and CDOCKER in Accelrys Discovery Studio 2.5 (DS 2.5) to discern interactions with key residues at the active site of HPPD. Four compounds with top rankings in the HipHop model and well-known binding model were finally chosen as lead compounds with potential inhibitory effects on the active site of target. The results provided powerful insight into the development of novel HPPD inhibitors herbicides using computational techniques.
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Affiliation(s)
- Ying Fu
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin 150030, China.
| | - Yi-Na Sun
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin 150030, China.
| | - Ke-Han Yi
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin 150030, China.
| | - Ming-Qiang Li
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin 150030, China.
| | - Hai-Feng Cao
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin 150030, China.
| | - Jia-Zhong Li
- School of Pharmacy, Lanzhou University, 199 West Donggang Rd., Lanzhou 730000, China.
| | - Fei Ye
- Department of Applied Chemistry, College of Science, Northeast Agricultural University, Harbin 150030, China.
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99
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Tang L, Luo JR, Li YL, Ge R, Li QS. Hepatotoxicity and proteomic mechanism of Di-n-butyl-di-(4-chlorobenzohydroxamato)tin(IV) (DBDCT) in vivo. ENVIRONMENTAL TOXICOLOGY AND PHARMACOLOGY 2017; 51:38-44. [PMID: 28273564 DOI: 10.1016/j.etap.2017.01.012] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/23/2016] [Revised: 01/17/2017] [Accepted: 01/19/2017] [Indexed: 06/06/2023]
Abstract
Di-n-butyl-di-(4-chlorobenzohydroxamato)tin(IV) (DBDCT) is an anti-tumour organotin(IV) compound with hepatotoxicity. To investigate the hepatotoxicity and mechanisms of DBDCT in vivo, proteomic technology 2D gel combined with MALDI-TOF-MS was used in our research. Results indicated that DBDCT increased AST, AKP and ACP activities and decreased ALT activity. Further, sporadic eosinophilic changes and nuclear pyknosis were visible in hepatic pathological observation. Proteomic analysis showed that twenty-two proteins involved in amino acid, nucleic acid, carbohydrate and lipid metabolism, stress response, multicellular organism development and cell apoptosis were differentially expressed and identified. Notably, a considerable amount of the altered proteins, such as OAT, HPPD, M2GD, GSTM2, Glud1, GSTa, HS90β and PDIA3 participated in multi-metabolic pathways and oxidative stress reactions. Our findings indicated that the inhibition of enzyme activity and oxidative stress were the major mechanisms by which DBDCT induced hepatotoxicity, and the altered proteins could be potential drug targets for the further design of new type of organic tin with high activity and low toxicology.
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Affiliation(s)
- Li Tang
- School of Pharmaceutical Science, Shanxi Medical University, Taiyuan 030001, PR China
| | - Jie-Ran Luo
- School of Pharmaceutical Science, Shanxi Medical University, Taiyuan 030001, PR China
| | - Yun-Lan Li
- School of Pharmaceutical Science, Shanxi Medical University, Taiyuan 030001, PR China
| | - Rui Ge
- School of Pharmaceutical Science, Shanxi Medical University, Taiyuan 030001, PR China
| | - Qing-Shan Li
- School of Pharmaceutical Science, Shanxi Medical University, Taiyuan 030001, PR China; Shanxi University of Traditional Chinese Medicine, Taiyuan 030024, PR China.
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100
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Dumas E, Giraudo M, Goujon E, Halma M, Knhili E, Stauffert M, Batisson I, Besse-Hoggan P, Bohatier J, Bouchard P, Celle-Jeanton H, Costa Gomes M, Delbac F, Forano C, Goupil P, Guix N, Husson P, Ledoigt G, Mallet C, Mousty C, Prévot V, Richard C, Sarraute S. Fate and ecotoxicological impact of new generation herbicides from the triketone family: An overview to assess the environmental risks. JOURNAL OF HAZARDOUS MATERIALS 2017; 325:136-156. [PMID: 27930998 DOI: 10.1016/j.jhazmat.2016.11.059] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/02/2016] [Revised: 10/21/2016] [Accepted: 11/19/2016] [Indexed: 06/06/2023]
Abstract
Triketones, derived chemically from a natural phytotoxin (leptospermone), are a good example of allelochemicals as lead molecules for the development of new herbicides. Targeting a new and key enzyme involved in carotenoid biosynthesis, these latest-generation herbicides (sulcotrione, mesotrione and tembotrione) were designed to be eco-friendly and commercialized fifteen-twenty years ago. The mechanisms controlling their fate in different ecological niches as well as their toxicity and impact on different organisms or ecosystems are still under investigation. This review combines an overview of the results published in the literature on β-triketones and more specifically, on the commercially-available herbicides and includes new results obtained in our interdisciplinary study aiming to understand all the processes involved (i) in their transfer from the soil to the connected aquatic compartments, (ii) in their transformation by photochemical and biological mechanisms but also to evaluate (iii) the impacts of the parent molecules and their transformation products on various target and non-target organisms (aquatic microorganisms, plants, soil microbial communities). Analysis of all the data on the fate and impact of these molecules, used pure, as formulation or in cocktails, give an overall guide for the assessment of their environmental risks.
