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Murali A, Panwar U, Singh SK. Exploring the Role of Chemoinformatics in Accelerating Drug Discovery: A Computational Approach. Methods Mol Biol 2024; 2714:203-213. [PMID: 37676601 DOI: 10.1007/978-1-0716-3441-7_12] [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] [Indexed: 09/08/2023]
Abstract
Cheminformatics and its role in drug discovery is expected to be the privileged approach in handling large number of chemical datasets. This approach contributes toward the pharmaceutical development and assessment of chemical compounds at a faster rate efficiently. Additionally, as technological advancement impacts research, cheminformatics is being used more and more in the field of health science. This chapter describes the concepts of cheminformatics along with its involvement in drug discovery with a case study.
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Affiliation(s)
- Aarthy Murali
- Computer Aided Drug Design and Molecular Modelling Lab, Department of Bioinformatics, Science Block, Alagappa University, Karaikudi, Tamil Nadu, India
| | - Umesh Panwar
- Computer Aided Drug Design and Molecular Modelling Lab, Department of Bioinformatics, Science Block, Alagappa University, Karaikudi, Tamil Nadu, India
| | - Sanjeev Kumar Singh
- Computer Aided Drug Design and Molecular Modelling Lab, Department of Bioinformatics, Science Block, Alagappa University, Karaikudi, Tamil Nadu, India
- Department of Data Sciences, Centre of Biomedical Research, SGPGIMS Campus, Lucknow, Uttar Pradesh, India
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Hu X, Yuan X, Yang M, Han M, Ommati MM, Ma Y. Arsenic exposure induced anxiety-like behaviors in male mice via influencing the GABAergic Signaling in the prefrontal cortex. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:86352-86364. [PMID: 37402917 DOI: 10.1007/s11356-023-28426-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/27/2022] [Accepted: 06/21/2023] [Indexed: 07/06/2023]
Abstract
Arsenic contamination in drinking water causes a global public health problem. Emerging evidence suggests that arsenic may act as an environmental risk factor for anxiety disorders. However, the exact mechanism underlying the adverse effects has not been fully elucidated. This study aimed to evaluate the anxiety-like behaviors of mice exposed to arsenic trioxide (As2O3), to observe the neuropathological changes, and to explore the link between the GABAergic system and behavioral manifestations. For this purpose, male C57BL/6 mice were exposed to various doses of As2O3 (0, 0.15, 1.5, and 15 mg/L) through drinking water for 12 weeks. Anxiety-like behaviors were assessed using the open field test (OFT), light/dark choice test, and elevated zero maze (EZM). Neuronal injuries in the cerebral cortex and hippocampus were assessed by light microscopy with H&E and Nissl staining. Ultrastructural alteration in the cerebral cortex was assessed by transmission electron microscope (TEM). The expression levels of GABAergic system-related molecules (i.e., glutamate decarboxylase, GABA transporter, and GABAB receptor subunits) in the prefrontal cortex (PFC) were determined by qRT-PCR and western blotting. Arsenic exposure showed a striking anxiogenic effect on mice, especially in the group exposed to 15 mg/L As2O3. Light microscopy showed neuron necrosis and reduced cell counts. TEM revealed marked ultrastructural changes, including the vacuolated mitochondria, disrupted Nissl bodies, an indentation in the nucleus membrane, and delamination of myelin sheath in the cortex. In addition, As2O3 influenced the GABAergic system in the PFC by decreasing the expression of the glutamate decarboxylase 1 (GAD1) and the GABAB2 receptor subunit, but not the GABAB1 receptor subunit. To sum up, sub-chronic exposure to As2O3 is associated with increased anxiety-like behaviors, which may be mediated by altered GABAergic signaling in the PFC. These findings shed light on the mechanisms responsible for the neurotoxic effects of arsenic and therefore more cautions should be taken.
