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Luo P, Xie Y, He X, He Y, Wang X, Tan L. Application of Fenton chemistry in electrochemical determination of pyrophosphatase activity and fluoride. Talanta 2024; 274:125943. [PMID: 38564823 DOI: 10.1016/j.talanta.2024.125943] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2023] [Revised: 02/28/2024] [Accepted: 03/16/2024] [Indexed: 04/04/2024]
Abstract
Fenton chemistry has aroused widespread concern due to its application in the green oxidation and mineralization of organic wastes. Inorganic pyrophosphatase (PPase) catalyzes the hydrolysis of pyrophosphate ions (PPi) and provides a thermodynamic driving force for many biosynthetic reactions. Fluoride (F-) is widely applied to fight against tooth decay and reduce cavities. The electrochemical determination of PPase activity and F- was realized based on Fenton chemistry in this work. Glassy carbon electrode modified with poly (azure A) and acetylene black (GCE/PAA-AB) was fabricated. Hydroxyl radicals (∙OH) that were generated from a Cu2+-catalyzed Fenton-type reaction could oxidize PAA in the near-neutral medium, leading to a great increase of the cathodic peak current (Ipc). A coordination reaction between PPi and Cu2+ exerted a negative effect on Fenton reaction and hindered the Ipc enhancement. Cu2+-PPi complex was decomposed due to the hydrolysis of PPi induced by PPase, which caused the reappearance of the notably increased current response. F- could effectively inhibit PPase activity. As a result, the stable Cu2+-PPi complex remained and the high Ipc suffered from the decline again. The Ipc difference was used for the highly sensitive determination of PPase activity in the content range of 0.001-20 mU mL-1 with a detection of limit (LOD) at 0.6 μU mL-1 and that of F- in the concentration range of 0.01-100 μM with a LOD at 7 nM. The proposed PPase and F- sensor displayed a good selectivity, stability and reproducibility, and a high accuracy.
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Affiliation(s)
- Peng Luo
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, 410081, PR China
| | - Yiyan Xie
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, 410081, PR China
| | - Xianhuan He
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, 410081, PR China
| | - Yiyu He
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, 410081, PR China
| | - Xuan Wang
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, 410081, PR China
| | - Liang Tan
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, 410081, PR China.
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2
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He S, Abdallah II, van Merkerk R, Quax WJ. Insights into taxadiene synthase catalysis and promiscuity facilitated by mutability landscape and molecular dynamics. PLANTA 2024; 259:87. [PMID: 38460012 PMCID: PMC10924717 DOI: 10.1007/s00425-024-04363-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/13/2023] [Accepted: 02/07/2024] [Indexed: 03/11/2024]
Abstract
MAIN CONCLUSION Protein modeling, carbocation docking, and molecular dynamics along with structure-based mutability landscapes provided insight into taxadiene synthase catalysis (first step of the anticancer Taxol biosynthesis), protein structure-function correlations, and promiscuity. Plant terpenes belong to one of the largest and most diverse classes of natural products. This diversity is driven by the terpene synthase enzyme family which comprises numerous different synthases, several of which are promiscuous. Taxadiene synthase (TXS) is a class I diterpene synthase that catalyzes the first step in the biosynthesis pathway of the diterpene Taxol, an anticancer natural product produced by the Taxus plant. Exploring the molecular basis of TXS catalysis and its promiscuous potential garnered interest as a necessary means for understanding enzyme evolution and engineering possibilities to improve Taxol biosynthesis. A catalytically active closed conformation TXS model was designed using the artificial intelligence system, AlphaFold, accompanied by docking and molecular dynamics simulations. In addition, a mutability landscape of TXS including 14 residues was created to probe for structure-function relations. The mutability landscape revealed no mutants with improved catalytic activity compared to wild-type TXS. However, mutations of residues V584, Q609, V610, and Y688 showed high degree of promiscuity producing cembranoid-type and/or verticillene-type major products instead of taxanes. Mechanistic insights into V610F, V584M, Q609A, and Y688C mutants compared to the wild type revealed the trigger(s) for product profile change. Several mutants spanning residues V584, Q609, Y688, Y762, Q770, and F834 increased production of taxa-4(20),11(12)-diene which is a more favorable substrate for Taxol production compared to taxa-4(5),11(12)-diene. Finally, molecular dynamics simulations of the TXS reaction cascade revealed residues involved in ionization, carbocation stabilization, and cyclization ushering deeper understanding of the enzyme catalysis mechanism.
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Affiliation(s)
- Siqi He
- Department of Chemical and Pharmaceutical Biology, Groningen Research Institute of Pharmacy, University of Groningen, Antonius Deusinglaan 1, 9713 AV, Groningen, The Netherlands
| | - Ingy I Abdallah
- Department of Chemical and Pharmaceutical Biology, Groningen Research Institute of Pharmacy, University of Groningen, Antonius Deusinglaan 1, 9713 AV, Groningen, The Netherlands
- Department of Pharmacognosy, Faculty of Pharmacy, Alexandria University, Alexandria, Egypt
| | - Ronald van Merkerk
- Department of Chemical and Pharmaceutical Biology, Groningen Research Institute of Pharmacy, University of Groningen, Antonius Deusinglaan 1, 9713 AV, Groningen, The Netherlands
| | - Wim J Quax
- Department of Chemical and Pharmaceutical Biology, Groningen Research Institute of Pharmacy, University of Groningen, Antonius Deusinglaan 1, 9713 AV, Groningen, The Netherlands.
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3
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Zhang X, Sun W, Wang L, Xie Z, Liu M, Wang J. Selective pyrophosphate detection via metal complexes. IRADIOLOGY 2023; 1:320-339. [PMID: 38737136 PMCID: PMC11087008 DOI: 10.1002/ird3.42] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/20/2023] [Accepted: 10/05/2023] [Indexed: 05/14/2024]
Abstract
Pyrophosphate (PPi) anions are crucial in numerous biological and ecological processes involved in energy conversion, enzymatic reactions, and metabolic regulation along with adenosine. They are also significant biological markers for various processes related to diseases. Fluorescent PPi sensors would enable visual and/or biological detection in convenient settings. However, the current availability of commercial sensors has been limited to costly enzymes that are not compatible for imaging. Sensor development has also encountered challenges such as poor selectivity and stability, and limited practical applications. In this review, we analyze the situation of PPi sensing via commercial kits and focus on sensors that use metal complexes. We address their designs, sensing mechanisms, selectivities and detection limits. Finally, we discuss limitations and perspectives for PPi detection and imaging.