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Affiliation(s)
- E Dumas
- Clermont Université, Université Blaise Pascal, Institut de Chimie de Clermont-Ferrand, BP 10448, 63000 Clermont-Ferrand, France; CNRS, UMR 6296, ICCF, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - M Giraudo
- Clermont Université, Université Blaise Pascal-Université d'Auvergne, Laboratoire Microorganismes: Génome et Environnement, BP 10448, 63000 Clermont Ferrand, France; CNRS, UMR 6023, LMGE, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - E Goujon
- Clermont Université, Université Blaise Pascal, Physique et Physiologie Intégratives de l'Arbre Fruitier et Forestier, 63000 Clermont-Ferrand, France; INRA, UMR PIAF 547, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - M Halma
- Clermont Université, Université Blaise Pascal, Institut de Chimie de Clermont-Ferrand, BP 10448, 63000 Clermont-Ferrand, France; CNRS, UMR 6296, ICCF, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - E Knhili
- Clermont Université, Université Blaise Pascal, Institut de Chimie de Clermont-Ferrand, BP 10448, 63000 Clermont-Ferrand, France; CNRS, UMR 6296, ICCF, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - M Stauffert
- Clermont Université, Université Blaise Pascal, Institut de Chimie de Clermont-Ferrand, BP 10448, 63000 Clermont-Ferrand, France; CNRS, UMR 6296, ICCF, TSA 60026, CS 60026, 63178 Aubière Cedex, France; Clermont Université, Université Blaise Pascal-Université d'Auvergne, Laboratoire Microorganismes: Génome et Environnement, BP 10448, 63000 Clermont Ferrand, France; CNRS, UMR 6023, LMGE, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - I Batisson
- Clermont Université, Université Blaise Pascal-Université d'Auvergne, Laboratoire Microorganismes: Génome et Environnement, BP 10448, 63000 Clermont Ferrand, France; CNRS, UMR 6023, LMGE, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - P Besse-Hoggan
- Clermont Université, Université Blaise Pascal, Institut de Chimie de Clermont-Ferrand, BP 10448, 63000 Clermont-Ferrand, France; CNRS, UMR 6296, ICCF, TSA 60026, CS 60026, 63178 Aubière Cedex, France.
| | - J Bohatier
- Clermont Université, Université Blaise Pascal-Université d'Auvergne, Laboratoire Microorganismes: Génome et Environnement, BP 10448, 63000 Clermont Ferrand, France; CNRS, UMR 6023, LMGE, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - P Bouchard
- Clermont Université, Université Blaise Pascal-Université d'Auvergne, Laboratoire Microorganismes: Génome et Environnement, BP 10448, 63000 Clermont Ferrand, France; CNRS, UMR 6023, LMGE, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - H Celle-Jeanton
- Clermont Université, Université Blaise Pascal, Laboratoire Magmas et Volcans, BP 10448, 63000 Clermont-Ferrand, France; CNRS, UMR 6524, LMV, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - M Costa Gomes
- Clermont Université, Université Blaise Pascal, Institut de Chimie de Clermont-Ferrand, BP 10448, 63000 Clermont-Ferrand, France; CNRS, UMR 6296, ICCF, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - F Delbac
- Clermont Université, Université Blaise Pascal-Université d'Auvergne, Laboratoire Microorganismes: Génome et Environnement, BP 10448, 63000 Clermont Ferrand, France; CNRS, UMR 6023, LMGE, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - C Forano
- Clermont Université, Université Blaise Pascal, Institut de Chimie de Clermont-Ferrand, BP 10448, 63000 Clermont-Ferrand, France; CNRS, UMR 6296, ICCF, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - P Goupil
- Clermont Université, Université Blaise Pascal, Physique et Physiologie Intégratives de l'Arbre Fruitier et Forestier, 63000 Clermont-Ferrand, France; INRA, UMR PIAF 547, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - N Guix
- INRA, UMR 1095 Génétique, Diversité et Ecophysiologie des Céréales, 5 chemin de Beaulieu, 63039 Clermont-Ferrand, France; VetAgro Sup, 89 avenue de l'Europe, BP 35, 63370 Lempdes, France; UMR Génétique Diversité et Ecophysiologie des Céréales, INRA-UBP, UMR 1095, 63000 Clermont-Ferrand, France
| | - P Husson
- Clermont Université, Université Blaise Pascal, Institut de Chimie de Clermont-Ferrand, BP 10448, 63000 Clermont-Ferrand, France; CNRS, UMR 6296, ICCF, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - G Ledoigt
- Clermont Université, Université Blaise Pascal, Physique et Physiologie Intégratives de l'Arbre Fruitier et Forestier, 63000 Clermont-Ferrand, France; INRA, UMR PIAF 547, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - C Mallet
- Clermont Université, Université Blaise Pascal-Université d'Auvergne, Laboratoire Microorganismes: Génome et Environnement, BP 10448, 63000 Clermont Ferrand, France; CNRS, UMR 6023, LMGE, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - C Mousty
- Clermont Université, Université Blaise Pascal, Institut de Chimie de Clermont-Ferrand, BP 10448, 63000 Clermont-Ferrand, France; CNRS, UMR 6296, ICCF, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - V Prévot
- Clermont Université, Université Blaise Pascal, Institut de Chimie de Clermont-Ferrand, BP 10448, 63000 Clermont-Ferrand, France; CNRS, UMR 6296, ICCF, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - C Richard
- Clermont Université, Université Blaise Pascal, Institut de Chimie de Clermont-Ferrand, BP 10448, 63000 Clermont-Ferrand, France; CNRS, UMR 6296, ICCF, TSA 60026, CS 60026, 63178 Aubière Cedex, France
| | - S Sarraute
- Clermont Université, Université Blaise Pascal, Institut de Chimie de Clermont-Ferrand, BP 10448, 63000 Clermont-Ferrand, France; CNRS, UMR 6296, ICCF, TSA 60026, CS 60026, 63178 Aubière Cedex, France
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