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Affiliation(s)
- Xin Hu
- College of Life Sciences, Shanxi Agricultural University, Taigu, 030801, Shanxi, China
| | - Xiaohong Yuan
- College of Life Sciences, Shanxi Agricultural University, Taigu, 030801, Shanxi, China
| | - Mingyu Yang
- College of Life Sciences, Shanxi Agricultural University, Taigu, 030801, Shanxi, China
| | - Mingsheng Han
- College of Life Sciences, Shanxi Agricultural University, Taigu, 030801, Shanxi, China
| | - Mohammad Mehdi Ommati
- College of Life Sciences, Shanxi Agricultural University, Taigu, 030801, Shanxi, China
| | - Yanqin Ma
- College of Life Sciences, Shanxi Agricultural University, Taigu, 030801, Shanxi, China.
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Mareş C, Udrea AM, Şuţan NA, Avram S. Bioinformatics Tools for the Analysis of Active Compounds Identified in Ranunculaceae Species. Pharmaceuticals (Basel) 2023; 16:842. [PMID: 37375790 DOI: 10.3390/ph16060842] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2023] [Revised: 05/30/2023] [Accepted: 05/31/2023] [Indexed: 06/29/2023] Open
Abstract
The chemical compounds from extracts of three Ranunculaceae species, Aconitum toxicum Rchb., Anemone nemorosa L. and Helleborus odorus Waldst. & Kit. ex Willd., respectively, were isolated using the HPLC purification technique and analyzed from a bioinformatics point of view. The classes of compounds identified based on the proportion in the rhizomes/leaves/flowers used for microwave-assisted extraction and ultrasound-assisted extraction were alkaloids and phenols. Here, the quantifying of pharmacokinetics, pharmacogenomics and pharmacodynamics helps us to identify the actual biologically active compounds. Our results showed that (i) pharmacokinetically, the compounds show good absorption at the intestinal level and high permeability at the level of the central nervous system for alkaloids; (ii) regarding pharmacogenomics, alkaloids can influence tumor sensitivity and the effectiveness of some treatments; (iii) and pharmacodynamically, the compounds of these Ranunculaceae species bind to carbonic anhydrase and aldose reductase. The results obtained showed a high affinity of the compounds in the binding solution at the level of carbonic anhydrases. Carbonic anhydrase inhibitors extracted from natural sources can represent the path to new drugs useful both in the treatment of glaucoma, but also of some renal, neurological and even neoplastic diseases. The identification of natural compounds with the role of inhibitors can have a role in different types of pathologies, both associated with studied and known receptors such as carbonic anhydrase and aldose reductase, as well as new pathologies not yet addressed.
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Affiliation(s)
- Cătălina Mareş
- Department of Anatomy, Animal Physiology and Biophysics, University of Bucharest, 91-95 Splaiul Independentei, 050095 Bucharest, Romania
| | - Ana-Maria Udrea
- Laser Department, National Institute for Laser, Plasma and Radiation Physics, Atomistilor 409, 077125 Magurele, Romania
- Research Institute of the University of Bucharest-ICUB, University of Bucharest, 91-95 Splaiul Independentei, 050095 Bucharest, Romania
| | - Nicoleta Anca Şuţan
- Department of Natural Sciences, University of Piteşti, 1 Targul din Vale Str., 110040 Pitesti, Romania
| | - Speranţa Avram
- Department of Anatomy, Animal Physiology and Biophysics, University of Bucharest, 91-95 Splaiul Independentei, 050095 Bucharest, Romania
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Guo L, Lei R, Zhang TC, Du D, Zhan W. Insight into the role and mechanism of polysaccharide in polymorphous magnesium oxide nanoparticle synthesis for arsenate removal. CHEMOSPHERE 2022; 296:133878. [PMID: 35131268 DOI: 10.1016/j.chemosphere.2022.133878] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/12/2021] [Revised: 12/23/2021] [Accepted: 02/02/2022] [Indexed: 06/14/2023]
Abstract
The low cost and non-toxic of magnesium oxides make it a potential eco-friendly material for arsenic removal. Polysaccharide is a kind of green modifier to obtain nanoscale MgO particles with a higher adsorption affinity. In this study, the impact of chain structures of polysaccharides on the morphology features and arsenate removal efficiency of MgO-NPs were investigated. Pullulan and starch facilitated the synthesis of flower-like MgO-NPs, and pectin facilitated the synthesis of plate-like ones. Although the two kinds of flower-like MgO-NPs undergone similar time to reach equilibrium, the one obtained from the starch-synthesis route showed a higher arsenate adsorption capacity (98 mg g-1), due to that their bushy and smaller