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Affiliation(s)
- Xiao Zhang
- College of Chemistry and Chemical Engineering, Shanghai University of Engineering Science, Shanghai 201620, China
| | - Wenwen Sun
- College of Chemistry and Chemical Engineering, Shanghai University of Engineering Science, Shanghai 201620, China
| | - Le Wang
- College of Chemistry and Chemical Engineering, Shanghai University of Engineering Science, Shanghai 201620, China
| | - Zeping Xie
- Gordon Center for Medical Imaging, Massachusetts General Hospital and Harvard Medical School, 125 Nashua Street, Suite 660, Boston, Massachusetts 02114, USA
| | - Mengxia Liu
- College of Chemistry and Chemical Engineering, Shanghai University of Engineering Science, Shanghai 201620, China
| | - Junfeng Wang
- Gordon Center for Medical Imaging, Massachusetts General Hospital and Harvard Medical School, 125 Nashua Street, Suite 660, Boston, Massachusetts 02114, USA
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4
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Detection of Pyrophosphate and Alkaline Phosphatase Activity Based on PolyT Single Stranded DNA - Copper Nanoclusters. J Fluoresc 2022; 32:1949-1957. [PMID: 35776261 DOI: 10.1007/s10895-022-02984-5] [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: 03/23/2022] [Accepted: 05/31/2022] [Indexed: 10/17/2022]
Abstract
The determination of pyrophosphate and alkaline phosphatase activity plays a significant role in medical diagnosis. In this work, a label-free "ON-OFF-ON" fluorescence strategy is developed for the analysis of pyrophosphate and alkaline phosphatase activity. Using PolyT single strand DNA as templates to synthesize fluorescent copper nanoparticles, the coordination effect of pyrophosphoric acid on Cu2+ inhibited the generation of fluorescence. Afterwards, the addition of alkaline phosphatase into hydrolyze pyrophosphoric acid resulted in the release of Cu2+, whereby the fluorescence intensity could be recovered. Thereupon enhanced-sensitivity for alkaline phosphatase was obtained (0.1 mU/L), much better than previously reported methods. Meanwhile, it could be performed directly in homogeneous solution, which was very close to the actual activity level of alkaline phosphatase under physiological conditions. Likewise, satisfactory results were also obtained in specificity assessment, which demonstrated its potential application in clinical diagnosis. Notably, a new, sensitive, low-cost, short-time, and high-sensitivity platform for alkaline phosphatase detection was constructed, and the design of biosensor using DNA-templated Copper nanoclusters (CuNCs) was instructed in this study.
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5
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Lei Z, Zhou J, Liang M, Xiao Y, Liu Z. Aggregation-Induced Emission of Au/Ag Alloy Nanoclusters for Fluorescence Detection of Inorganic Pyrophosphate and Pyrophosphatase Activity. Front Bioeng Biotechnol 2021; 8:628181. [PMID: 33520975 PMCID: PMC7844307 DOI: 10.3389/fbioe.2020.628181] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2020] [Accepted: 12/15/2020] [Indexed: 12/18/2022] Open
Abstract
The development of sensitive and accurate detection of inorganic pyrophosphate (PPi) and pyrophosphatase activity (PPase) is important as they play vital roles in biological systems. However, it is still not satisfactory for most of the analytical methods for PPi and PPase because of their Cu2+-dependence and poor accuracy. Although the metal ion triggered aggregation-induced emission (AIE) of metal nanoclusters (NCs) offers a new approach to design a Cu2+-free strategy for the accurate determination of PPi and PPase recently, current methods are all focused on utilizing pure metal NCs. Alloy NCs incorporating the advantages of diverse metal usually can achieve improved behaviors in the application, such as enhanced sensitivity and stability. In this work, glutathione stabilized alloy Au/Ag NCs were synthesized via a simple method and used for the fluorescence detection of PPi and PPase based on a Zn2+-regulated AIE strategy. The controlled release of Zn2+ by PPi and PPase could regulate the AIE of Au/Ag NCs and be employed to response PPi concentration and PPase activity. This method processes simple procedure, high sensitivity and stability, and low toxicity. In addition, we also studied the AIE behaviors of this Au/Ag NCs and offer some fundamental understanding of the AIE properties of water-soluble alloy NCs. This study not only provides a straightforward and new approach for PPi and PPase determination but a basis for further study on the AIE properties of alloy NCs and their application.
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Affiliation(s)
- Zhongli Lei
- Hubei Collaborative Innovation Center for Advanced Organic Chemical Materials, Ministry of Education Key Laboratory for the Synthesis and Application of Organic Functional Molecules & College of Chemistry and Chemical Engineering, Hubei University, Wuhan, China
| | - Jie Zhou
- Hubei Collaborative Innovation Center for Advanced Organic Chemical Materials, Ministry of Education Key Laboratory for the Synthesis and Application of Organic Functional Molecules & College of Chemistry and Chemical Engineering, Hubei University, Wuhan, China
| | - Miao Liang
- Hubei Collaborative Innovation Center for Advanced Organic Chemical Materials, Ministry of Education Key Laboratory for the Synthesis and Application of Organic Functional Molecules & College of Chemistry and Chemical Engineering, Hubei University, Wuhan, China
| | - Yan Xiao
- Hubei Collaborative Innovation Center for Advanced Organic Chemical Materials, Ministry of Education Key Laboratory for the Synthesis and Application of Organic Functional Molecules & College of Chemistry and Chemical Engineering, Hubei University, Wuhan, China
| | - Zhihong Liu
- Hubei Collaborative Innovation Center for Advanced Organic Chemical Materials, Ministry of Education Key Laboratory for the Synthesis and Application of Organic Functional Molecules & College of Chemistry and Chemical Engineering, Hubei University, Wuhan, China
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6
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Vijen S, Hawes C, Runions J, Russell RGG, Wordsworth BP, Carr AJ, Pink RC, Zhang Y. Differences in intracellular localisation of ANKH mutants that relate to mechanisms of calcium pyrophosphate deposition disease and craniometaphyseal dysplasia. Sci Rep 2020; 10:7408. [PMID: 32366894 PMCID: PMC7198517 DOI: 10.1038/s41598-020-63911-x] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2019] [Accepted: 04/07/2020] [Indexed: 11/09/2022] Open
Abstract
ANKH mutations are associated with calcium pyrophosphate deposition disease and craniometaphyseal dysplasia. This study investigated the effects of these ANKH mutants on cellular localisation and associated biochemistry. We generated four ANKH overexpression-plasmids containing either calcium pyrophosphate deposition disease or craniometaphyseal dysplasia linked mutations: P5L, E490del and S375del, G389R. They were transfected into CH-8 articular chondrocytes and HEK293 cells. The ANKH mutants dynamic differential localisations were imaged and we investigated the interactions with the autophagy marker LC3. Extracellular inorganic pyrophosphate, mineralization, ENPP1 activity expression of ENPP1, TNAP and PIT-1 were measured. P5L delayed cell membrane localisation but once recruited into the membrane it increased extracellular inorganic pyrophosphate, mineralization, and ENPP1 activity. E490del remained mostly cytoplasmic, forming punctate co-localisations with LC3, increased mineralization, ENPP1 and ENPP1 activity with an initial but unsustained increase in TNAP and PIT-1. S375del trended to decrease extracellular inorganic pyrophosphate, increase mineralization. G389R delayed cell membrane localisation, trended to decrease extracellular inorganic pyrophosphate, increased mineralization and co-localised with LC3. Our results demonstrate a link between pathological localisation of ANKH mutants with different degrees in mineralization. Furthermore, mutant ANKH functions are related to synthesis of defective proteins, inorganic pyrophosphate transport, ENPP1 activity and expression of ENPP1, TNAP and PIT-1.
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Affiliation(s)
- Sunny Vijen
- Department of Biology and Medical Sciences, Oxford Brookes University, Gipsy Lane, Oxford, OX3 0BP, UK
| | - Chris Hawes
- Department of Biology and Medical Sciences, Oxford Brookes University, Gipsy Lane, Oxford, OX3 0BP, UK
| | - John Runions
- Department of Biology and Medical Sciences, Oxford Brookes University, Gipsy Lane, Oxford, OX3 0BP, UK
| | - R Graham G Russell
- Nuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, University of Oxford Institute of Musculoskeletal Sciences, Windmill Road, Oxford, OX3 7HE, UK
| | - B Paul Wordsworth
- Nuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, University of Oxford Institute of Musculoskeletal Sciences, Windmill Road, Oxford, OX3 7HE, UK
| | - Andrew J Carr
- Nuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, University of Oxford Institute of Musculoskeletal Sciences, Windmill Road, Oxford, OX3 7HE, UK
| | - Ryan C Pink
- Department of Biology and Medical Sciences, Oxford Brookes University, Gipsy Lane, Oxford, OX3 0BP, UK.
| | - Yun Zhang
- Department of Biology and Medical Sciences, Oxford Brookes University, Gipsy Lane, Oxford, OX3 0BP, UK.
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Sánchez-Tévar AM, García-Fernández M, Murcia-Casas B, Rioja-Villodres J, Carrillo JL, Camacho M, Van Gils M, Sánchez-Chaparro MA, Vanakker O, Valdivielso P. Plasma inorganic pyrophosphate and alkaline phosphatase in patients with pseudoxanthoma elasticum. ANNALS OF TRANSLATIONAL MEDICINE 2019; 7:798. [PMID: 32042814 DOI: 10.21037/atm.2019.12.73] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
Background Inorganic pyrophosphate (PPi) plays a major role inhibiting dystrophic calcification. The aim was to analyze levels of PPi in patients having pseudoxanthoma elasticum (PXE), and controls as well as the enzymes who regulate the PPi plasma concentration. Methods We collected fasting blood samples from PXE patients and age- and sex-matched controls in ethylenediamine tetraacetic acid (EDTA) and citrate-theophylline-adenosine-dipyridamole (CTAD) containing tubes. We measured PPi, ENPP1 mass and activity, alkaline phosphatase (AP) and tissue non-specific alkaline phosphatase (TNAP), CD73 and Human Platelet Factor-4 (CXCL4). Results PPi in EDTA and CTAD samples were lower in PXE subjects than in controls (1.11±0.26 vs. 1.43±0.41 µM/L and 0.35±0.15 vs. 0.61±0.18 µM/L respectively, P<0.05). TNAP and liver TNAP activities were also higher in PXE than in controls (80.3±27.0 vs. 63.3±16.4 UI/L and 25.6±14.9 vs. 12.9±9.2 UI/L respectively, P<0.05). ENPP1 mass and activity as well as CD73 were almost identical. There was a weak but significant inverse correlation between TNAP activity and PPi levels (Pearson correlation -0.379, P<0.05) in both groups. Conclusions High TNAP activity seems to contribute to low plasma levels of PPi in subjects with PXE, reinforcing the idea that pharmacological reduction of TNAP activity may help to reduce dystrophic calcification in PXE patients.