petals on the surface provide more active sites for arsenic adsorption. The pectin-synthesis route also produced MgO-NPs with higher arsenate adsorption capacity (101 mg g-1), ascribed to stacking of nano-plates on their surfaces facilitated to form defect surfaces. However, due to their lower BET area, the plate-like MgO-NPs took twice times to reach equilibrium for arsenic adsorption compared with the others. In the stage for the hydrolysis of MgO, hydroxyl groups on the polymer chain provide active sites to physically trap or bond with MgO particles and then to produce hydrolyzed precursors. The poly chain containing inter- and intra-hydroxyl groups directed MgO molecular growing into hydroxide crystals with 3D frameworks during their nucleation and growth. However, pectin only provides inter-hydroxyl groups and directs to form hydroxides with 2D frameworks. Furthermore, the rapid-nucleation vs. slow-growth model in the stage of pyrolysis of hydroxide crystals successfully interprets the thinner petals and complex chemical phases of the final nanoparticles obtained from the pullulan-synthesis route. This work may provide direction and perspectives for the rational design of well-performing MgO materials for arsenate removal.
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Affiliation(s)
- Li Guo
- Key Laboratory of Catalysis Conversion and Energy Materials, Ministry of Education, South-Central University for Nationalities, Wuhan, 430074, China; Engineering Research Center for Heavy Metal Pollution Control of Hubei Province, College of Resources and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, China
| | - Runlong Lei
- Key Laboratory of Catalysis Conversion and Energy Materials, Ministry of Education, South-Central University for Nationalities, Wuhan, 430074, China; Engineering Research Center for Heavy Metal Pollution Control of Hubei Province, College of Resources and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, China
| | - Tian C Zhang
- Civil & Environmental Engineering Department, College of Engineering, University of Nebraska-Lincoln, Omaha, NE, 68182, USA
| | - Dongyun Du
- Key Laboratory of Catalysis Conversion and Energy Materials, Ministry of Education, South-Central University for Nationalities, Wuhan, 430074, China; Engineering Research Center for Heavy Metal Pollution Control of Hubei Province, College of Resources and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, China
| | - Wei Zhan
- Key Laboratory of Catalysis Conversion and Energy Materials, Ministry of Education, South-Central University for Nationalities, Wuhan, 430074, China; Engineering Research Center for Heavy Metal Pollution Control of Hubei Province, College of Resources and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, China.
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Ren Z, Deng H, Wu Q, Jia G, Wen N, Deng Y, Zhu L, Zuo Z, Deng J. Effect of Selenium on Brain Injury in Chickens with Subacute Arsenic Poisoning. Biol Trace Elem Res 2022; 200:330-338. [PMID: 33594525 DOI: 10.1007/s12011-021-02630-4] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 01/02/2021] [Accepted: 02/07/2021] [Indexed: 12/15/2022]
Abstract
The aim of this study was to investigate the effects of different doses of selenium (Se) on oxidative damage and neurotransmitter-related parameters in arsenic (As)-induced broiler brain tissue damage. Two hundred 1-day-old avian broilers were randomly divided into five groups and fed the following diets: control group (As 0.1 mg/kg + Se 0.2 mg/kg), As group (As 3 mg/kg + Se 0.2 mg/kg), low-Se group (As 3 mg/kg + Se 5 mg/kg), medium-Se group (As 3 mg/kg + Se 10 mg/kg), and high-Se group (As 3 mg/kg + Se 15 mg/kg). Glutathione (GSH), glutathione peroxidase (GSH-PX), nitric oxide (NO), nitric oxide synthase (NOS) activity, glutamate (Glu) concentration, glutamine synthetase (GS) activity, acetylcholinesterase (TchE) activity, and the apoptosis rate of brain cells were measured. The results showed that 3 mg/kg dietary As could induce oxidative damage and neurotransmitter disorder of brain tissue, increase the apoptosis rate of brain cells and cause damage to brain tissue, decrease activities of GSH and GSH-PX, decrease the contents of NO, decrease the activities of iNOS and tNOS, increase contents of Glu, and decrease activities of Gs and TchE. Compared with the As group, the Se addition of the low-Se and medium-Se groups protected against As-induced oxidative damage, neurotransmitter disorders, and the apoptosis rate of brain cells, with the addition of 10 mg/kg Se having the best effect. However, 15 mg/kg Se not only did not produce a protective effect against As damage but actually caused similar or severe damage.