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Affiliation(s)
- Ana María Sánchez-Tévar
- Lipid and Arteriosclerosis Laboratory, Centro de Investigaciones Médico-Sanitarias (CIMES), University of Málaga, Málaga, Spain
| | - María García-Fernández
- Department of Physiology, Instituto de Investigación Biomédica de Málaga (IBIMA), University of Málaga, Málaga, Spain
| | | | - José Rioja-Villodres
- Lipid and Arteriosclerosis Laboratory, Centro de Investigaciones Médico-Sanitarias (CIMES), University of Málaga, Málaga, Spain.,Department of Medicine and Dermatology, Instituto de Investigación Biomédica de Málaga (IBIMA), University of Málaga, Málaga, Spain
| | | | - Marta Camacho
- Obstetric and Gynecology Department, Hospital Virgen de la Victoria, Málaga, Spain
| | - Matthias Van Gils
- Center for Medical Genetics, Ghent University Hospital, Ghent, Belgium.,Department of Biomolecular Medicine, Ghent University, Ghent, Belgium
| | - Miguel Angel Sánchez-Chaparro
- Lipid and Arteriosclerosis Laboratory, Centro de Investigaciones Médico-Sanitarias (CIMES), University of Málaga, Málaga, Spain.,Internal Medicine Unit, Hospital Virgen de la Victoria, Málaga, Spain.,Department of Medicine and Dermatology, Instituto de Investigación Biomédica de Málaga (IBIMA), University of Málaga, Málaga, Spain
| | - Olivier Vanakker
- Center for Medical Genetics, Ghent University Hospital, Ghent, Belgium.,Department of Biomolecular Medicine, Ghent University, Ghent, Belgium
| | - Pedro Valdivielso
- Lipid and Arteriosclerosis Laboratory, Centro de Investigaciones Médico-Sanitarias (CIMES), University of Málaga, Málaga, Spain.,Internal Medicine Unit, Hospital Virgen de la Victoria, Málaga, Spain.,Department of Medicine and Dermatology, Instituto de Investigación Biomédica de Málaga (IBIMA), University of Málaga, Málaga, Spain
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8
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Zhao X, Li W, Wu T, Liu P, Wang W, Xu G, Xu S, Luo X. Zinc ion-triggered aggregation induced emission enhancement of dual ligand co-functionalized gold nanoclusters based novel fluorescent nanoswitch for multi-component detection. Anal Chim Acta 2019; 1079:192-199. [PMID: 31387710 DOI: 10.1016/j.aca.2019.06.056] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2019] [Revised: 06/25/2019] [Accepted: 06/26/2019] [Indexed: 01/09/2023]
Abstract
Herein, a zinc ion (Zn2+)-triggered aggregation induced emission enhancement (AIEE) fluorescence "on-off-on" nanoswitch was fabricated for inorganic pyrophosphate (PPi) and inorganic pyrophosphatase (PPase) activity detection. Dual ligand functionalized Au NCs were utilized as the substrate of the AIEE nanoswitch. The introduction of Zn2+ can cause Au NCs aggregated along with the enhanced fluorescence. After the addition of PPi, aggregated Au NCs disaggregated along with decreased fluorescence due to the competitive combination between PPi and Zn2+ (on-off). When PPase was introduced, PPi was hydrolyzed and release Zn2+, resulting in aggregated Au NCs along with enhanced fluorescence again (off-on). On the basis of this, highly selective and sensitive detection PPi (liner range from 0.1 to 300 μM) and PPase activity (liner range from 0.1 to 10 mU) can be achieved. The detection limits are 0.04 μM for PPi and 0.03 mU for PPase, respectively. Furthermore, the as-prepared Zn2+-triggered AIEE nanoswitch was successfully used for quantitative analysis of PPase activity in human serum with satisfactory spiked recoveries, and applied for the inhibitors screening.
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Affiliation(s)
- Xuan Zhao
- Key Laboratory of Optic-electric Sensing and Analytical Chemistry for Life Science, MOE, Key Laboratory of Biochemical Analysis, Shandong Province, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao, 266042, PR China
| | - Wentao Li
- Key Laboratory of Optic-electric Sensing and Analytical Chemistry for Life Science, MOE, Key Laboratory of Biochemical Analysis, Shandong Province, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao, 266042, PR China
| | - Tong Wu
- Key Laboratory of Optic-electric Sensing and Analytical Chemistry for Life Science, MOE, Key Laboratory of Biochemical Analysis, Shandong Province, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao, 266042, PR China
| | - Pingping Liu
- Zhengzhou Tobacco Research Institute, CNTC, Zhengzhou, 450000, PR China
| | - Wei Wang
- Key Laboratory of Optic-electric Sensing and Analytical Chemistry for Life Science, MOE, Key Laboratory of Biochemical Analysis, Shandong Province, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao, 266042, PR China
| | - Guiyun Xu
- Key Laboratory of Optic-electric Sensing and Analytical Chemistry for Life Science, MOE, Key Laboratory of Biochemical Analysis, Shandong Province, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao, 266042, PR China
| | - Shenghao Xu
- Key Laboratory of Optic-electric Sensing and Analytical Chemistry for Life Science, MOE, Key Laboratory of Biochemical Analysis, Shandong Province, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao, 266042, PR China.
| | - Xiliang Luo
- Key Laboratory of Optic-electric Sensing and Analytical Chemistry for Life Science, MOE, Key Laboratory of Biochemical Analysis, Shandong Province, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao, 266042, PR China.
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9
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Tian Y, Hao L, Wang C, Yang X, Liu S. Quantum Dot Doping-Induced Photoluminescence for Facile, Label-Free, and Sensitive Pyrophosphatase Activity Assay and Inhibitor Screening. NANOMATERIALS 2019; 9:nano9010111. [PMID: 30669286 PMCID: PMC6359004 DOI: 10.3390/nano9010111] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/19/2018] [Revised: 01/14/2019] [Accepted: 01/15/2019] [Indexed: 12/19/2022]
Abstract
Development of simple, convenient, and sensitive assay methods for pyrophosphatase (PPase) activity is of importance, for disease diagnosis and drug discovery. Herein, a simple, rapid, label-free, and sensitive fluorescence sensor for PPase activity assay is developed, using Cu2+ doping-induced quantum dot (QD) photoluminescence as a signal reporter. The Cu2+ doping of ZnSe QD can induce a dopant-dependent emission response, which will be inhibited after the premixing of Cu2+ with pyrophosphate (PPi), to form a Cu2+-PPi complex. Then, the hydrolysis of PPi into phosphate (Pi), specifically catalyzed by PPase, liberates the free Cu2+ to regain the QD doping for the fluorescence response, which is highly dependent on the PPase activity. The PPase can be sensitively and selectively assayed, with a detection limit of 0.1 mU/mL. The developed sensing strategy can be also employed for the PPase inhibitor screening. Thus, the current QD doping-based sensing strategy offers an efficient and promising avenue for Cu2+, PPi, or PPase-related target analysis, and might hold great potential for the further applications in the clinical disease diagnosis.
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Affiliation(s)
- Yishen Tian
- Key Laboratory of Optic-Electric Sensing and Analytical Chemistry for Life Science, Ministry of Education, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao 266042, China.
| | - Lijie Hao
- Key Laboratory of Optic-Electric Sensing and Analytical Chemistry for Life Science, Ministry of Education, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao 266042, China.
| | - Chao Wang
- Key Laboratory of Optic-Electric Sensing and Analytical Chemistry for Life Science, Ministry of Education, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao 266042, China.
| | - Xiaoyan Yang
- Key Laboratory of Optic-Electric Sensing and Analytical Chemistry for Life Science, Ministry of Education, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao 266042, China.
| | - Shufeng Liu
- Key Laboratory of Optic-Electric Sensing and Analytical Chemistry for Life Science, Ministry of Education, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao 266042, China.