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Affiliation(s)
- Zhihua Ren
- College of Veterinary Medicine, Sichuan Agricultural University, Ya'an, 625014, China
- Sichuan Province Key Laboratory of Animal Disease & Human Health, Ya'an, 625014, China
- Key Laboratory of Environmental Hazard and Human Health of Sichuan Province, Ya'an, 625014, China
| | - Huidan Deng
- College of Veterinary Medicine, Sichuan Agricultural University, Ya'an, 625014, China
- Sichuan Province Key Laboratory of Animal Disease & Human Health, Ya'an, 625014, China
- Key Laboratory of Environmental Hazard and Human Health of Sichuan Province, Ya'an, 625014, China
| | - Qiang Wu
- Leshan City, Shizhong District of Animal Husbandry Bureau, Leshan, 614000, China
| | - Guilin Jia
- College of Veterinary Medicine, Sichuan Agricultural University, Ya'an, 625014, China
- Sichuan Province Key Laboratory of Animal Disease & Human Health, Ya'an, 625014, China
- Key Laboratory of Environmental Hazard and Human Health of Sichuan Province, Ya'an, 625014, China
| | - Niao Wen
- Leshan City, Shizhong District of Animal Husbandry Bureau, Leshan, 614000, China
| | - Youtian Deng
- College of Veterinary Medicine, Sichuan Agricultural University, Ya'an, 625014, China
- Sichuan Province Key Laboratory of Animal Disease & Human Health, Ya'an, 625014, China
- Key Laboratory of Environmental Hazard and Human Health of Sichuan Province, Ya'an, 625014, China
| | - Ling Zhu
- College of Veterinary Medicine, Sichuan Agricultural University, Ya'an, 625014, China
- Sichuan Province Key Laboratory of Animal Disease & Human Health, Ya'an, 625014, China
- Key Laboratory of Environmental Hazard and Human Health of Sichuan Province, Ya'an, 625014, China
| | - Zhicai Zuo
- College of Veterinary Medicine, Sichuan Agricultural University, Ya'an, 625014, China
- Sichuan Province Key Laboratory of Animal Disease & Human Health, Ya'an, 625014, China
- Key Laboratory of Environmental Hazard and Human Health of Sichuan Province, Ya'an, 625014, China
| | - Junliang Deng
- College of Veterinary Medicine, Sichuan Agricultural University, Ya'an, 625014, China.
- Sichuan Province Key Laboratory of Animal Disease & Human Health, Ya'an, 625014, China.
- Key Laboratory of Environmental Hazard and Human Health of Sichuan Province, Ya'an, 625014, China.