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10
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Abdallah II, van Merkerk R, Klumpenaar E, Quax WJ. Catalysis of amorpha-4,11-diene synthase unraveled and improved by mutability landscape guided engineering. Sci Rep 2018; 8:9961. [PMID: 29967474 PMCID: PMC6028579 DOI: 10.1038/s41598-018-28177-4] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2018] [Accepted: 06/13/2018] [Indexed: 01/02/2023] Open
Abstract
Amorpha-4,11-diene synthase (ADS) cyclizes the substrate farnesyl pyrophosphate to produce amorpha-4,11-diene as a major product. This is considered the first committed and rate-limiting step in the biosynthesis of the antimalarial artemisinin. Here, we utilize a reported 3D model of ADS to perform mutability landscape guided enzyme engineering. A mutant library of 258 variants along sixteen active site residues was created then screened for catalytic activity and product profile. This allowed for identification of the role of some of these residues in the mechanism. R262 constrains the released pyrophosphate group along with magnesium ions. The aromatic residues (W271, Y519 and F525) stabilize the intermediate carbocations while T296, G400, G439 and L515 help with the 1,6- and 1,10-ring closures. Finally, W271 is suggested to act as active site base along with T399, which ensures regioselective deprotonation. The mutability landscape also helped determine variants with improved catalytic activity. H448A showed ~4 fold increase in catalytic efficiency and the double mutation T399S/H448A improved kcat by 5 times. This variant can be used to enhance amorphadiene production and in turn artemisinin biosynthesis. Our findings provide the basis for the first step in improving industrial production of artemisinin and they open up possibilities for further engineering and understanding of ADS.
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Affiliation(s)
- Ingy I Abdallah
- Department of Chemical and Pharmaceutical Biology, Groningen Research Institute of Pharmacy, University of Groningen, 9713 AV, Groningen, The Netherlands
| | - Ronald van Merkerk
- Department of Chemical and Pharmaceutical Biology, Groningen Research Institute of Pharmacy, University of Groningen, 9713 AV, Groningen, The Netherlands
| | - Esmée Klumpenaar
- Department of Chemical and Pharmaceutical Biology, Groningen Research Institute of Pharmacy, University of Groningen, 9713 AV, Groningen, The Netherlands
| | - Wim J Quax
- Department of Chemical and Pharmaceutical Biology, Groningen Research Institute of Pharmacy, University of Groningen, 9713 AV, Groningen, The Netherlands.
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11
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Liu Q, Lai Q, Li N, Su X. Copper nanoclusters capped with tannic acid as a fluorescent probe for real-time determination of the activity of pyrophosphatase. Mikrochim Acta 2018; 185:182. [DOI: 10.1007/s00604-017-2599-z] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2017] [Accepted: 11/30/2017] [Indexed: 12/22/2022]
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12
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Electrochemical strategy for pyrophosphatase detection Based on the peroxidase-like activity of G-quadruplex-Cu2+ DNAzyme. Talanta 2018; 178:491-497. [DOI: 10.1016/j.talanta.2017.09.069] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2017] [Revised: 09/23/2017] [Accepted: 09/26/2017] [Indexed: 12/13/2022]
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13
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Tang C, Feng H, Huang Y, Qian Z. Reversible Luminescent Nanoswitches Based on Aggregation-Induced Emission Enhancement of Silver Nanoclusters for Luminescence Turn-on Assay of Inorganic Pyrophosphatase Activity. Anal Chem 2017; 89:4994-5002. [DOI: 10.1021/acs.analchem.7b00319] [Citation(s) in RCA: 80] [Impact Index Per Article: 11.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Cong Tang
- College of Chemistry and
Life Science, Zhejiang Normal University, Jinhua 321004, People’s Public of China
| | - Hui Feng
- College of Chemistry and
Life Science, Zhejiang Normal University, Jinhua 321004, People’s Public of China
| | - Yuanyuan Huang
- College of Chemistry and
Life Science, Zhejiang Normal University, Jinhua 321004, People’s Public of China
| | - Zhaosheng Qian
- College of Chemistry and
Life Science, Zhejiang Normal University, Jinhua 321004, People’s Public of China
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14
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Chen C, Zhao D, Sun J, Yang X. Colorimetric Logic Gate for Pyrophosphate and Pyrophosphatase via Regulating the Catalytic Capability of Horseradish Peroxidase. ACS APPLIED MATERIALS & INTERFACES 2016; 8:29529-29535. [PMID: 27714993 DOI: 10.1021/acsami.6b10712] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
By regulating the catalytic capability of horseradish peroxidase (HRP), an artful colorimetric assay platform for pyrophosphate (PPi) and pyrophosphatase (PPase) was unprecedentedly designed. In this work, Cu(I), generated by reducing Cu(II) in the presence of ascorbate, could inhibit HRP's catalytic capability of transforming colorless 3,3',5,5'-tetramethylbenzidine (TMB) into blue oxidized TMB (oxTMB). The robust coordination between PPi and Cu(II) is able to discourage the reduction of Cu(II) to Cu(I) effectively, thus restoring the original catalytic capability of HRP and regenerating blue-colored oxTMB. Upon PPase introduction, PPi would be hydrolyzed into orthophosphate, which could release Cu(II) free from the Cu(II)-PPi complex, and thus in turn allows the catalytic capability of HRP to be inhibited by Cu(I). HRP was activated or deactivated to different degrees depending on PPi or PPase levels, which could be indicated by using HRP-triggered catalytic system as a signal amplifier, thus paving a way for PPi and PPase sensing. Based on the colorimetric sensor for PPi and PPase, an "INH" logic gate was rationally constructed. With the merits of high sensitivity and selectivity, cost-effectiveness, and simplification, our proposed analytical system has also been verified to have potential to be utilized for enzyme inhibitor screening and diagnosis of PPase-related diseases.