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Avram S, Udrea AM, Nuta DC, Limban C, Balea AC, Caproiu MT, Dumitrascu F, Buiu C, Bordei AT. Synthesis and Bioinformatic Characterization of New Schiff Bases with Possible Applicability in Brain Disorders. Molecules 2021; 26:molecules26144160. [PMID: 34299440 PMCID: PMC8307098 DOI: 10.3390/molecules26144160] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2021] [Revised: 07/02/2021] [Accepted: 07/06/2021] [Indexed: 01/11/2023] Open
Abstract
(1) Background: The research aims to find new treatments for neurodegenerative diseases, in particular, Alzheimer’s disease. (2) Methods: This article presents a bioinformatics and pathology study of new Schiff bases, (EZ)-N′-benzylidene-(2RS)-2-(6-chloro-9H-carbazol-2-yl)propanehydrazide derivatives, and aims to evaluate the drug-like, pharmacokinetic, pharmacodynamic and pharmacogenomic properties, as well as to predict the binding to therapeutic targets by applying bioinformatics, cheminformatics and computational pharmacological methods. (3) Results: We obtained these Schiff bases by condensing (2RS)-2-(6-chloro-9H-carbazol-2-yl)propanehydrazide with aromatic aldehydes, using the advantages of microwave irradiation. The newly synthesized compounds were characterized spectrally, using FT-IR and NMR spectroscopy, which confirmed their structure. Using bioinformatics tools, we noticed that all new compounds are drug-likeness features and may be proposed as potentially neuropsychiatric drugs (4) Conclusions: Using bioinformatics tools, we determined that the new compound 1e had a high potential to be used as a good candidate in neurodegenerative disorders treatment.
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Affiliation(s)
- Speranta Avram
- Department of Anatomy, Animal Physiology, and Biophysics, Faculty of Biology, University of Bucharest, 36-46 M. Kogălniceanu Boulevard, 050107 Bucharest, Romania
| | - Ana Maria Udrea
- National Institute of Laser, Plasma and Radiation Physics, 409 Atomistilor Str., 077125 Magurele, Romania
| | - Diana Camelia Nuta
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, "Carol Davila" University of Medicine and Pharmacy, 6 Traian Vuia Street, 020956 Bucharest, Romania
| | - Carmen Limban
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, "Carol Davila" University of Medicine and Pharmacy, 6 Traian Vuia Street, 020956 Bucharest, Romania
| | - Adrian Cosmin Balea
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, "Carol Davila" University of Medicine and Pharmacy, 6 Traian Vuia Street, 020956 Bucharest, Romania
| | - Miron Teodor Caproiu
- The Organic Chemistry Center of Romanian Academy "C. D. Neniţescu", Splaiul Independenţei 202B, 060023 Bucharest, Romania
| | - Florea Dumitrascu
- The Organic Chemistry Center of Romanian Academy "C. D. Neniţescu", Splaiul Independenţei 202B, 060023 Bucharest, Romania
| | - Cătălin Buiu
- Department of Automatic Control and Systems Engineering, Politehnica University of Bucharest, Spl. Independenţei 313, 060042 Bucharest, Romania
| | - Alexandra Teodora Bordei
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, "Carol Davila" University of Medicine and Pharmacy, 6 Traian Vuia Street, 020956 Bucharest, Romania
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Li YH, Wei X, Liu X, Zhang XP, Shu Y, Wang JH. Imaging vicinal dithiol of arsenic-binding proteins in the mouse brain with amplification by gold nanocluster Au 22(GSH) 18. Chem Commun (Camb) 2021; 57:3103-3106. [PMID: 33626127 DOI: 10.1039/d1cc00463h] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Abstract
A quantitative imaging strategy for the vicinal dithiol (VD) of arsenic-binding proteins in the mouse brain is reported. 2-p-Aminophenyl-1,3,2-dithiarsenolane (PAO-EDT) couples to gold nanoclusters Au22(GSH)18 to form conjugate Au22-PAO-EDT (APE). PAO-EDT in APE selectively binds VD with 1 : 1 stoichiometry. After tagging the mouse brain with APE, VD imaging is realized by laser ablation ICP-MS. VD correlates linearly with 197Au in APE offering a 22-fold amplification and a LOD of 5.43 nM. It is found that the cerebral cortex and hippocampus are most affected in an arsenic poisoned mouse brain. This study provides useful information for further understanding the mechanisms underlying the biological effects of arsenic on the living body.
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Affiliation(s)
- Yin-Hao Li
- Research Center for Analytical Sciences, Department of Chemistry, Northeastern University, Box 332, Shenyang 110819, China.
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