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Affiliation(s)
- Chuanxia Chen
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences , Changchun, Jilin 130022, China
- University of Chinese Academy of Sciences , Beijing 100049, China
| | - Dan Zhao
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences , Changchun, Jilin 130022, China
- University of Chinese Academy of Sciences , Beijing 100049, China
| | - Jian Sun
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences , Changchun, Jilin 130022, China
| | - Xiurong Yang
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences , Changchun, Jilin 130022, China
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15
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Deng HH, Wang FF, Shi XQ, Peng HP, Liu AL, Xia XH, Chen W. Water-soluble gold nanoclusters prepared by protein-ligand interaction as fluorescent probe for real-time assay of pyrophosphatase activity. Biosens Bioelectron 2016; 83:1-8. [DOI: 10.1016/j.bios.2016.04.031] [Citation(s) in RCA: 60] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2016] [Revised: 04/09/2016] [Accepted: 04/11/2016] [Indexed: 12/19/2022]
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16
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Zhou Q, Lin Y, Xu M, Gao Z, Yang H, Tang D. Facile Synthesis of Enhanced Fluorescent Gold–Silver Bimetallic Nanocluster and Its Application for Highly Sensitive Detection of Inorganic Pyrophosphatase Activity. Anal Chem 2016; 88:8886-92. [DOI: 10.1021/acs.analchem.6b02543] [Citation(s) in RCA: 153] [Impact Index Per Article: 19.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Qian Zhou
- Key Laboratory of Analysis and Detection for Food Safety (MOE & Fujian Province), Department of Chemistry, Fuzhou University, Fuzhou 350108, People’s Republic of China
| | - Youxiu Lin
- Key Laboratory of Analysis and Detection for Food Safety (MOE & Fujian Province), Department of Chemistry, Fuzhou University, Fuzhou 350108, People’s Republic of China
| | - Mingdi Xu
- Key Laboratory of Analysis and Detection for Food Safety (MOE & Fujian Province), Department of Chemistry, Fuzhou University, Fuzhou 350108, People’s Republic of China
| | - Zhuangqiang Gao
- Key Laboratory of Analysis and Detection for Food Safety (MOE & Fujian Province), Department of Chemistry, Fuzhou University, Fuzhou 350108, People’s Republic of China
| | - Huanghao Yang
- Key Laboratory of Analysis and Detection for Food Safety (MOE & Fujian Province), Department of Chemistry, Fuzhou University, Fuzhou 350108, People’s Republic of China
| | - Dianping Tang
- Key Laboratory of Analysis and Detection for Food Safety (MOE & Fujian Province), Department of Chemistry, Fuzhou University, Fuzhou 350108, People’s Republic of China
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17
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Zhu X, Liu J, Peng H, Jiang J, Yu R. A novel fluorescence assay for inorganic pyrophosphatase based on modulated aggregation of graphene quantum dots. Analyst 2016; 141:251-5. [DOI: 10.1039/c5an01937k] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
A simple and highly sensitive fluorometric method has been developed for inorganic pyrophosphatase (PPase) activity detection based on the disaggregation and aggregation of graphene quantum dots (GQDs).
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Affiliation(s)
- Xueli Zhu
- College of Chemistry and Chemical Engineering
- Hunan University
- State Key Laboratory for Chemo/Biosensing and Chemometrics
- Changsha
- China
| | - Jinwen Liu
- College of Chemistry and Chemical Engineering
- Hunan University
- State Key Laboratory for Chemo/Biosensing and Chemometrics
- Changsha
- China
| | - Haiyang Peng
- College of Chemistry and Chemical Engineering
- Hunan University
- State Key Laboratory for Chemo/Biosensing and Chemometrics
- Changsha
- China
| | - Jianhui Jiang
- College of Chemistry and Chemical Engineering
- Hunan University
- State Key Laboratory for Chemo/Biosensing and Chemometrics
- Changsha
- China
| | - Ruqin Yu
- College of Chemistry and Chemical Engineering
- Hunan University
- State Key Laboratory for Chemo/Biosensing and Chemometrics
- Changsha
- China
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18
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Xu K, Chen Z, Zhou L, Zheng O, Wu X, Guo L, Qiu B, Lin Z, Chen G. Fluorometric Method for Inorganic Pyrophosphatase Activity Detection and Inhibitor Screening Based on Click Chemistry. Anal Chem 2014; 87:816-20. [DOI: 10.1021/ac503958r] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Kefeng Xu
- Ministry of Education Key Laboratory
of Analysis and Detection for Food Safety, Fujian Provincial Key Laboratory
of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fujian 350116, China
| | - Zhonghui Chen
- Ministry of Education Key Laboratory
of Analysis and Detection for Food Safety, Fujian Provincial Key Laboratory
of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fujian 350116, China
| | - Ling Zhou
- Ministry of Education Key Laboratory
of Analysis and Detection for Food Safety, Fujian Provincial Key Laboratory
of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fujian 350116, China
| | - Ou Zheng
- Ministry of Education Key Laboratory
of Analysis and Detection for Food Safety, Fujian Provincial Key Laboratory
of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fujian 350116, China
| | - Xiaoping Wu
- Ministry of Education Key Laboratory
of Analysis and Detection for Food Safety, Fujian Provincial Key Laboratory
of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fujian 350116, China
| | - Longhua Guo
- Ministry of Education Key Laboratory
of Analysis and Detection for Food Safety, Fujian Provincial Key Laboratory
of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fujian 350116, China
| | - Bin Qiu
- Ministry of Education Key Laboratory
of Analysis and Detection for Food Safety, Fujian Provincial Key Laboratory
of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fujian 350116, China
| | - Zhenyu Lin
- Ministry of Education Key Laboratory
of Analysis and Detection for Food Safety, Fujian Provincial Key Laboratory
of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fujian 350116, China
| | - Guonan Chen
- Ministry of Education Key Laboratory
of Analysis and Detection for Food Safety, Fujian Provincial Key Laboratory
of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fujian 350116, China
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19
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Zhang L, Li M, Qin Y, Chu Z, Zhao S. A convenient label free colorimetric assay for pyrophosphatase activity based on a pyrophosphate-inhibited Cu2+–ABTS–H2O2reaction. Analyst 2014; 139:6298-303. [DOI: 10.1039/c4an01415d] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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20
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Sun J, Yang F, Zhao D, Yang X. Highly Sensitive Real-Time Assay of Inorganic Pyrophosphatase Activity Based on the Fluorescent Gold Nanoclusters. Anal Chem 2014; 86:7883-9. [DOI: 10.1021/ac501814u] [Citation(s) in RCA: 108] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
- Jian Sun
- State Key Laboratory
of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin 130022, China
| | - Fan Yang
- State Key Laboratory
of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin 130022, China
| | - Dan Zhao
- State Key Laboratory
of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin 130022, China
- University of Chinese Academy of Sciences, Beijing 100039, China
| | - Xiurong Yang
- State Key Laboratory
of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin 130022, China
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21
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Yoshioka A, Murata K, Kawai S. Structural and mutational analysis of amino acid residues involved in ATP specificity of Escherichia coli acetate kinase. J Biosci Bioeng 2014; 118:502-7. [PMID: 24856051 DOI: 10.1016/j.jbiosc.2014.04.014] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2014] [Revised: 04/21/2014] [Accepted: 04/21/2014] [Indexed: 11/30/2022]
Abstract
Acetate kinase (AK) generally utilizes ATP as a phosphoryl donor, but AK from Entamoeba histolytica (PPi-ehiAK) uses pyrophosphate (PPi), not ATP, and is PPi-specific. The determinants of the phosphoryl donor specificity are unknown. Here, we inferred 5 candidate amino acid residues associated with this specificity, based on structural information. Each candidate residue in Escherichia coli ATP-specific AK (ATP-ecoAK), which is unable to use PPi, was substituted with the respective PPi-ehiAK amino acid residue. Each variant ATP-ecoAK had an increased Km for ATP, indicating that the 5 residues are the determinants for the specificity to ATP in ATP-ecoAK. Moreover, Asn-337 of ATP-ecoAK was shown to be particularly significant for the specificity to ATP. The 5 residues are highly conserved in 2625 PPi-ehiAK homologs, implying that almost all organisms have ATP-dependent, rather than PPi-dependent, AK.
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Affiliation(s)
- Aya Yoshioka
- Laboratory of Basic and Applied Molecular Biotechnology, Division of Food Science and Biotechnology, Graduate School of Agriculture, Kyoto University, Uji, Kyoto 611-0011, Japan
| | - Kousaku Murata
- Laboratory of Basic and Applied Molecular Biotechnology, Division of Food Science and Biotechnology, Graduate School of Agriculture, Kyoto University, Uji, Kyoto 611-0011, Japan
| | - Shigeyuki Kawai
- Laboratory of Basic and Applied Molecular Biotechnology, Division of Food Science and Biotechnology, Graduate School of Agriculture, Kyoto University, Uji, Kyoto 611-0011, Japan.
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22
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Deng J, Jiang Q, Wang Y, Yang L, Yu P, Mao L. Real-Time Colorimetric Assay of Inorganic Pyrophosphatase Activity Based on Reversibly Competitive Coordination of Cu2+ between Cysteine and Pyrophosphate Ion. Anal Chem 2013; 85:9409-15. [DOI: 10.1021/ac402524e] [Citation(s) in RCA: 88] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Jingjing Deng
- Beijing
National Laboratory
for Molecular Sciences, Key Laboratory of Analytical Chemistry for
Living Biosystems, Institute of Chemistry, The Chinese Academy of Sciences, Beijing 100190, China
| | - Qin Jiang
- Beijing
National Laboratory
for Molecular Sciences, Key Laboratory of Analytical Chemistry for
Living Biosystems, Institute of Chemistry, The Chinese Academy of Sciences, Beijing 100190, China
| | - Yuexiang Wang
- Beijing
National Laboratory
for Molecular Sciences, Key Laboratory of Analytical Chemistry for
Living Biosystems, Institute of Chemistry, The Chinese Academy of Sciences, Beijing 100190, China
| | - Lifen Yang
- Beijing
National Laboratory
for Molecular Sciences, Key Laboratory of Analytical Chemistry for
Living Biosystems, Institute of Chemistry, The Chinese Academy of Sciences, Beijing 100190, China
| | - Ping Yu
- Beijing
National Laboratory
for Molecular Sciences, Key Laboratory of Analytical Chemistry for
Living Biosystems, Institute of Chemistry, The Chinese Academy of Sciences, Beijing 100190, China
| | - Lanqun Mao
- Beijing
National Laboratory
for Molecular Sciences, Key Laboratory of Analytical Chemistry for
Living Biosystems, Institute of Chemistry, The Chinese Academy of Sciences, Beijing 100190, China
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23
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Kiddle G, Hardinge P, Buttigieg N, Gandelman O, Pereira C, McElgunn CJ, Rizzoli M, Jackson R, Appleton N, Moore C, Tisi LC, Murray JAH. GMO detection using a bioluminescent real time reporter (BART) of loop mediated isothermal amplification (LAMP) suitable for field use. BMC Biotechnol 2012; 12:15. [PMID: 22546148 PMCID: PMC3388468 DOI: 10.1186/1472-6750-12-15] [Citation(s) in RCA: 93] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2011] [Accepted: 04/30/2012] [Indexed: 11/12/2022] Open
Abstract
Background There is an increasing need for quantitative technologies suitable for molecular detection in a variety of settings for applications including food traceability and monitoring of genetically modified (GM) crops and their products through the food processing chain. Conventional molecular diagnostics utilising real-time polymerase chain reaction (RT-PCR) and fluorescence-based determination of amplification require temperature cycling and relatively complex optics. In contrast, isothermal amplification coupled to a bioluminescent output produced in real-time (BART) occurs at a constant temperature and only requires a simple light detection and integration device. Results Loop mediated isothermal amplification (LAMP) shows robustness to sample-derived inhibitors. Here we show the applicability of coupled LAMP and BART reactions (LAMP-BART) for determination of genetically modified (GM) maize target DNA at low levels of contamination (0.1-5.0% GM) using certified reference material, and compare this to RT-PCR. Results show that conventional DNA extraction methods developed for PCR may not be optimal for LAMP-BART quantification. Additionally, we demonstrate that LAMP is more tolerant to plant sample-derived inhibitors, and show this can be exploited to develop rapid extraction techniques suitable for simple field-based qualitative tests for GM status determination. We also assess the effect of total DNA assay load on LAMP-BART quantitation. Conclusions LAMP-BART is an effective and sensitive technique for GM detection with significant potential for quantification even at low levels of contamination and in samples derived from crops such as maize with a large genome size. The resilience of LAMP-BART to acidic polysaccharides makes it well suited to rapid sample preparation techniques and hence to both high throughput laboratory settings and to portable GM detection applications. The impact of the plant sample matrix and genome loading within a reaction must be controlled to ensure quantification at low target concentrations.
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Affiliation(s)
- Guy Kiddle
- Lumora Ltd, Bartholomew Walk, Cambridgeshire Business Park, Ely, Cambridgeshire CB7 4EA, UK.
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24
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Leitão JM, Esteves da Silva JC. Firefly luciferase inhibition. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2010; 101:1-8. [DOI: 10.1016/j.jphotobiol.2010.06.015] [Citation(s) in RCA: 79] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/10/2010] [Revised: 06/09/2010] [Accepted: 06/29/2010] [Indexed: 01/25/2023]
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25
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Marques SM, Esteves da Silva JCG. Firefly bioluminescence: a mechanistic approach of luciferase catalyzed reactions. IUBMB Life 2009; 61:6-17. [PMID: 18949818 DOI: 10.1002/iub.134] [Citation(s) in RCA: 161] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Luciferase is a general term for enzymes catalyzing visible light emission by living organisms (bioluminescence). The studies carried out with Photinus pyralis (firefly) luciferase allowed the discovery of the reaction leading to light production. It can be regarded as a two-step process: the first corresponds to the reaction of luciferase's substrate, luciferin (LH(2)), with ATP-Mg(2+) generating inorganic pyrophosphate and an intermediate luciferyl-adenylate (LH(2)-AMP); the second is the oxidation and decarboxylation of LH(2)-AMP to oxyluciferin, the light emitter, producing CO(2), AMP, and photons of yellow-green light (550- 570 nm). In a dark reaction LH(2)-AMP is oxidized to dehydroluciferyl-adenylate (L-AMP). Luciferase also shows acyl-coenzyme A synthetase activity, which leads to the formation of dehydroluciferyl-coenzyme A (L-CoA), luciferyl-coenzyme A (LH(2)-CoA), and fatty acyl-CoAs. Moreover luciferase catalyzes the synthesis of dinucleoside polyphosphates from nucleosides with at least a 3'-phosphate chain plus an intact terminal pyrophosphate moiety. The LH(2) stereospecificity is a particular feature of the bioluminescent reaction where each isomer, D-LH(2) or L-LH(2), has a specific function. Practical applications of the luciferase system, either in its native form or with engineered proteins, encloses the analytical assay of metabolites like ATP and molecular biology studies with luc as a reporter gene, including the most recent and increasing field of bioimaging.
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Affiliation(s)
- Simone M Marques
- Centro de Investigação em Química (CIQ-UP), Department of Chemistry, Faculty of Sciences, University of Porto, Porto, Portugal
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26
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Fontes R, Fernandes D, Peralta F, Fraga H, Maio I, Esteves da Silva JCG. Pyrophosphate and tripolyphosphate affect firefly luciferase luminescence because they act as substrates and not as allosteric effectors. FEBS J 2008; 275:1500-1509. [PMID: 18279384 DOI: 10.1111/j.1742-4658.2008.06309.x] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The activating and stabilizing effects of inorganic pyrophosphate, tripolyphosphate and nucleoside triphosphates on firefly luciferase bioluminescence were studied. The results obtained show that those effects are a consequence of the luciferase-catalyzed splitting of dehydroluciferyl-adenylate, a powerful inhibitor formed as a side product in the course of the bioluminescence reaction. Inorganic pyrophosphate, tripolyphosphate, CTP and UTP antagonize the inhibitory effect of dehydroluciferyl-adenylate because they react with it giving rise to products that are, at least, less powerful inhibitors. Moreover, we demonstrate that the antagonizing effects depended on the rate of the splitting reactions being higher in the cases of inorganic pyrophosphate and tripolyphosphate and lower in the cases of CTP and UTP. In the case of inorganic pyrophosphate, the correlation between the rate of dehydroluciferyl-adenylate pyrophosphorolysis and the activating effect on bioluminescence only occurs for low concentrations because inorganic pyrophosphate is, simultaneously, an inhibitor of the bioluminescence reaction. Our results demonstrate that previous reports concerning the activating effects of several nucleotides (including some that do not react with dehydroluciferyl-adenylate) on bioluminescence were caused by the presence of inorganic pyrophosphate contamination in the preparations used.
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Affiliation(s)
- Rui Fontes
- Serviço de Bioquímica (U38-FCT), Faculdade de Medicina da Universidade do Porto, Portugal
| | - Diogo Fernandes
- Serviço de Bioquímica (U38-FCT), Faculdade de Medicina da Universidade do Porto, Portugal., Departamento de Química, Faculdade de Ciências da Universidade do Porto, Centro de Investigação em Química (UP), Portugal
| | - Filipe Peralta
- Departamento de Química, Faculdade de Ciências da Universidade do Porto, Centro de Investigação em Química (UP), Portugal
| | - Hugo Fraga
- Departamento de Química, Faculdade de Ciências da Universidade do Porto, Centro de Investigação em Química (UP), Portugal
| | - Inês Maio
- Serviço de Bioquímica (U38-FCT), Faculdade de Medicina da Universidade do Porto, Portugal
| | - Joaquim C G Esteves da Silva
- Departamento de Química, Faculdade de Ciências da Universidade do Porto, Centro de Investigação em Química (UP), Portugal
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27
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Hampf M, Gossen M. A protocol for combined Photinus and Renilla luciferase quantification compatible with protein assays. Anal Biochem 2006; 356:94-9. [PMID: 16750160 DOI: 10.1016/j.ab.2006.04.046] [Citation(s) in RCA: 87] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2006] [Revised: 04/21/2006] [Accepted: 04/24/2006] [Indexed: 11/20/2022]
Abstract
We established a quantitative reporter gene protocol, the P/Rluc assay system, allowing the sequential measurement of Photinus and Renilla luciferase activities from the same extract. Other than comparable commercial reporter assay systems and their noncommercial counterparts, the P/Rluc assay system was formulated under the aspect of full compatibility with standard methods for protein assays. This feature greatly expands the range of applications for assay systems quantifying the expression of multiple luciferase reporters.
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Affiliation(s)
- Mathias Hampf
- Max Delbrück Center for Molecular Medicine, 13125 Berlin, Germany
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28
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Nakamura H, Yamazaki R, Shirai T, Sano H, Nakami Y, Ikebukuro K, Yano K, Nomura Y, Arikawa Y, Hasebe Y, Masuda Y, Karube I. Development of an enzymatic flow-injection chemiluminescence system for determining inorganic pyrophosphate ion. Anal Chim Acta 2004. [DOI: 10.1016/j.aca.2004.05.057] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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29
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Spokas EG, Spur BW. Rapid measurement of low levels of sodium, potassium-ATPase activity by ascorbic acid reduction without strong acid. Anal Biochem 2001; 299:112-6. [PMID: 11726193 DOI: 10.1006/abio.2001.5407] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Affiliation(s)
- E G Spokas
- Department of Cell Biology, University of Medicine and Dentistry of New Jersey, School of Osteopathic Medicine, Stratford, New Jersey 08084, USA
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